Skip to main content

Program Publications

Publications Search by Program

Search Result

The search results on this publication page are automated on a monthly schedule based on acknowledgement of NIH Common Fund award numbers and intramural awards. Therefore, this list is not an exhaustive or error-free account of the program’s publications.

Title Authors Journal PubMedID Publication Date
Race/ethnicity, gender, and monitoring socioeconomic gradients in health: a comparison of area-based socioeconomic measures--the public health disparities geocoding project. Krieger, Nancy; Chen, Jarvis T; Waterman, Pamela D; Rehkopf, David H; Subramanian, S V American journal of public health. 14534218 2003 Oct;
Painting a truer picture of US socioeconomic and racial/ethnic health inequalities: the Public Health Disparities Geocoding Project. Krieger, Nancy; Chen, Jarvis T; Waterman, Pamela D; Rehkopf, David H; Subramanian, S V American journal of public health 15671470 2005 Feb
Lysine propionylation and butyrylation are novel post-translational modifications in histones. Chen, Yue; Sprung, Robert; Tang, Yi; Ball, Haydn; Sangras, Bhavani; Kim, Sung Chan; Falck, John R; Peng, Junmin; Gu, Wei; Zhao, Yingming Molecular & cellular proteomics : MCP 17267393 2007 May
Age-at-onset linkage analysis in Caribbean Hispanics with familial late-onset Alzheimer's disease. Lee, Joseph H; Barral, Sandra; Cheng, Rong; Chacon, Inara; Santana, Vincent; Williamson, Jennifer; Lantigua, Rafael; Medrano, Martin; Jimenez-Velazquez, Ivonne Z; Stern, Yaakov; Tycko, Benjamin; Rogaeva, Ekaterina; Wakutani, Yosuke; Kawarai, Toshitaka; St George-Hyslop, Peter; Mayeux, Richard Neurogenetics. 17940814 2008 Feb;
Tubal and ovarian pathways to pelvic epithelial cancer: a pathological perspective. Jarboe, E A; Folkins, A K; Drapkin, R; Ince, T A; Agoston, E S; Crum, C P Histopathology 18298580 2008 Aug
Changes in the distributions and dynamics of polycomb repressive complexes during embryonic stem cell differentiation. Ren, Xiaojun; Vincenz, Claudius; Kerppola, Tom K Molecular and cellular biology 18316406 2008 May
Epigenomic profiling reveals DNA-methylation changes associated with major psychosis. Mill, Jonathan; Tang, Thomas; Kaminsky, Zachary; Khare, Tarang; Yazdanpanah, Simin; Bouchard, Luigi; Jia, Peixin; Assadzadeh, Abbas; Flanagan, James; Schumacher, Axel; Wang, Sun-Chong; Petronis, Arturas American journal of human genetics 18319075 2008 Mar
The role of osteopontin in the development of albuminuria. Lorenzen, Johan; Shah, Rajshree; Biser, Alisha; Staicu, Serban A; Niranjan, Thiruvur; Garcia, Ana Maria; Gruenwald, Antje; Thomas, David B; Shatat, Ibrahim F; Supe, Katarine; Woroniecki, Robert P; Susztak, Katalin Journal of the American Society of Nephrology : JASN. 18443355 2008 May;
Acetylation is indispensable for p53 activation. Tang, Yi; Zhao, Wenhui; Chen, Yue; Zhao, Yingming; Gu, Wei Cell 18485870 2008 May 16
Smad1 as a biomarker for diabetic nephropathy. Kato, Hideki; Si, Han; Hostetter, Thomas; Susztak, Katalin Diabetes. 18511448 2008 Jun;
Identification and verification of lysine propionylation and butyrylation in yeast core histones using PTMap software. Zhang, Kai; Chen, Yue; Zhang, Zhihong; Zhao, Yingming Journal of proteome research 19113941 2009 Feb
Epigenetic changes in Alzheimer's disease: decrements in DNA methylation. Mastroeni, Diego; Grover, Andrew; Delvaux, Elaine; Whiteside, Charisse; Coleman, Paul D; Rogers, Joseph Neurobiology of aging 19117641 2010 Dec
Next is now: new technologies for sequencing of genomes, transcriptomes, and beyond. Lister, Ryan; Gregory, Brian D; Ecker, Joseph R Current opinion in plant biology 19157957 2009 Apr
Seed in soil, with an epigenetic view. Lin, Huey-Jen L; Zuo, Tao; Chao, Jennifer R; Peng, Zhengang; Asamoto, Lisa K; Yamashita, Sonya S; Huang, Tim H-M Biochimica et biophysica acta 19162126 2009 Sep
Human and murine kidneys show gender- and species-specific gene expression differences in response to injury. Si, Han; Banga, Ramandeep S; Kapitsinou, Pinelopi; Ramaiah, Manjunath; Lawrence, Janis; Kambhampati, Ganesh; Gruenwald, Antje; Bottinger, Erwin; Glicklich, Daniel; Tellis, Vivian; Greenstein, Stuart; Thomas, David B; Pullman, James; Fazzari, Melissa; Susztak, Katalin PloS one. 19277126 2009;
The importance of being tyrosine: lessons in molecular recognition from minimalist synthetic binding proteins. Koide, Shohei; Sidhu, Sachdev S ACS chemical biology 19298050 2009 May 15
Targeted bisulfite sequencing reveals changes in DNA methylation associated with nuclear reprogramming. Deng, Jie; Shoemaker, Robert; Xie, Bin; Gore, Athurva; LeProust, Emily M; Antosiewicz-Bourget, Jessica; Egli, Dieter; Maherali, Nimet; Park, In-Hyun; Yu, Junying; Daley, George Q; Eggan, Kevin; Hochedlinger, Konrad; Thomson, James; Wang, Wei; Gao, Yuan; Z Nature biotechnology 19330000 2009 Apr
Mascot-derived false positive peptide identifications revealed by manual analysis of tandem mass spectra. Chen, Yue; Zhang, Junmei; Xing, Gang; Zhao, Yingming Journal of proteome research 19368407 2009 Jun
K12-biotinylated histone H4 is enriched in telomeric repeats from human lung IMR-90 fibroblasts. Wijeratne, Subhashinee S K; Camporeale, Gabriela; Zempleni, Janos The Journal of nutritional biochemistry 19369050 2010 Apr
Epigenetic alterations in the breast: Implications for breast cancer detection, prognosis and treatment. Dworkin, Amy M; Huang, Tim H-M; Toland, Amanda Ewart Seminars in cancer biology 19429480 2009 Jun
The ankyrin repeat domain of Huntingtin interacting protein 14 contains a surface aromatic cage, a potential site for methyl-lysine binding. Gao, Tiyu; Collins, Robert E; Horton, John R; Zhang, Xing; Zhang, Rongguang; Dhayalan, Arunkumar; Tamas, Raluca; Jeltsch, Albert; Cheng, Xiaodong Proteins 19434754 2009 Aug 15
A multicenter, double-blinded validation study of methylation biomarkers for progression prediction in Barrett's esophagus. Jin, Zhe; Cheng, Yulan; Gu, Wen; Zheng, Yingye; Sato, Fumiaki; Mori, Yuriko; Olaru, Alexandru V; Paun, Bogdan C; Yang, Jian; Kan, Takatsugu; Ito, Tetsuo; Hamilton, James P; Selaru, Florin M; Agarwal, Rachana; David, Stefan; Abraham, John M; Wolfsen, Herbe Cancer research 19435894 2009 May 15
High-throughput bisulfite sequencing in mammalian genomes. Smith, Zachary D; Gu, Hongcang; Bock, Christoph; Gnirke, Andreas; Meissner, Alexander Methods (San Diego, Calif.) 19442738 2009 Jul
Engineering of recombinant crystallization chaperones. Koide, Shohei Current opinion in structural biology 19477632 2009 Aug
Intra-tumor heterogeneity of MLH1 promoter methylation revealed by deep single molecule bisulfite sequencing. Varley, Katherine E; Mutch, David G; Edmonston, Tina B; Goodfellow, Paul J; Mitra, Robi D Nucleic acids research 19494183 2009 Aug
Xenoestrogen-induced epigenetic repression of microRNA-9-3 in breast epithelial cells. Hsu, Pei-Yin; Deatherage, Daniel E; Rodriguez, Benjamin A T; Liyanarachchi, Sandya; Weng, Yu-I; Zuo, Tao; Liu, Joseph; Cheng, Alfred S L; Huang, Tim H-M Cancer research 19549897 2009 Jul 15
A noncanonical bromodomain in the AAA ATPase protein Yta7 directs chromosomal positioning and barrier chromatin activity. Gradolatto, Angeline; Smart, Sherri K; Byrum, Stephanie; Blair, Lauren P; Rogers, Richard S; Kolar, Elizabeth A; Lavender, Heather; Larson, Signe K; Aitchison, John D; Taverna, Sean D; Tackett, Alan J Molecular and cellular biology 19581291 2009 Sep
RAG: a recombinase diversified. Matthews, Adam G W; Oettinger, Marjorie A Nature immunology. 19621044 2009 Aug;
Mapping the local protein interactome of the NuA3 histone acetyltransferase. Smart, Sherri K; Mackintosh, Samuel G; Edmondson, Ricky D; Taverna, Sean D; Tackett, Alan J Protein science : a publication of the Protein Society 19621382 2009 Sep
BSMAP: whole genome bisulfite sequence MAPping program. Xi, Yuanxin; Li, Wei BMC bioinformatics 19635165 2009
Structural basis for exquisite specificity of affinity clamps, synthetic binding proteins generated through directed domain-interface evolution. Huang, Jin; Makabe, Koki; Biancalana, Matthew; Koide, Akiko; Koide, Shohei Journal of molecular biology 19646997 2009 Oct 9
Epigenetic events in gastrointestinal cancer. Selaru, Florin M; David, Stefan; Meltzer, Stephen J; Hamilton, James P The American journal of gastroenterology 19661933 2009 Aug
Chromosomal abnormalities and novel disease-related regions in progression from Barrett's esophagus to esophageal adenocarcinoma. Akagi, Tadayuki; Ito, Tetsuo; Kato, Motohiro; Jin, Zhe; Cheng, Yulan; Kan, Takatsugu; Yamamoto, Go; Olaru, Alexandru; Kawamata, Norihiko; Boult, Jessica; Soukiasian, Harmik J; Miller, Carl W; Ogawa, Seishi; Meltzer, Stephen J; Koeffler, H Phillip International journal of cancer. Journal international du cancer 19670330 2009 Nov 15
Epigenetic differences in cortical neurons from a pair of monozygotic twins discordant for Alzheimer's disease. Mastroeni, Diego; McKee, Ann; Grover, Andrew; Rogers, Joseph; Coleman, Paul D PloS one 19672297 2009
Generation of new protein functions by nonhomologous combinations and rearrangements of domains and modules. Koide, Shohei Current opinion in biotechnology 19700302 2009 Aug
Global H4 acetylation analysis by ChIP-chip in systemic lupus erythematosus monocytes. Zhang, Z; Song, L; Maurer, K; Petri, M A; Sullivan, K E Genes and immunity 19710693 2010 Mar
Viral-encoded enzymes that target host chromatin functions. Wei H, Zhou MM. Biochim Biophys Acta 19716451 2010 Mar-Apr
Updates to the RMAP short-read mapping software. Smith, Andrew D; Chung, Wen-Yu; Hodges, Emily; Kendall, Jude; Hannon, Greg; Hicks, James; Xuan, Zhenyu; Zhang, Michael Q Bioinformatics (Oxford, England) 19736251 2009 Nov 1
Methylated DNA immunoprecipitation and microarray-based analysis: detection of DNA methylation in breast cancer cell lines. Weng, Yu-I; Huang, Tim H-M; Yan, Pearlly S Methods in molecular biology (Clifton, N.J.) 19763503 2009
HRTBLDb: an informative data resource for hormone receptors target binding loci. Kennedy, Brian A; Gao, Wenqing; Huang, Tim H-M; Jin, Victor X Nucleic acids research 19773424 2010 Jan
Epithelial-mesenchymal transition and podocyte loss in diabetic kidney disease. Reidy, Kimberly; Susztak, Katalin American journal of kidney diseases : the official journal of the National Kidney Foundation 19781451 2009 Oct
Repression of transposable elements by histone biotinylation. Zempleni, Janos; Chew, Yap Ching; Bao, Baolong; Pestinger, Valerie; Wijeratne, Subhashinee S K The Journal of nutrition 19812216 2009 Dec
Human DNA methylomes at base resolution show widespread epigenomic differences. Lister, Ryan; Pelizzola, Mattia; Dowen, Robert H; Hawkins, R David; Hon, Gary; Tonti-Filippini, Julian; Nery, Joseph R; Lee, Leonard; Ye, Zhen; Ngo, Que-Minh; Edsall, Lee; Antosiewicz-Bourget, Jessica; Stewart, Ron; Ruotti, Victor; Millar, A Harvey; Thoms Nature 19829295 2009 Nov 19
Biotin tagging coupled with amino acid-coded mass tagging for efficient and precise screening of interaction proteome in mammalian cells. He, Yu-Fei; Bao, Hui-Min; Xiao, Xiao-Feng; Zuo, Shuai; Du, Ru-Yun; Tang, Si-Wei; Yang, Peng-Yuan; Chen, Xian Proteomics 19834888 2009 Dec
MS/MS/MS reveals false positive identification of histone serine methylation. Zhang, Junmei; Chen, Yue; Zhang, Zhihong; Xing, Gang; Wysocka, Joanna; Zhao, Yingming Journal of proteome research 19877717 2010 Jan
Identification of a functional network of human epigenetic silencing factors. Poleshko, Andrey; Einarson, Margret B; Shalginskikh, Natalia; Zhang, Rugang; Adams, Peter D; Skalka, Anna Marie; Katz, Richard A The Journal of biological chemistry 19880521 2010 Jan 1
A homogeneous method for investigation of methylation-dependent protein-protein interactions in epigenetics. Quinn, Amy M; Bedford, Mark T; Espejo, Alexsandra; Spannhoff, Astrid; Austin, Christopher P; Oppermann, Udo; Simeonov, Anton Nucleic acids research 19897549 2010 Jan
Tubal and ovarian pathways to pelvic epithelial cancer: a pathological perspective. Jarboe, Elke A; Folkins, Ann K; Drapkin, Ronny; Ince, Tan A; Agoston, Elin S; Crum, Christopher P Histopathology 19912369 2009 Nov
A peptide tag system for facile purification and single-molecule immobilization. Huang, Jin; Nagy, Stanislav S; Koide, Akiko; Rock, Ronald S; Koide, Shohei Biochemistry 19928925 2009 Dec 22
Epigenome microarray platform for proteome-wide dissection of chromatin-signaling networks. Bua, Dennis J; Kuo, Alex J; Cheung, Peggie; Liu, Chih Long; Migliori, Valentina; Espejo, Alexsandra; Casadio, Fabio; Bassi, Christian; Amati, Bruno; Bedford, Mark T; Guccione, Ernesto; Gozani, Or PloS one 19956676 2009
Proteomic dissection of cell type-specific H2AX-interacting protein complex associated with hepatocellular carcinoma. Yang, Xiaoli; Zou, Peng; Yao, Jun; Yun, Dong; Bao, Huimin; Du, Ruyun; Long, Jing; Chen, Xian Journal of proteome research 20000738 2010 Mar 5
Epigenetics of neurological cancers. Fouse, Shaun D; Costello, Joseph F Future oncology (London, England). 20001799 2009 Dec;
Enzymatic and structural insights for substrate specificity of a family of jumonji histone lysine demethylases. Horton, John R; Upadhyay, Anup K; Qi, Hank H; Zhang, Xing; Shi, Yang; Cheng, Xiaodong Nature structural & molecular biology 20023638 2010 Jan
Parylene peel-off arrays to probe the role of cell-cell interactions in tumour angiogenesis. Tan CP, Seo BR, Brooks DJ, Chandler EM, Craighead HG, Fischbach C. Integr Biol (Camb) 20023775 2009 Oct
The polypeptide Syn67 interacts physically with human holocarboxylase synthetase, but is not a target for biotinylation. Hassan, Yousef I; Moriyama, Hideaki; Zempleni, Janos Archives of biochemistry and biophysics 20026029 2010 Mar 1
Unrestrictive identification of non-phosphorylation PTMs in yeast kinases by MS and PTMap. Zhang, Kai; Chen, Yue; Zhang, Zhihong; Tao, Shengce; Zhu, Heng; Zhao, Yingming Proteomics 20049863 2010 Mar
Genome-scale DNA methylation mapping of clinical samples at single-nucleotide resolution. Gu, Hongcang; Bock, Christoph; Mikkelsen, Tarjei S; Jager, Natalie; Smith, Zachary D; Tomazou, Eleni; Gnirke, Andreas; Lander, Eric S; Meissner, Alexander Nature methods 20062050 2010 Feb
Jarid2/Jumonji coordinates control of PRC2 enzymatic activity and target gene occupancy in pluripotent cells. Peng, Jamy C; Valouev, Anton; Swigut, Tomek; Zhang, Junmei; Zhao, Yingming; Sidow, Arend; Wysocka, Joanna Cell 20064375 2009 Dec 24
Nanoscale resolution, multicomponent biomolecular arrays generated by aligned printing with parylene peel-off. Tan, Christine P; Cipriany, Benjamin R; Lin, David M; Craighead, Harold G Nano letters 20088589 2010 Feb 10
CHD7 cooperates with PBAF to control multipotent neural crest formation. Bajpai, Ruchi; Chen, Denise A; Rada-Iglesias, Alvaro; Zhang, Junmei; Xiong, Yiqin; Helms, Jill; Chang, Ching-Pin; Zhao, Yingming; Swigut, Tomek; Wysocka, Joanna Nature 20130577 2010 Feb 18
Structure of the MADS-box/MEF2 domain of MEF2A bound to DNA and its implication for myocardin recruitment. Wu Y, Dey R, Han A, Jayathilaka N, Philips M, Ye J, Chen L. J Mol Biol 20132824 2010 Mar 26
Histone H3 Thr 45 phosphorylation is a replication-associated post-translational modification in S. cerevisiae. Baker, Stephen P; Phillips, Jennifer; Anderson, Scott; Qiu, Qifeng; Shabanowitz, Jeffrey; Smith, M Mitchell; Yates 3rd, John R; Hunt, Donald F; Grant, Patrick A Nature cell biology 20139971 2010 Mar
Transcriptome study for early hematopoiesis--achievement, challenge and new opportunity. Wang, San Ming; Zhang, Michael Q Journal of cellular physiology 20143329 2010 Jun
Rational conversion of affinity reagents into label-free sensors for Peptide motifs by designed allostery. Huang, Jin; Koide, Shohei ACS chemical biology 20143785 2010 Mar 19
A case study in cross-talk: the histone lysine methyltransferases G9a and GLP. Collins R, Cheng X. Nucleic Acids Res 20159995 2010 Jun
Single molecule epigenetic analysis in a nanofluidic channel. Cipriany, Benjamin R; Zhao, Ruqian; Murphy, Patrick J; Levy, Stephen L; Tan, Christine P; Craighead, Harold G; Soloway, Paul D Analytical chemistry 20184350 2010 Mar 15
Bioorthogonal chemical reporters for monitoring protein acetylation. Yang, Yu-Ying; Ascano, Janice M; Hang, Howard C Journal of the American Chemical Society 20192265 2010 Mar 24
Coordinated chromatin control: structural and functional linkage of DNA and histone methylation. Cheng X, Blumenthal RM. Biochemistry 20210320 2010 Apr 13
Rapid visualization and large-scale profiling of bacterial lipoproteins with chemical reporters. Rangan, Kavita J; Yang, Yu-Ying; Charron, Guillaume; Hang, Howard C Journal of the American Chemical Society 20230003 2010 Aug 11
DNA methylation profiling using the methylated-CpG island recovery assay (MIRA). Rauch, Tibor A; Pfeifer, Gerd P Methods (San Diego, Calif.) 20304072 2010 Nov
Biotin requirements are lower in human Jurkat lymphoid cells but homeostatic mechanisms are similar to those of HepG2 liver cells. Mall, Gaganpreet Kaur; Chew, Yap Ching; Zempleni, Janos The Journal of nutrition 20357078 2010 Jun
Epigenetic approaches to psychiatric disorders. Ptak, Carolyn; Petronis, Arturas Dialogues in clinical neuroscience 20373664 2010
Allele-specific methylation is prevalent and is contributed by CpG-SNPs in the human genome. Shoemaker, Robert; Deng, Jie; Wang, Wei; Zhang, Kun Genome research 20418490 2010 Jul
Successful computational prediction of novel imprinted genes from epigenomic features. Brideau, Chelsea M; Eilertson, Kirsten E; Hagarman, James A; Bustamante, Carlos D; Soloway, Paul D Molecular and cellular biology 20421412 2010 Jul
HP1: heterochromatin binding proteins working the genome. Zeng, Weihua; Ball Jr, Alexander R; Yokomori, Kyoko Epigenetics : official journal of the DNA Methylation Society 20421743 2010 May 16
Adding a lysine mimic in the design of potent inhibitors of histone lysine methyltransferases. Chang, Yanqi; Ganesh, Thota; Horton, John R; Spannhoff, Astrid; Liu, Jin; Sun, Aiming; Zhang, Xing; Bedford, Mark T; Shinkai, Yoichi; Snyder, James P; Cheng, Xiaodong Journal of molecular biology 20434463 2010 Jul 2
c-Myc regulates transcriptional pause release. Rahl, Peter B; Lin, Charles Y; Seila, Amy C; Flynn, Ryan A; McCuine, Scott; Burge, Christopher B; Sharp, Phillip A; Young, Richard A Cell 20434984 2010 Apr 30
Estrogen-mediated epigenetic repression of large chromosomal regions through DNA looping. Hsu, Pei-Yin; Hsu, Hang-Kai; Singer, Gregory A C; Yan, Pearlly S; Rodriguez, Benjamin A T; Liu, Joseph C; Weng, Yu-I; Deatherage, Daniel E; Chen, Zhong; Pereira, Julia S; Lopez, Ricardo; Russo, Jose; Wang, Qianben; Lamartiniere, Coral A; Nephew, Kenneth P Genome research 20442245 2010 Jun
Distinct epigenomic landscapes of pluripotent and lineage-committed human cells. Hawkins, R David; Hon, Gary C; Lee, Leonard K; Ngo, Queminh; Lister, Ryan; Pelizzola, Mattia; Edsall, Lee E; Kuan, Samantha; Luu, Ying; Klugman, Sarit; Antosiewicz-Bourget, Jessica; Ye, Zhen; Espinoza, Celso; Agarwahl, Saurabh; Shen, Li; Ruotti, Victor; W Cell stem cell 20452322 2010 May 7
Unveiling the vasodilatory actions and mechanisms of relaxin. Conrad, Kirk P Hypertension (Dallas, Tex. : 1979) 20497994 2010 Jul
Genome-wide kinetics of nucleosome turnover determined by metabolic labeling of histones. Deal, Roger B; Henikoff, Jorja G; Henikoff, Steven Science (New York, N.Y.) 20508129 2010 May 28
Methods in DNA methylation profiling. Zuo, Tao; Tycko, Benjamin; Liu, Ta-Ming; Lin, Juey-Jen L; Huang, Tim H-M Epigenomics 20526417 2009 Dec
Next-generation genomics: an integrative approach. Hawkins, R David; Hon, Gary C; Ren, Bing Nature reviews. Genetics 20531367 2010 Jul
Epigenetics as a unifying principle in the aetiology of complex traits and diseases. Petronis, Arturas Nature 20535201 2010 Jun 10
Hormonal influences on cognition and risk for Alzheimer's disease. Janicki, Sarah C; Schupf, Nicole Current neurology and neuroscience reports 20535591 2010 Sep
Molecular interplay of the noncoding RNA ANRIL and methylated histone H3 lysine 27 by polycomb CBX7 in transcriptional silencing of INK4a. Yap KL, Li S, Muñoz-Cabello AM, Raguz S, Zeng L, Mujtaba S, Gil J, Walsh MJ, Zhou MM. Mol Cell 20541999 2010 Jun 11
The Dnmt3a PWWP domain reads histone 3 lysine 36 trimethylation and guides DNA methylation. Dhayalan A, Rajavelu A, Rathert P, Tamas R, Jurkowska RZ, Ragozin S, Jeltsch A. J Biol Chem 20547484 2010 Aug 20
The roles of PARP1 in gene control and cell differentiation. Ji, Yingbiao; Tulin, Alexei V Current opinion in genetics & development 20591646 2010 Oct
Biotin regulates the expression of holocarboxylase synthetase in the miR-539 pathway in HEK-293 cells. Bao, Baolong; Rodriguez-Melendez, Rocio; Wijeratne, Subhashinee S K; Zempleni, Janos The Journal of nutrition 20592104 2010 Sep
Palmitoylome profiling reveals S-palmitoylation-dependent antiviral activity of IFITM3. Yount, Jacob S; Moltedo, Bruno; Yang, Yu-Ying; Charron, Guillaume; Moran, Thomas M; Lopez, Carolina B; Hang, Howard C Nature chemical biology 20601941 2010 Aug
Chromatin remodeling in mammary gland differentiation and breast tumorigenesis. Huang, Tim H-M; Esteller, Manel Cold Spring Harbor perspectives in biology 20610549 2010 Sep
Conserved role of intragenic DNA methylation in regulating alternative promoters. Maunakea, Alika K; Nagarajan, Raman P; Bilenky, Mikhail; Ballinger, Tracy J; D'Souza, Cletus; Fouse, Shaun D; Johnson, Brett E; Hong, Chibo; Nielsen, Cydney; Zhao, Yongjun; Turecki, Gustavo; Delaney, Allen; Varhol, Richard; Thiessen, Nina; Shchors, Ksenya; Heine, Vivi M; Rowitch, David H; Xing, Xiaoyun; Fiore, Chris; Schillebeeckx, Maximiliaan; Jones, Steven J M; Haussler, David; Marra, Marco A; Hirst, Martin; Wang, Ting; Costello, Joseph F Nature. 20613842 2010 Jul 8;
Protein lysine methyltransferase G9a inhibitors: design, synthesis, and structure activity relationships of 2,4-diamino-7-aminoalkoxy-quinazolines. Liu F, Chen X, Allali-Hassani A, Quinn AM, Wigle TJ, Wasney GA, Dong A, Senisterra G, Chau I, Siarheyeva A, Norris JL, Kireev DB, Jadhav A, Herold JM, Janzen WP, Arrowsmith CH, Frye SV, Brown PJ, Simeonov A, Vedadi M, Jin J. J Med Chem 20614940 2010 Aug 12
Genome-wide chromatin maps derived from limited numbers of hematopoietic progenitors. Adli, Mazhar; Zhu, Jiang; Bernstein, Bradley E Nature methods 20622861 2010 Aug
Cytokine-induced monocyte characteristics in SLE. Zhang, Zhe; Maurer, Kelly; Perin, Juan C; Song, Li; Sullivan, Kathleen E Journal of biomedicine & biotechnology 20625490 2010
Bisulfite Patch PCR enables multiplexed sequencing of promoter methylation across cancer samples. Varley, Katherine Elena; Mitra, Robi David Genome research 20627893 2010 Sep
Histone deacetylase inhibitor, MS-275, exhibits poor brain penetration: PK studies of [C]MS-275 using Positron Emission Tomography. Hooker, Jacob M; Kim, Sung Won; Alexoff, David; Xu, Youwen; Shea, Colleen; Reid, Alicia; Volkow, Nora; Fowler, Joanna S ACS chemical neuroscience 20657706 2010
Accessing protein methyltransferase and demethylase enzymology using microfluidic capillary electrophoresis. Wigle TJ, Provencher LM, Norris JL, Jin J, Brown PJ, Frye SV, Janzen WP. Chem Biol 20659682 2010 Jul 30
Epigenetic influences of low-dose bisphenol A in primary human breast epithelial cells. Weng, Yu-I; Hsu, Pei-Yin; Liyanarachchi, Sandya; Liu, Joseph; Deatherage, Daniel E; Huang, Yi-Wen; Zuo, Tao; Rodriguez, Benjamin; Lin, Ching-Hung; Cheng, Ann-Lii; Huang, Tim H-M Toxicology and applied pharmacology 20678512 2010 Oct 15
Actin-myosin contractility is responsible for the reduced viability of dissociated human embryonic stem cells. Chen, Guokai; Hou, Zhonggang; Gulbranson, Daniel R; Thomson, James A Cell stem cell 20682449 2010 Aug 6
Chromatin structure and gene expression programs of human embryonic and induced pluripotent stem cells. Guenther, Matthew G; Frampton, Garrett M; Soldner, Frank; Hockemeyer, Dirk; Mitalipova, Maya; Jaenisch, Rudolf; Young, Richard A Cell stem cell 20682450 2010 Aug 6
SILAC-based quantitative proteomic approach to identify potential biomarkers from the esophageal squamous cell carcinoma secretome. Kashyap, Manoj Kumar; Harsha, H C; Renuse, Santosh; Pawar, Harsh; Sahasrabuddhe, Nandini A; Kim, Min-Sik; Marimuthu, Arivusudar; Keerthikumar, Shivakumar; Muthusamy, Babylakshmi; Kandasamy, Kumaran; Subbannayya, Yashwanth; Prasad, Thottethodi Subrahmanya Cancer biology & therapy 20686364 2010 Oct 15
Holocarboxylase synthetase is a chromatin protein and interacts directly with histone H3 to mediate biotinylation of K9 and K18. Bao, Baolong; Pestinger, Valerie; Hassan, Yousef I; Borgstahl, Gloria E O; Kolar, Carol; Zempleni, Janos The Journal of nutritional biochemistry 20688500 2011 May
Novel histone biotinylation marks are enriched in repeat regions and participate in repression of transcriptionally competent genes. Pestinger, Valerie; Wijeratne, Subhashinee S K; Rodriguez-Melendez, Rocio; Zempleni, Janos The Journal of nutritional biochemistry 20691578 2011 Apr
Predicting conversion from mild cognitive impairment to Alzheimer's disease using neuropsychological tests and multivariate methods. Chapman, Robert M; Mapstone, Mark; McCrary, John W; Gardner, Margaret N; Porsteinsson, Anton; Sandoval, Tiffany C; Guillily, Maria D; Degrush, Elizabeth; Reilly, Lindsey A Journal of clinical and experimental neuropsychology 20711906 2011 Feb
Change in risk of Alzheimer disease over time. Hebert, L E; Bienias, J L; Aggarwal, N T; Wilson, R S; Bennett, D A; Shah, R C; Evans, D A Neurology 20805524 2010 Aug 31
The first global screening of protein substrates bearing protein-bound 3,4-Dihydroxyphenylalanine in Escherichia coli and human mitochondria. Lee, Sangkyu; Chen, Yue; Luo, Hao; Wu, Andrew A; Wilde, Michael; Schumacker, Paul T; Zhao, Yingming Journal of proteome research 20818827 2010 Nov 5
Quantitative comparison of genome-wide DNA methylation mapping technologies. Bock, Christoph; Tomazou, Eleni M; Brinkman, Arie B; Muller, Fabian; Simmer, Femke; Gu, Hongcang; Jager, Natalie; Gnirke, Andreas; Stunnenberg, Hendrik G; Meissner, Alexander Nature biotechnology 20852634 2010 Oct
Comparison of sequencing-based methods to profile DNA methylation and identification of monoallelic epigenetic modifications. Harris, R Alan; Wang, Ting; Coarfa, Cristian; Nagarajan, Raman P; Hong, Chibo; Downey, Sara L; Johnson, Brett E; Fouse, Shaun D; Delaney, Allen; Zhao, Yongjun; Olshen, Adam; Ballinger, Tracy; Zhou, Xin; Forsberg, Kevin J; Gu, Junchen; Echipare, Lorigail; Nature biotechnology 20852635 2010 Oct
Allele-specific DNA methylation: beyond imprinting. Tycko, Benjamin Human molecular genetics 20855472 2010 Oct 15
Keeping it in the family: diverse histone recognition by conserved structural folds. Yap KL, Zhou MM. Crit Rev Biochem Mol Biol 20923397 2010 Dec
Genome-wide DNA methylation maps in follicular lymphoma cells determined by methylation-enriched bisulfite sequencing. Choi, Jeong-Hyeon; Li, Yajun; Guo, Juyuan; Pei, Lirong; Rauch, Tibor A; Kramer, Robin S; Macmil, Simone L; Wiley, Graham B; Bennett, Lynda B; Schnabel, Jennifer L; Taylor, Kristen H; Kim, Sun; Xu, Dong; Sreekumar, Arun; Pfeifer, Gerd P; Roe, Bruce A; Cald PloS one 20927367 2010
Identification of non-peptide malignant brain tumor (MBT) repeat antagonists by virtual screening of commercially available compounds. Kireev D, Wigle TJ, Norris-Drouin J, Herold JM, Janzen WP, Frye SV. J Med Chem 20931980 2010 Nov 11
Dimerization of a viral SET protein endows its function. Wei H, Zhou MM. Proc Natl Acad Sci U S A 20937900 2010 Oct 26
The NIH Roadmap Epigenomics Mapping Consortium. Bernstein BE, Stamatoyannopoulos JA, Costello JF, Ren B, Milosavljevic A, Meissner A, Kellis M, Marra MA, Beaudet AL, Ecker JR, Farnham PJ, Hirst M, Lander ES, Mikkelsen TS, Thomson JA. Nat Biotechnol 20944595 2010 Oct
Putting epigenome comparison into practice. Milosavljevic A. Nat Biotechnol 20944597 2010 Oct
Epigenetic modifications in pluripotent and differentiated cells. Meissner, Alexander Nature biotechnology 20944600 2010 Oct
MIRA-SNuPE, a quantitative, multiplex method for measuring allele-specific DNA methylation. Lee, Dong-Hoon; Tran, Diana A; Singh, Purnima; Oates, Nathan; Rivas, Guillermo E; Larson, Garrett P; Pfeifer, Gerd P; Szabo, Piroska E Epigenetics : official journal of the DNA Methylation Society 20948294 2011 Feb
Capturing the dynamic epigenome. Deal, Roger B; Henikoff, Steven Genome biology 20959022 2010
The UCSC Genome Browser database: update 2011. Fujita, Pauline A; Rhead, Brooke; Zweig, Ann S; Hinrichs, Angie S; Karolchik, Donna; Cline, Melissa S; Goldman, Mary; Barber, Galt P; Clawson, Hiram; Coelho, Antonio; Diekhans, Mark; Dreszer, Timothy R; Giardine, Belinda M; Harte, Rachel A; Hillman-Jackso Nucleic acids research 20959295 2011 Jan
Dynamic regulation of the PR-Set7 histone methyltransferase is required for normal cell cycle progression. Wu, Shumin; Wang, Weiping; Kong, Xiangduo; Congdon, Lauren M; Yokomori, Kyoko; Kirschner, Marc W; Rice, Judd C Genes & development 20966048 2010 Nov 15
Epithelial Notch signaling regulates interstitial fibrosis development in the kidneys of mice and humans. Bielesz, Bernhard; Sirin, Yasemin; Si, Han; Niranjan, Thiruvur; Gruenwald, Antje; Ahn, Seonho; Kato, Hideki; Pullman, James; Gessler, Manfred; Haase, Volker H; Susztak, Katalin The Journal of clinical investigation 20978353 2010 Nov
High-throughput discovery of rare insertions and deletions in large cohorts. Vallania, Francesco L M; Druley, Todd E; Ramos, Enrique; Wang, Jue; Borecki, Ingrid; Province, Michael; Mitra, Robi D Genome research 21041413 2010 Dec
Fine tuning gene expression: the epigenome. Mohtat, Davoud; Susztak, Katalin Seminars in nephrology 21044758 2010 Sep
The DNA methylome. Pelizzola, Mattia; Ecker, Joseph R FEBS letters 21056564 2011 Jul 7
Identification of novel loci for Alzheimer disease and replication of CLU, PICALM, and BIN1 in Caribbean Hispanic individuals. Lee, Joseph H; Cheng, Rong; Barral, Sandra; Reitz, Christiane; Medrano, Martin; Lantigua, Rafael; Jimenez-Velazquez, Ivonne Z; Rogaeva, Ekaterina; St George-Hyslop, Peter H; Mayeux, Richard Archives of neurology. 21059989 2011 Mar;
NCBI Epigenomics: a new public resource for exploring epigenomic data sets. Fingerman IM, McDaniel L, Zhang X, Ratzat W, Hassan T, Jiang Z, Cohen RF, Schuler GD. Nucleic Acids Res 21075792 2011 Jan
Proteomic analysis of fatty-acylated proteins in mammalian cells with chemical reporters reveals S-acylation of histone H3 variants. Wilson, John P; Raghavan, Anuradha S; Yang, Yu-Ying; Charron, Guillaume; Hang, Howard C Molecular & cellular proteomics : MCP 21076176 2011 Mar
Pash 3.0: A versatile software package for read mapping and integrative analysis of genomic and epigenomic variation using massively parallel DNA sequencing. Coarfa, Cristian; Yu, Fuli; Miller, Christopher A; Chen, Zuozhou; Harris, R Alan; Milosavljevic, Aleksandar BMC bioinformatics 21092284 2010
Comparative analysis of cleavable azobenzene-based affinity tags for bioorthogonal chemical proteomics. Yang, Yu-Ying; Grammel, Markus; Raghavan, Anuradha S; Charron, Guillaume; Hang, Howard C Chemistry & biology 21095571 2010 Nov 24
Visualization by BiFC of different C/EBPýý dimers and their interaction with HP1ýý reveals a differential subnuclear distribution of complexes in living cells. Susperreguy, Sebastian; Prendes, Luciana P; Desbats, Maria A; Charo, Nancy L; Brown, Karen; MacDougald, Ormond A; Kerppola, Tom; Schwartz, Jessica; Piwien-Pilipuk, Graciela Experimental cell research 21122806 2011 Apr 1
Lysine methylation of the NF-ýýB subunit RelA by SETD6 couples activity of the histone methyltransferase GLP at chromatin to tonic repression of NF-ýýB signaling. Levy, Dan; Kuo, Alex J; Chang, Yanqi; Schaefer, Uwe; Kitson, Christopher; Cheung, Peggie; Espejo, Alexsandra; Zee, Barry M; Liu, Chih Long; Tangsombatvisit, Stephanie; Tennen, Ruth I; Kuo, Andrew Y; Tanjing, Song; Cheung, Regina; Chua, Katrin F; Utz, Paul Nature immunology 21131967 2011 Jan
An assessment of histone-modification antibody quality. Egelhofer, Thea A; Minoda, Aki; Klugman, Sarit; Lee, Kyungjoon; Kolasinska-Zwierz, Paulina; Alekseyenko, Artyom A; Cheung, Ming-Sin; Day, Daniel S; Gadel, Sarah; Gorchakov, Andrey A; Gu, Tingting; Kharchenko, Peter V; Kuan, Samantha; Latorre, Isabel; Lind Nature structural & molecular biology 21131980 2011 Jan
Dynamics of histone lysine methylation: structures of methyl writers and erasers. Upadhyay, Anup K; Cheng, Xiaodong Progress in drug research. Fortschritte der Arzneimittelforschung. Progres des recherches pharmaceutiques 21141727 2011
Identification of lysine succinylation as a new post-translational modification. Zhang Z, Tan M, Xie Z, Dai L, Chen Y, Zhao Y. Nat Chem Biol 21151122 2011 Jan
Fetal environment, epigenetics, and pediatric renal disease. Woroniecki, Robert; Gaikwad, Anil Bhanudas; Susztak, Katalin Pediatric nephrology (Berlin, Germany) 21174217 2011 May
Plasticity in patterns of histone modifications and chromosomal proteins in Drosophila heterochromatin. Riddle, Nicole C; Minoda, Aki; Kharchenko, Peter V; Alekseyenko, Artyom A; Schwartz, Yuri B; Tolstorukov, Michael Y; Gorchakov, Andrey A; Jaffe, Jacob D; Kennedy, Cameron; Linder-Basso, Daniela; Peach, Sally E; Shanower, Gregory; Zheng, Haiyan; Kuroda, Mi Genome research 21177972 2011 Feb
Drug discovery: Reader's block. Taverna, Sean D; Cole, Philip A Nature 21179160 2010 Dec 23
A 96-well plate assay for high-throughput analysis of holocarboxylase synthetase activity. Rios-Avila, Luisa; Prince, Sara A; Wijeratne, Subhashinee S K; Zempleni, Janos Clinica chimica acta; international journal of clinical chemistry 21195703 2011 Apr 11
Epigenetic silencing mediated through activated PI3K/AKT signaling in breast cancer. Zuo, Tao; Liu, Ta-Ming; Lan, Xun; Weng, Yu-I; Shen, Rulong; Gu, Fei; Huang, Yi-Wen; Liyanarachchi, Sandya; Deatherage, Daniel E; Hsu, Pei-Yin; Taslim, Cenny; Ramaswamy, Bhuvaneswari; Shapiro, Charles L; Lin, Huey-Jen L; Cheng, Alfred S L; Jin, Victor X; H Cancer research 21216892 2011 Mar 1
Epigenetics: Tools and Technologies. Janzen WP, Wigle TJ, Jin J, Frye SV. Drug Discov Today Technol 21243036 2010 Spring
Identification of lysine 37 of histone H2B as a novel site of methylation. Gardner, Kathryn E; Zhou, Li; Parra, Michael A; Chen, Xian; Strahl, Brian D PloS one 21249157 2011
Next generation sequencing based approaches to epigenomics. Hirst, Martin; Marra, Marco A Briefings in functional genomics 21266347 2010 Dec
MassSQUIRM: An assay for quantitative measurement of lysine demethylase activity. Blair, Lauren P; Avaritt, Nathan L; Huang, Rong; Cole, Phillip A; Taverna, Sean D; Tackett, Alan J Epigenetics : official journal of the DNA Methylation Society 21273814 2011 Apr
Contribution of inherited mutations in the BRCA2-interacting protein PALB2 to familial breast cancer. Casadei, Silvia; Norquist, Barbara M; Walsh, Tom; Stray, Sunday; Mandell, Jessica B; Lee, Ming K; Stamatoyannopoulos, John A; King, Mary-Claire Cancer research 21285249 2011 Mar 15
Structure and mechanisms of lysine methylation recognition by the chromodomain in gene transcription. Yap KL, Zhou MM. Biochemistry 21288002 2011 Mar 29
Hotspots of aberrant epigenomic reprogramming in human induced pluripotent stem cells. Lister, Ryan; Pelizzola, Mattia; Kida, Yasuyuki S; Hawkins, R David; Nery, Joseph R; Hon, Gary; Antosiewicz-Bourget, Jessica; O'Malley, Ronan; Castanon, Rosa; Klugman, Sarit; Downes, Michael; Yu, Ruth; Stewart, Ron; Ren, Bing; Thomson, James A; Evans, Ron Nature 21289626 2011 Mar 3
Reference Maps of human ES and iPS cell variation enable high-throughput characterization of pluripotent cell lines. Bock, Christoph; Kiskinis, Evangelos; Verstappen, Griet; Gu, Hongcang; Boulting, Gabriella; Smith, Zachary D; Ziller, Michael; Croft, Gist F; Amoroso, Mackenzie W; Oakley, Derek H; Gnirke, Andreas; Eggan, Kevin; Meissner, Alexander Cell 21295703 2011 Feb 4
The role of histone H4 biotinylation in the structure of nucleosomes. Filenko, Nina A; Kolar, Carol; West, John T; Smith, S Abbie; Hassan, Yousef I; Borgstahl, Gloria E O; Zempleni, Janos; Lyubchenko, Yuri L PloS one 21298003 2011
Identification of holocarboxylase synthetase chromatin binding sites in human mammary cell lines using the DNA adenine methyltransferase identification technology. Singh, Dipika; Pannier, Angela K; Zempleni, Janos Analytical biochemistry 21303649 2011 Jun 1
Estrogen-mediated epigenetic repression of the imprinted gene cyclin-dependent kinase inhibitor 1C in breast cancer cells. Rodriguez, Benjamin A T; Weng, Yu-I; Liu, Ta-Ming; Zuo, Tao; Hsu, Pei-Yin; Lin, Ching-Hung; Cheng, Ann-Lii; Cui, Hengmi; Yan, Pearlly S; Huang, Tim H-M Carcinogenesis 21304052 2011 Jun
ReadDepth: a parallel R package for detecting copy number alterations from short sequencing reads. Miller, Christopher A; Hampton, Oliver; Coarfa, Cristian; Milosavljevic, Aleksandar PloS one 21305028 2011
Reprogramming of the paternal genome upon fertilization involves genome-wide oxidation of 5-methylcytosine. Iqbal, Khursheed; Jin, Seung-Gi; Pfeifer, Gerd P; Szabo, Piroska E Proceedings of the National Academy of Sciences of the United States of America 21321204 2011 Mar 1
Nanogel surface coatings for improved single-molecule imaging substrates. Tessler, Lee A; Donahoe, Casey D; Garcia, Daniel J; Jun, Young-Shin; Elbert, Donald L; Mitra, Robi D Journal of the Royal Society, Interface / the Royal Society 21325313 2011 Oct 7
Diabetes in pregnancy: glycemia control guidelines and rationale. Karakash, Scarlett D; Einstein, Francine H Current opinion in endocrinology, diabetes, and obesity 21330917 2011 Apr
Recapitulation of premature ageing with iPSCs from Hutchinson-Gilford progeria syndrome. Liu, Guang-Hui; Barkho, Basam Z; Ruiz, Sergio; Diep, Dinh; Qu, Jing; Yang, Sheng-Lian; Panopoulos, Athanasia D; Suzuki, Keiichiro; Kurian, Leo; Walsh, Christopher; Thompson, James; Boue, Stephanie; Fung, Ho Lim; Sancho-Martinez, Ignacio; Zhang, Kun; Yates Nature 21346760 2011 Apr 14
Characterization of the contradictory chromatin signatures at the 3' exons of zinc finger genes. Blahnik, Kimberly R; Dou, Lei; Echipare, Lorigail; Iyengar, Sushma; O'Geen, Henriette; Sanchez, Erica; Zhao, Yongjun; Marra, Marco A; Hirst, Martin; Costello, Joseph F; Korf, Ian; Farnham, Peggy J PloS one 21347206 2011
Development of an internet based system for modeling biotin metabolism using Bayesian networks. Zhou, Jinglei; Wang, Dong; Schlegel, Vicki; Zempleni, Janos Computer methods and programs in biomedicine 21356565 2011 Nov
Nucleosome fragility reveals novel functional states of chromatin and poises genes for activation. Xi, Yuanxin; Yao, Jianhui; Chen, Rui; Li, Wei; He, Xiangwei Genome research 21363969 2011 May
Genomic mapping of 5-hydroxymethylcytosine in the human brain. Jin, Seung-Gi; Wu, Xiwei; Li, Arthur X; Pfeifer, Gerd P Nucleic acids research 21378125 2011 Jul
REST interacts with Cbx proteins and regulates polycomb repressive complex 1 occupancy at RE1 elements. Ren, Xiaojun; Kerppola, Tom K Molecular and cellular biology 21402785 2011 May
Structure and functions of powerful transactivators: VP16, MyoD and FoxA. Hirai, Hiroyuki; Tani, Tetsuya; Kikyo, Nobuaki The International journal of developmental biology 21404180 2010
Preparation of reduced representation bisulfite sequencing libraries for genome-scale DNA methylation profiling. Gu, Hongcang; Smith, Zachary D; Bock, Christoph; Boyle, Patrick; Gnirke, Andreas; Meissner, Alexander Nature protocols 21412275 2011 Apr
Small-molecule ligands of methyl-lysine binding proteins. Herold JM, Wigle TJ, Norris JL, Lam R, Korboukh VK, Gao C, Ingerman LA, Kireev DB, Senisterra G, Vedadi M, Tripathy A, Brown PJ, Arrowsmith CH, Jin J, Janzen WP, Frye SV. J Med Chem 21417280 2011 Apr 14
The ATRX-ADD domain binds to H3 tail peptides and reads the combined methylation state of K4 and K9. Dhayalan A, Tamas R, Bock I, Tattermusch A, Dimitrova E, Kudithipudi S, Ragozin S, Jeltsch A. Hum Mol Genet 21421568 2011 Jun 1
Biophysical probes reveal a compromise" nature of the methyl-lysine binding pocket in L3MBTL1." Gao C, Herold JM, Kireev D, Wigle T, Norris JL, Frye S. J Am Chem Soc 21428286 2011 Apr 13
The histone methyltransferase SETDB1 is recurrently amplified in melanoma and accelerates its onset. Ceol CJ, Houvras Y, Jane-Valbuena J, Bilodeau S, Orlando DA, Battisti V, Fritsch L, Lin WM, Hollmann TJ, Ferré F, Bourque C, Burke CJ, Turner L, Uong A, Johnson LA, Beroukhim R, Mermel CH, Loda M, Ait-Si-Ali S, Garraway LA, Young RA, Zon LI. Nature 21430779 2011 Mar 24
Drosophila histone H2A variant (H2Av) controls poly(ADP-ribose) polymerase 1 (PARP1) activation in chromatin. Kotova, Elena; Lodhi, Niraj; Jarnik, Michael; Pinnola, Aaron D; Ji, Yingbiao; Tulin, Alexei V Proceedings of the National Academy of Sciences of the United States of America 21444826 2011 Apr 12
Tracing the footsteps of glomerular insulin signaling in diabetic kidney disease. Chang, Gene-Yuan; Park, Ae Seo Deok; Susztak, Katalin Kidney international 21451535 2011 Apr
Monocyte polarization: the relationship of genome-wide changes in H4 acetylation with polarization. Zhang, Z; Song, L; Maurer, K; Bagashev, A; Sullivan, K E Genes and immunity 21451557 2011 Sep
Cohesin mediates chromatin interactions that regulate mammalian ýý-globin expression. Chien, Richard; Zeng, Weihua; Kawauchi, Shimako; Bender, M A; Santos, Rosaysela; Gregson, Heather C; Schmiesing, John A; Newkirk, Daniel A; Kong, Xiangduo; Ball Jr, Alexander R; Calof, Anne L; Lander, Arthur D; Groudine, Mark T; Yokomori, Kyoko The Journal of biological chemistry 21454523 2011 May 20
Calling Cards enable multiplexed identification of the genomic targets of DNA-binding proteins. Wang, Haoyi; Mayhew, David; Chen, Xuhua; Johnston, Mark; Mitra, Robi David Genome research 21471402 2011 May
Chemically defined conditions for human iPSC derivation and culture. Chen, Guokai; Gulbranson, Daniel R; Hou, Zhonggang; Bolin, Jennifer M; Ruotti, Victor; Probasco, Mitchell D; Smuga-Otto, Kimberly; Howden, Sara E; Diol, Nicole R; Propson, Nicholas E; Wagner, Ryan; Lee, Garrett O; Antosiewicz-Bourget, Jessica; Teng, Joyce Nature methods 21478862 2011 May
Epigenetic mechanisms in Alzheimer's disease. Mastroeni, Diego; Grover, Andrew; Delvaux, Elaine; Whiteside, Charisse; Coleman, Paul D; Rogers, Joseph Neurobiology of aging 21482442 2011 Jul
Widespread hypomethylation occurs early and synergizes with gene amplification during esophageal carcinogenesis. Alvarez, Hector; Opalinska, Joanna; Zhou, Li; Sohal, Davendra; Fazzari, Melissa J; Yu, Yiting; Montagna, Christina; Montgomery, Elizabeth A; Canto, Marcia; Dunbar, Kerry B; Wang, Jean; Roa, Juan Carlos; Mo, Yongkai; Bhagat, Tushar; Ramesh, K H; Cannizzaro PLoS genetics 21483804 2011 Mar
Toward an integrated genetic and epigenetic approach to Alzheimer's disease. Mill, Jonathan Neurobiology of aging 21497948 2011 Jul
The epigenetics of Alzheimer's disease--additional considerations. Rogers, Joseph; Mastroeni, Diego; Grover, Andrew; Delvaux, Elaine; Whiteside, Charisse; Coleman, Paul D Neurobiology of aging 21497949 2011 Jul
Nuclear mobility and mitotic chromosome binding: similarities between pioneer transcription factor FoxA and linker histone H1. Zaret, K S; Caravaca, J M; Tulin, A; Sekiya, T Cold Spring Harbor symposia on quantitative biology 21502411 2010
Emerging patterns of epigenomic variation. Milosavljevic, Aleksandar Trends in genetics : TIG 21507501 2011 Jun
Genome-wide regulation of 5hmC, 5mC, and gene expression by Tet1 hydroxylase in mouse embryonic stem cells. Xu, Yufei; Wu, Feizhen; Tan, Li; Kong, Lingchun; Xiong, Lijun; Deng, Jie; Barbera, Andrew J; Zheng, Lijuan; Zhang, Haikuo; Huang, Stephen; Min, Jinrong; Nicholson, Thomas; Chen, Taiping; Xu, Guoliang; Shi, Yang; Zhang, Kun; Shi, Yujiang Geno Molecular cell 21514197 2011 May 20
Structural basis of SETD6-mediated regulation of the NF-kB network via methyl-lysine signaling. Chang, Yanqi; Levy, Dan; Horton, John R; Peng, Junmin; Zhang, Xing; Gozani, Or; Cheng, Xiaodong Nucleic acids research 21515635 2011 Aug
Relationship between gene body DNA methylation and intragenic H3K9me3 and H3K36me3 chromatin marks. Hahn, Maria A; Wu, Xiwei; Li, Arthur X; Hahn, Torsten; Pfeifer, Gerd P PloS one 21526191 2011
An epigenetic signature for monoallelic olfactory receptor expression. Magklara, Angeliki; Yen, Angela; Colquitt, Bradley M; Clowney, E Josephine; Allen, William; Markenscoff-Papadimitriou, Eirene; Evans, Zoe A; Kheradpour, Pouya; Mountoufaris, George; Carey, Catriona; Barnea, Gilad; Kellis, Manolis; Lomvardas, Stavros Cell 21529909 2011 May 13
Probing the role of HDACs and mechanisms of chromatin-mediated neuroplasticity. Haggarty, Stephen J; Tsai, Li-Huei Neurobiology of learning and memory 21545841 2011 Jul
The role of holocarboxylase synthetase in genome stability is mediated partly by epigenomic synergies between methylation and biotinylation events. Zempleni, Janos; Li, Yong; Xue, Jing; Cordonier, Elizabeth L Epigenetics : official journal of the DNA Methylation Society 21555910 2011 Jul
Targeted gene correction of laminopathy-associated LMNA mutations in patient-specific iPSCs. Liu, Guang-Hui; Suzuki, Keiichiro; Qu, Jing; Sancho-Martinez, Ignacio; Yi, Fei; Li, Mo; Kumar, Sachin; Nivet, Emmanuel; Kim, Jessica; Soligalla, Rupa Devi; Dubova, Ilir; Goebl, April; Plongthongkum, Nongluk; Fung, Ho-Lim; Zhang, Kun; Loring, Jeanne F; Lau Cell stem cell 21596650 2011 Jun 3
Epigenetic control of gene expression in the lung. Yang, Ivana V; Schwartz, David A American journal of respiratory and critical care medicine 21596832 2011 May 15
Opposing roles of FoxP1 and Nfat3 in transcriptional control of cardiomyocyte hypertrophy. Bai, Shoumei; Kerppola, Tom K Molecular and cellular biology 21606195 2011 Jul
A multi-tissue analysis identifies HLA complex group 9 gene methylation differences in bipolar disorder. Kaminsky, Z; Tochigi, M; Jia, P; Pal, M; Mill, J; Kwan, A; Ioshikhes, I; Vincent, J B; Kennedy, J L; Strauss, J; Pai, S; Wang, S-C; Petronis, A Molecular psychiatry 21647149 2012 Jul
Characterization of single-nucleotide variation in Indian-origin rhesus macaques (Macaca mulatta). Fawcett, Gloria L; Raveendran, Muthuswamy; Deiros, David Rio; Chen, David; Yu, Fuli; Harris, Ronald Alan; Ren, Yanru; Muzny, Donna M; Reid, Jeffrey G; Wheeler, David A; Worley, Kimberly C; Shelton, Steven E; Kalin, Ned H; Milosavljevic, Aleksandar; Gibbs, BMC genomics 21668978 2011
Advantages of mRNA display selections over other selection techniques for investigation of protein-protein interactions. Wang, Hui; Liu, Rihe Expert review of proteomics 21679115 2011 Jun
Increased methylation variation in epigenetic domains across cancer types. Hansen, Kasper Daniel; Timp, Winston; Bravo, Hector Corrada; Sabunciyan, Sarven; Langmead, Benjamin; McDonald, Oliver G; Wen, Bo; Wu, Hao; Liu, Yun; Diep, Dinh; Briem, Eirikur; Zhang, Kun; Irizarry, Rafael A; Feinberg, Andrew P Nature genetics 21706001 2011 Aug
Analysis of Histone Exchange during Chromatin Purification. Byrum, Stephanie; Mackintosh, Samuel G; Edmondson, Ricky D; Cheung, Wang L; Taverna, Sean D; Tackett, Alan J Journal of integrated OMICS 21709819 2011 Feb 1
Radical acceleration of nuclear reprogramming by chromatin remodeling with the transactivation domain of MyoD. Hirai, Hiroyuki; Tani, Tetsuya; Katoku-Kikyo, Nobuko; Kellner, Steven; Karian, Peter; Firpo, Meri; Kikyo, Nobuaki Stem cells (Dayton, Ohio) 21732495 2011 Sep
Genome-wide analysis reveals conserved and divergent features of Notch1/RBPJ binding in human and murine T-lymphoblastic leukemia cells. Wang, Hongfang; Zou, James; Zhao, Bo; Johannsen, Eric; Ashworth, Todd; Wong, Hoifung; Pear, Warren S; Schug, Jonathan; Blacklow, Stephen C; Arnett, Kelly L; Bernstein, Bradley E; Kieff, Elliott; Aster, Jon C Proceedings of the National Academy of Sciences of the United States of America 21737748 2011 Sep 6
A chemical probe selectively inhibits G9a and GLP methyltransferase activity in cells. Vedadi, Masoud; Barsyte-Lovejoy, Dalia; Liu, Feng; Rival-Gervier, Sylvie; Allali-Hassani, Abdellah; Labrie, Viviane; Wigle, Tim J; Dimaggio, Peter A; Wasney, Gregory A; Siarheyeva, Alena; Dong, Aiping; Tempel, Wolfram; Wang, Sun-Chong; Chen, Xin; Chau, Ir Nature chemical biology 21743462 2011 Aug
Epstein-Barr virus exploits intrinsic B-lymphocyte transcription programs to achieve immortal cell growth. Zhao, Bo; Zou, James; Wang, Hongfang; Johannsen, Eric; Peng, Chih-wen; Quackenbush, John; Mar, Jessica C; Morton, Cynthia Casson; Freedman, Matthew L; Blacklow, Stephen C; Aster, Jon C; Bernstein, Bradley E; Kieff, Elliott Proceedings of the National Academy of Sciences of the United States of America 21746931 2011 Sep 6
Transcriptome analysis of human diabetic kidney disease. Woroniecka, Karolina I; Park, Ae Seo Deok; Mohtat, Davoud; Thomas, David B; Pullman, James M; Susztak, Katalin Diabetes 21752957 2011 Sep
Cytosine methylation in miR-153 gene promoters increases the expression of holocarboxylase synthetase, thereby increasing the abundance of histone H4 biotinylation marks in HEK-293 human kidney cells. Bao, Baolong; Rodriguez-Melendez, Rocio; Zempleni, Janos The Journal of nutritional biochemistry 21764280 2012 Jun
Targeted bisulfite sequencing by solution hybrid selection and massively parallel sequencing. Lee, Eun-Joon; Pei, Lirong; Srivastava, Gyan; Joshi, Trupti; Kushwaha, Garima; Choi, Jeong-Hyeon; Robertson, Keith D; Wang, Xinguo; Colbourne, John K; Zhang, Lu; Schroth, Gary P; Xu, Dong; Zhang, Kun; Shi, Huidong Nucleic acids research 21785137 2011 Oct
Germline mutations in MSR1, ASCC1, and CTHRC1 in patients with Barrett esophagus and esophageal adenocarcinoma. Orloff, Mohammed; Peterson, Charissa; He, Xin; Ganapathi, Shireen; Heald, Brandie; Yang, Yi-ran; Bebek, Gurkan; Romigh, Todd; Song, Jee Hoon; Wu, Wenjing; David, Stefan; Cheng, Yulan; Meltzer, Stephen J; Eng, Charis JAMA : the journal of the American Medical Association 21791690 2011 Jul 27
Regulation of embryonic stem cell self-renewal and pluripotency by leukaemia inhibitory factor. Hirai, Hiroyuki; Karian, Peter; Kikyo, Nobuaki The Biochemical journal 21793804 2011 Aug 15
Selection of proteins with desired properties from natural proteome libraries using mRNA display. Cotten, Steven W; Zou, Jianwei; Valencia, C Alexander; Liu, Rihe Nature protocols 21799486 2011 Aug
Human holocarboxylase synthetase with a start site at methionine-58 is the predominant nuclear variant of this protein and has catalytic activity. Bao, Baolong; Wijeratne, Subhashinee S K; Rodriguez-Melendez, Rocio; Zempleni, Janos Biochemical and biophysical research communications 21802411 2011 Aug 19
Genome-wide analysis of interferon regulatory factor I binding in primary human monocytes. Shi, Lihua; Perin, Juan C; Leipzig, Jeremy; Zhang, Zhe; Sullivan, Kathleen E Gene 21803131 2011 Nov 1
Perinephric and epididymal fat affect hepatic metabolism in rats. Ben-Shlomo, Shani; Einstein, Francine H; Zvibel, Isabel; Atias, Dikla; Shlomai, Amir; Halpern, Zamir; Barzilai, Nir; Fishman, Sigal Obesity (Silver Spring, Md.) 21818154 2012 Jan
Long noncoding RNA, polycomb, and the ghosts haunting INK4b-ARF-INK4a expression. Aguilo F, Zhou MM, Walsh MJ. Cancer Res 21828241 2011 Aug 15
Cohesin: a critical chromatin organizer in mammalian gene regulation. Chien, Richard; Zeng, Weihua; Ball, Alexander R; Yokomori, Kyoko Biochemistry and cell biology = Biochimie et biologie cellulaire 21851156 2011 Oct
PARP1 genomics: chromatin immunoprecipitation approach using anti-PARP1 antibody (ChIP and ChIP-seq). Lodhi, Niraj; Tulin, Alexei V Methods in molecular biology (Clifton, N.J.) 21870262 2011
Small-molecule collection and high-throughput colorimetric assay to identify PARP1 inhibitors. Kotova, Elena; Pinnola, Aaron D; Tulin, Alexei V Methods in molecular biology (Clifton, N.J.) 21870279 2011
Biotin requirements for DNA damage prevention. Zempleni, Janos; Teixeira, Daniel Camara; Kuroishi, Toshinobu; Cordonier, Elizabeth L; Baier, Scott Mutation research 21871906 2012 May 1
Biotin requirements for DNA damage prevention. Zempleni J, Teixeira DC, Kuroishi T, Cordonier EL, Baier S. Mutat Res 21871906 2012 May 1
Neuronal activity modifies the DNA methylation landscape in the adult brain. Guo, Junjie U; Ma, Dengke K; Mo, Huan; Ball, Madeleine P; Jang, Mi-Hyeon; Bonaguidi, Michael A; Balazer, Jacob A; Eaves, Hugh L; Xie, Bin; Ford, Eric; Zhang, Kun; Ming, Guo-li; Gao, Yuan; Song, Hongjun Nature neuroscience. 21874013 2011 Oct;
Dynamic chromatin states in human ES cells reveal potential regulatory sequences and genes involved in pluripotency. Hawkins, R David; Hon, Gary C; Yang, Chuhu; Antosiewicz-Bourget, Jessica E; Lee, Leonard K; Ngo, Que-Minh; Klugman, Sarit; Ching, Keith A; Edsall, Lee E; Ye, Zhen; Kuan, Samantha; Yu, Pengzhi; Liu, Hui; Zhang, Xinmin; Green, Roland D; Lobanenkov, Victor V Cell research 21876557 2011 Oct
A quantitative proteomic analysis of FFPE melanoma. Byrum, Stephanie; Avaritt, Nathan L; Mackintosh, Samuel G; Munkberg, Josie M; Badgwell, Brian D; Cheung, Wang L; Tackett, Alan J Journal of cutaneous pathology 21883366 2011 Nov
Quantitative analysis of histone exchange for transcriptionally active chromatin. Byrum, Stephanie D; Taverna, Sean D; Tackett, Alan J Journal of clinical bioinformatics 21884633 2011 Jul 07
Disease-associated epigenetic changes in monozygotic twins discordant for schizophrenia and bipolar disorder. Dempster, Emma L; Pidsley, Ruth; Schalkwyk, Leonard C; Owens, Sheena; Georgiades, Anna; Kane, Fergus; Kalidindi, Sridevi; Picchioni, Marco; Kravariti, Eugenia; Toulopoulou, Timothea; Murray, Robin M; Mill, Jonathan Human molecular genetics 21908516 2011 Dec 15
The first identification of lysine malonylation substrates and its regulatory enzyme. Peng C, Lu Z, Xie Z, Cheng Z, Chen Y, Tan M, Luo H, Zhang Y, He W, Yang K, Zwaans BM, Tishkoff D, Ho L, Lombard D, He TC, Dai J, Verdin E, Ye Y, Zhao Y. Mol Cell Proteomics 21908771 2011 Dec
Using ChIP-seq technology to generate high-resolution profiles of histone modifications. O'Geen, Henriette; Echipare, Lorigail; Farnham, Peggy J Methods in molecular biology (Clifton, N.J.) 21913086 2011
Identification of the putative intestinal stem cell marker doublecortin and CaM kinase-like-1 in Barrett's esophagus and esophageal adenocarcinoma. Vega, Kenneth J; May, Randal; Sureban, Sripathi M; Lightfoot, Stan A; Qu, Dongfeng; Reed, Alessandra; Weygant, Nathaniel; Ramanujam, Rama; Souza, Rhonda; Madhoun, Mohammad; Whorton, Joshua; Anant, Shrikant; Meltzer, Stephen J; Houchen, Courtney W Journal of gastroenterology and hepatology 21916995 2012 Apr
Transfer-printing of single DNA molecule arrays on graphene for high-resolution electron imaging and analysis. Cerf, Aline; Alava, Thomas; Barton, Robert A; Craighead, Harold G Nano letters 21919532 2011 Oct 12
Identification of 67 histone marks and histone lysine crotonylation as a new type of histone modification. Tan, Minjia; Luo, Hao; Lee, Sangkyu; Jin, Fulai; Yang, Jeong Soo; Montellier, Emilie; Buchou, Thierry; Cheng, Zhongyi; Rousseaux, Sophie; Rajagopal, Nisha; Lu, Zhike; Ye, Zhen; Zhu, Qin; Wysocka, Joanna; Ye, Yang; Khochbin, Saadi; Ren, Bing; Zhao, Yingmin Cell 21925322 2011 Sep 16
Biotinylation is a natural, albeit rare, modification of human histones. Kuroishi, Toshinobu; Rios-Avila, Luisa; Pestinger, Valerie; Wijeratne, Subhashinee S K; Zempleni, Janos Molecular genetics and metabolism 21930408 2011 Dec
Whole-genome chromatin profiling from limited numbers of cells using nano-ChIP-seq. Adli, Mazhar; Bernstein, Bradley E Nature protocols. 21959244 2011 Oct;
Single DNA molecule patterning for high-throughput epigenetic mapping. Cerf, Aline; Cipriany, Benjamin R; Benitez, Jaime J; Craighead, Harold G Analytical chemistry 21981444 2011 Nov 1
MicroRNA involvement in esophageal carcinogenesis. David, Stefan; Meltzer, Stephen J Current opinion in pharmacology 21992930 2011 Dec
Effects of single-nucleotide polymorphisms in the human holocarboxylase synthetase gene on enzyme catalysis. Esaki, Shingo; Malkaram, Sridhar A; Zempleni, Janos European journal of human genetics : EJHG 22027809 2012 Apr
Sensitive single-molecule protein quantification and protein complex detection in a microarray format. Tessler, Lee A; Mitra, Robi D Proteomics 22038904 2011 Dec
High levels of nuclear heat-shock factor 1 (HSF1) are associated with poor prognosis in breast cancer. Santagata, Sandro; Hu, Rong; Lin, Nancy U; Mendillo, Marc L; Collins, Laura C; Hankinson, Susan E; Schnitt, Stuart J; Whitesell, Luke; Tamimi, Rulla M; Lindquist, Susan; Ince, Tan A Proceedings of the National Academy of Sciences of the United States of America 22042860 2011 Nov 8
5-Hydroxymethylcytosine is strongly depleted in human cancers but its levels do not correlate with IDH1 mutations. Jin, Seung-Gi; Jiang, Yong; Qiu, Runxiang; Rauch, Tibor A; Wang, Yinsheng; Schackert, Gabriele; Krex, Dietmar; Lu, Qiang; Pfeifer, Gerd P Cancer research 22052461 2011 Dec 15
Pioneer transcription factors: establishing competence for gene expression. Zaret, Kenneth S; Carroll, Jason S Genes & development 22056668 2011 Nov 1
Methylation of the CpG sites only on the sense strand of the APC gene is specific for hepatocellular carcinoma. Jain, Surbhi; Chang, Ting-Tsung; Hamilton, James P; Lin, Selena Y; Lin, Yih-Jyh; Evans, Alison A; Selaru, Florin M; Lin, Pin-Wen; Chen, Shun-Hua; Block, Timothy M; Hu, Chi-Tan; Song, Wei; Meltzer, Stephen J; Su, Ying-Hsiu PloS one 22073196 2011
Epigenomic insights into common disease. Revill, Kate; Tycko, Benjamin Genome medicine. 22085423 2011 Nov 23;
Heat shock reduces stalled RNA polymerase II and nucleosome turnover genome-wide. Teves, Sheila S; Henikoff, Steven Genes & development 22085965 2011 Nov 15
The UCSC Genome Browser database: extensions and updates 2011. Dreszer, Timothy R; Karolchik, Donna; Zweig, Ann S; Hinrichs, Angie S; Raney, Brian J; Kuhn, Robert M; Meyer, Laurence R; Wong, Mathew; Sloan, Cricket A; Rosenbloom, Kate R; Roe, Greg; Rhead, Brooke; Pohl, Andy; Malladi, Venkat S; Li, Chin H; Learned, Kat Nucleic acids research 22086951 2012 Jan
NSD2 links dimethylation of histone H3 at lysine 36 to oncogenic programming. Kuo, Alex J; Cheung, Peggie; Chen, Kaifu; Zee, Barry M; Kioi, Mitomu; Lauring, Josh; Xi, Yuanxin; Park, Ben Ho; Shi, Xiaobing; Garcia, Benjamin A; Li, Wei; Gozani, Or Molecular cell 22099308 2011 Nov 18
Aberrant methylation of the PTPRO gene in peripheral blood as a potential biomarker in esophageal squamous cell carcinoma patients. You, Yan-Jie; Chen, Yu-Ping; Zheng, Xiao-Xuan; Meltzer, Stephen J; Zhang, Hao Cancer letters 22099875 2012 Feb 28
The Human Epigenome Browser at Washington University. Zhou, Xin; Maricque, Brett; Xie, Mingchao; Li, Daofeng; Sundaram, Vasavi; Martin, Eric A; Koebbe, Brian C; Nielsen, Cydney; Hirst, Martin; Farnham, Peggy; Kuhn, Robert M; Zhu, Jingchun; Smirnov, Ivan; Kent, W James; Haussler, David; Madden, Pamela A F; Co Nature methods 22127213 2011 Dec
RRBSMAP: a fast, accurate and user-friendly alignment tool for reduced representation bisulfite sequencing. Xi, Yuanxin; Bock, Christoph; Muller, Fabian; Sun, Deqiang; Meissner, Alexander; Li, Wei Bioinformatics (Oxford, England) 22155871 2012 Feb 1
Genomic distribution and inter-sample variation of non-CpG methylation across human cell types. Ziller, Michael J; Muller, Fabian; Liao, Jing; Zhang, Yingying; Gu, Hongcang; Bock, Christoph; Boyle, Patrick; Epstein, Charles B; Bernstein, Bradley E; Lengauer, Thomas; Gnirke, Andreas; Meissner, Alexander PLoS genetics 22174693 2011 Dec
Analysis of stable and transient protein-protein interactions. Byrum, Stephanie; Smart, Sherri K; Larson, Signe; Tackett, Alan J Methods in molecular biology (Clifton, N.J.) 22183593 2012
Assessment of free energy predictors for ligand binding to a methyllysine histone code reader. Gao C, Herold JM, Kireev D. J Comput Chem 22183769 2012 Mar 5
RNA aptamers that functionally interact with green fluorescent protein and its derivatives. Shui, Bo; Ozer, Abdullah; Zipfel, Warren; Sahu, Nevedita; Singh, Avtar; Lis, John T; Shi, Hua; Kotlikoff, Michael I Nucleic acids research 22189104 2012 Mar
K16-biotinylated histone H4 is overrepresented in repeat regions and participates in the repression of transcriptionally competent genes in human Jurkat lymphoid cells. Rios-Avila, Luisa; Pestinger, Valerie; Zempleni, Janos The Journal of nutritional biochemistry 22192339 2012 Dec
Epigenomic program of Barrett's-associated neoplastic progression reveals possible involvement of insulin signaling pathways. Agarwal, Rachana; Jin, Zhe; Yang, Jian; Mori, Yuriko; Song, Jee Hoon; Kumar, Sahil; Sato, Masato; Cheng, Yulan; Olaru, Alexandru V; Abraham, John M; Verma, Amit; Meltzer, Stephen J Endocrine-related cancer 22194443 2012 Feb
Current status and future prospects for epigenetic psychopharmacology. Boks, Marco P; de Jong, Noelle M; Kas, Martien J H; Vinkers, Christiaan H; Fernandes, Cathy; Kahn, Rene S; Mill, Jonathan; Ophoff, Roel A Epigenetics : official journal of the DNA Methylation Society 22207355 2012 Jan 1
Thermal stability of fibroblast growth factor protein is a determinant factor in regulating self-renewal, differentiation, and reprogramming in human pluripotent stem cells. Chen, Guokai; Gulbranson, Daniel R; Yu, Pengzhi; Hou, Zhonggang; Thomson, James A Stem cells (Dayton, Ohio) 22213113 2012 Apr
Calling cards for DNA-binding proteins in mammalian cells. Wang, Haoyi; Mayhew, David; Chen, Xuhua; Johnston, Mark; Mitra, Robi David Genetics 22214611 2012 Mar
An integrative variant analysis suite for whole exome next-generation sequencing data. Challis, Danny; Yu, Jin; Evani, Uday S; Jackson, Andrew R; Paithankar, Sameer; Coarfa, Cristian; Milosavljevic, Aleksandar; Gibbs, Richard A; Yu, Fuli BMC bioinformatics 22239737 2012
Visualizing cell architecture and molecular location using soft x-ray tomography and correlated cryo-light microscopy. McDermott, Gerry; Le Gros, Mark A; Larabell, Carolyn A Annual review of physical chemistry 22242730 2012
Minireview: Epigenetics of obesity and diabetes in humans. Slomko, Howard; Heo, Hye J; Einstein, Francine H Endocrinology 22253427 2012 Mar
Commentary: The seven plagues of epigenetic epidemiology. Heijmans, Bastiaan T; Mill, Jonathan International journal of epidemiology 22269254 2012 Feb
Retrotransposon profiling of RNA polymerase III initiation sites. Qi, Xiaojie; Daily, Kenneth; Nguyen, Kim; Wang, Haoyi; Mayhew, David; Rigor, Paul; Forouzan, Sholeh; Johnston, Mark; Mitra, Robi David; Baldi, Pierre; Sandmeyer, Suzanne Genome research 22287102 2012 Apr
Exploring the role of the epigenome in multiple sclerosis: a window onto cell-specific transcriptional potential. Kaliszewska, Anna; De Jager, Philip L Journal of neuroimmunology. 22297167 2012 Jul 15;
Library-free methylation sequencing with bisulfite padlock probes. Diep, Dinh; Plongthongkum, Nongluk; Gore, Athurva; Fung, Ho-Lim; Shoemaker, Robert; Zhang, Kun Nature methods 22306810 2012 Mar
Base-resolution analyses of sequence and parent-of-origin dependent DNA methylation in the mouse genome. Xie, Wei; Barr, Cathy L; Kim, Audrey; Yue, Feng; Lee, Ah Young; Eubanks, James; Dempster, Emma L; Ren, Bing Cell 22341451 2012 Feb 17
Lysine succinylation and lysine malonylation in histones. Xie, Zhongyu; Dai, Junbiao; Dai, Lunzhi; Tan, Minjia; Cheng, Zhongyi; Wu, Yeming; Boeke, Jef D; Zhao, Yingming Molecular & cellular proteomics : MCP 22389435 2012 May
Epigenetic and genetic variation at the IGF2/H19 imprinting control region on 11p15.5 is associated with cerebellum weight. Pidsley, Ruth; Dempster, Emma; Troakes, Claire; Al-Sarraj, Safa; Mill, Jonathan Epigenetics : official journal of the DNA Methylation Society 22395465 2012 Feb
DNA methylation shows genome-wide association of NFIX, RAPGEF2 and MSRB3 with gestational age at birth. Lee, Hwajin; Jaffe, Andrew E; Feinberg, Jason I; Tryggvadottir, Rakel; Brown, Shannon; Montano, Carolina; Aryee, Martin J; Irizarry, Rafael A; Herbstman, Julie; Witter, Frank R; Goldman, Lynn R; Feinberg, Andrew P; Fallin, M Daniele International journal of epidemiology 22422452 2012 Feb
Bump hunting to identify differentially methylated regions in epigenetic epidemiology studies. Jaffe, Andrew E; Murakami, Peter; Lee, Hwajin; Leek, Jeffrey T; Fallin, M Daniele; Feinberg, Andrew P; Irizarry, Rafael A International journal of epidemiology 22422453 2012 Feb
ARF suppresses hepatic vascular neoplasia in a carcinogen-exposed murine model. Busch, Stephanie E; Gurley, Kay E; Moser, Russell D; Kemp, Christopher J The Journal of pathology 22430984 2012 Jul
Application of MassSQUIRM for quantitative measurements of lysine demethylase activity. Blair, Lauren P; Avaritt, Nathan L; Tackett, Alan J Journal of visualized experiments : JoVE 22433969 2012
Quantitative assessment of chromatin immunoprecipitation grade antibodies directed against histone modifications reveals patterns of co-occurring marks on histone protein molecules. Peach, Sally E; Rudomin, Emily L; Udeshi, Namrata D; Carr, Steven A; Jaffe, Jacob D Molecular & cellular proteomics : MCP 22442256 2012 May
A unique regulatory phase of DNA methylation in the early mammalian embryo. Smith, Zachary D; Chan, Michelle M; Mikkelsen, Tarjei S; Gu, Hongcang; Gnirke, Andreas; Regev, Aviv; Meissner, Alexander Nature 22456710 2012 Apr 19
The transcription factor encyclopedia. Yusuf, Dimas; Butland, Stefanie L; Swanson, Magdalena I; Bolotin, Eugene; Ticoll, Amy; Cheung, Warren A; Zhang, Xiao Yu Cindy; Dickman, Christopher T D; Fulton, Debra L; Lim, Jonathan S; Schnabl, Jake M; Ramos, Oscar H P; Vasseur-Cognet, Mireille; de Leeu Genome biology 22458515 2012
MicroRNA-21 inhibits Serpini1, a gene with novel tumour suppressive effects in gastric cancer. Yamanaka, Sumitaka; Olaru, Alexandru V; An, Fangmei; Luvsanjav, Delgermaa; Jin, Zhe; Agarwal, Rachana; Tomuleasa, Ciprian; Popescu, Irinel; Alexandrescu, Sorin; Dima, Simona; Chivu-Economescu, Mihaela; Montgomery, Elizabeth A; Torbenson, Michael; Meltzer, Digestive and liver disease : official journal of the Italian Society of Gastroenterology and the Italian Association for the Study of the Liver 22464652 2012 Jul
Sequential ChIP-bisulfite sequencing enables direct genome-scale investigation of chromatin and DNA methylation cross-talk. Brinkman, Arie B; Gu, Hongcang; Bartels, Stefanie J J; Zhang, Yingying; Matarese, Filomena; Simmer, Femke; Marks, Hendrik; Bock, Christoph; Gnirke, Andreas; Meissner, Alexander; Stunnenberg, Hendrik G Genome research 22466170 2012 Jun
Efficient iPS cell production with the MyoD transactivation domain in serum-free culture. Hirai, Hiroyuki; Katoku-Kikyo, Nobuko; Karian, Peter; Firpo, Meri; Kikyo, Nobuaki PloS one 22479546 2012
LARP7 is a potential tumor suppressor gene in gastric cancer. Cheng, Yulan; Jin, Zhe; Agarwal, Rachana; Ma, Ke; Yang, Jian; Ibrahim, Soibrahim; Olaru, Alexandru V; David, Stefan; Ashktorab, Hassan; Smoot, Duane T; Duncan, Mark D; Hutcheon, David F; Abraham, John M; Meltzer, Stephen J; Mori, Yuriko Laboratory investigation; a journal of technical methods and pathology 22488152 2012 Jul
The clonal and mutational evolution spectrum of primary triple-negative breast cancers. Shah, Sohrab P; Roth, Andrew; Goya, Rodrigo; Oloumi, Arusha; Ha, Gavin; Zhao, Yongjun; Turashvili, Gulisa; Ding, Jiarui; Tse, Kane; Haffari, Gholamreza; Bashashati, Ali; Prentice, Leah M; Khattra, Jaswinder; Burleigh, Angela; Yap, Damian; Bernard, Virgini Nature 22495314 2012 Jun 21
Biotin. Zempleni, Janos; Kuroishi, Toshinobu Advances in nutrition (Bethesda, Md.) 22516729 2012 Mar
Challenges of linking early-life conditions and disease susceptibility. Einstein, Francine H Diabetes 22517650 2012 May
Genome-wide DNA methylation analysis reveals novel epigenetic changes in chronic lymphocytic leukemia. Pei, Lirong; Choi, Jeong-Hyeon; Liu, Jimei; Lee, Eun-Joon; McCarthy, Brian; Wilson, James M; Speir, Ethan; Awan, Farrukh; Tae, Hongseok; Arthur, Gerald; Schnabel, Jennifer L; Taylor, Kristen H; Wang, Xinguo; Xu, Dong; Ding, Han-Fei; Munn, David H; Caldwel Epigenetics : official journal of the DNA Methylation Society 22534504 2012 Jun 1
Impact of the location of CpG methylation within the GSTP1 gene on its specificity as a DNA marker for hepatocellular carcinoma. Jain, Surbhi; Chen, Sitong; Chang, Kung-Chao; Lin, Yih-Jyh; Hu, Chi-Tan; Boldbaatar, Batbold; Hamilton, James P; Lin, Selena Y; Chang, Ting-Tsung; Chen, Shun-Hua; Song, Wei; Meltzer, Stephen J; Block, Timothy M; Su, Ying-Hsiu PloS one 22536438 2012
Consensus statements for management of Barrett's dysplasia and early-stage esophageal adenocarcinoma, based on a Delphi process. Bennett, Cathy; Vakil, Nimish; Bergman, Jacques; Harrison, Rebecca; Odze, Robert; Vieth, Michael; Sanders, Scott; Gay, Laura; Pech, Oliver; Longcroft-Wheaton, Gaius; Romero, Yvonne; Inadomi, John; Tack, Jan; Corley, Douglas A; Manner, Hendrik; Green, Susi; Al Dulaimi, David; Ali, Haythem; Allum, Bill; Anderson, Mark; Curtis, Howard; Falk, Gary; Fennerty, M Brian; Fullarton, Grant; Krishnadath, Kausilia; Meltzer, Stephen J; Armstrong, David; Ganz, Robert; Cengia, Gianpaolo; Going, James J; Goldblum, John; Gordon, Charles; Grabsch, Heike; Haigh, Chris; Hongo, Michio; Johnston, David; Forbes-Young, Ricky; Kay, Elaine; Kaye, Philip; Lerut, Toni; Lovat, Laurence B; Lundell, Lars; Mairs, Philip; Shimoda, Tadakuza; Spechler, Stuart; Sontag, Stephen; Malfertheiner, Peter; Murray, Iain; Nanji, Manoj; Poller, David; Ragunath, Krish; Regula, Jaroslaw; Cestari, Renzo; Shepherd, Neil; Singh, Rajvinder; Stein, Hubert J; Talley, Nicholas J; Galmiche, Jean-Paul; Tham, Tony C K; Watson, Peter; Yerian, Lisa; Rugge, Massimo; Rice, Thomas W; Hart, John; Gittens, Stuart; Hewin, David; Hochberger, Juergen; Kahrilas, Peter; Preston, Sean; Sampliner, Richard; Sharma, Prateek; Stuart, Robert; Wang, Kenneth; Waxman, Irving; Abley, Chris; Loft, Duncan; Penman, Ian; Shaheen, Nicholas J; Chak, Amitabh; Davies, Gareth; Dunn, Lorna; Falck-Ytter, Yngve; Decaestecker, John; Bhandari, Pradeep; Ell, Christian; Griffin, S Michael; Attwood, Stephen; Barr, Hugh; Allen, John; Ferguson, Mark K; Moayyedi, Paul; Jankowski, Janusz A Z Gastroenterology. 22537613 2012 Aug;
Genotype patterns at PICALM, CR1, BIN1, CLU, and APOE genes are associated with episodic memory. Barral, S; Bird, T; Goate, A; Farlow, M R; Diaz-Arrastia, R; Bennett, D A; Graff-Radford, N; Boeve, B F; Sweet, R A; Stern, Y; Wilson, R S; Foroud, T; Ott, J; Mayeux, R; National Institute on Aging Late-Onset Alzheimer's Disease Genetics Study Neurology 22539578 2012 May 8
Proteomic technologies for the study of osteosarcoma. Byrum, Stephanie D; Washam, Charity L; Montgomery, Corey O; Tackett, Alan J; Suva, Larry J Sarcoma. 22550414 2012;
Erosion of dosage compensation impacts human iPSC disease modeling. Mekhoubad, Shila; Bock, Christoph; de Boer, A Sophie; Kiskinis, Evangelos; Meissner, Alexander; Eggan, Kevin Cell stem cell 22560080 2012 May 4
BEDOPS: high-performance genomic feature operations. Neph, Shane; Kuehn, M Scott; Reynolds, Alex P; Haugen, Eric; Thurman, Robert E; Johnson, Audra K; Rynes, Eric; Maurano, Matthew T; Vierstra, Jeff; Thomas, Sean; Sandstrom, Richard; Humbert, Richard; Stamatoyannopoulos, John A Bioinformatics (Oxford, England) 22576172 2012 Jul 15
Real-time analysis and selection of methylated DNA by fluorescence-activated single molecule sorting in a nanofluidic channel. Cipriany, Benjamin R; Murphy, Patrick J; Hagarman, James A; Cerf, Aline; Latulippe, David; Levy, Stephen L; Benitez, Jaime J; Tan, Christine P; Topolancik, Juraj; Soloway, Paul D; Craighead, Harold G Proceedings of the National Academy of Sciences of the United States of America 22586076 2012 May 29
Base-resolution analysis of 5-hydroxymethylcytosine in the mammalian genome. Yu, Miao; Hon, Gary C; Szulwach, Keith E; Song, Chun-Xiao; Zhang, Liang; Kim, Audrey; Li, Xuekun; Dai, Qing; Shen, Yin; Park, Beomseok; Min, Jung-Hyun; Jin, Peng; Ren, Bing; He, Chuan Cell 22608086 2012 Jun 8
Genomic hypomethylation in the human germline associates with selective structural mutability in the human genome. Li, Jian; Harris, R Alan; Cheung, Sau Wai; Coarfa, Cristian; Jeong, Mira; Goodell, Margaret A; White, Lisa D; Patel, Ankita; Kang, Sung-Hae; Shaw, Chad; Chinault, A Craig; Gambin, Tomasz; Gambin, Anna; Lupski, James R; Milosavljevic, Aleksandar PLoS genetics 22615578 2012
Epigenetics of major psychosis: progress, problems and perspectives. Labrie, Viviane; Pai, Shraddha; Petronis, Arturas Trends in genetics : TIG 22622229 2012 Sep
Comparative epigenomic annotation of regulatory DNA. Xiao, Shu; Xie, Dan; Cao, Xiaoyi; Yu, Pengfei; Xing, Xiaoyun; Chen, Chieh-Chun; Musselman, Meagan; Xie, Mingchao; West, Franklin D; Lewin, Harris A; Wang, Ting; Zhong, Sheng Cell 22682255 2012 Jun 8
Use of laser capture microdissection for analysis of retinal mRNA/miRNA expression and DNA methylation. Hackler Jr, Laszlo; Masuda, Tomohiro; Oliver, Verity F; Merbs, Shannath L; Zack, Donald J Methods in molecular biology (Clifton, N.J.) 22688715 2012
Emerging role of autophagy in kidney function, diseases and aging. Huber, Tobias B; Edelstein, Charles L; Hartleben, Björn; Inoki, Ken; Jiang, Man; Koya, Daisuke; Kume, Shinji; Lieberthal, Wilfred; Pallet, Nicolas; Quiroga, Alejandro; Ravichandran, Kameswaran; Susztak, Katalin; Yoshida, Sei; Dong, Zheng Autophagy 22692002 2012 Jul 01
IS-seq: a novel high throughput survey of in vivo IS6110 transposition in multiple Mycobacterium tuberculosis genomes. Reyes, Alejandro; Sandoval, Andrea; Cubillos-Ruiz, Andres; Varley, Katherine E; Hernandez-Neuta, Ivan; Samper, Sofia; Martin, Carlos; Garcia, Maria Jesus; Ritacco, Viviana; Lopez, Lucelly; Robledo, Jaime; Zambrano, Maria Mercedes; Mitra, Robi D; Del Porti BMC genomics 22703188 2012
Functional annotation of the human brain methylome identifies tissue-specific epigenetic variation across brain and blood. Davies, Matthew N; Volta, Manuela; Pidsley, Ruth; Lunnon, Katie; Dixit, Abhishek; Lovestone, Simon; Coarfa, Cristian; Harris, R Alan; Milosavljevic, Aleksandar; Troakes, Claire; Al-Sarraj, Safa; Dobson, Richard; Schalkwyk, Leonard C; Mill, Jonathan Genome biology 22703893 2012
Stochastic choice of allelic expression in human neural stem cells. Jeffries, Aaron R; Perfect, Leo W; Ledderose, Julia; Schalkwyk, Leonard C; Bray, Nicholas J; Mill, Jonathan; Price, Jack Stem cells (Dayton, Ohio) 22714879 2012 Sep
Establishment of LIF-dependent human iPS cells closely related to basic FGF-dependent authentic iPS cells. Hirai, Hiroyuki; Firpo, Meri; Kikyo, Nobuaki PloS one 22720020 2012
Histone H3R2 symmetric dimethylation and histone H3K4 trimethylation are tightly correlated in eukaryotic genomes. Yuan, Chih-Chi; Matthews, Adam G W; Jin, Yi; Chen, Chang Feng; Chapman, Brad A; Ohsumi, Toshiro K; Glass, Karen C; Kutateladze, Tatiana G; Borowsky, Mark L; Struhl, Kevin; Oettinger, Marjorie A Cell reports 22720264 2012 Feb 23
SIRT7 links H3K18 deacetylation to maintenance of oncogenic transformation. Barber, Matthew F; Michishita-Kioi, Eriko; Xi, Yuanxin; Tasselli, Luisa; Kioi, Mitomu; Moqtaderi, Zarmik; Tennen, Ruth I; Paredes, Silvana; Young, Nicolas L; Chen, Kaifu; Struhl, Kevin; Garcia, Benjamin A; Gozani, Or; Li, Wei; Chua, Katrin F Nature 22722849 2012 Jul 5
Misregulation of Rad50 expression in melanoma cells. Avaritt, Nathan L; Owings, Richard; Reynolds, Matthew; Larson, Signe K; Byrum, Stephanie; Hiatt, Kim M; Smoller, Bruce R; Tackett, Alan J; Cheung, Wang L Journal of cutaneous pathology 22725639 2012 Jul
Global identification of transcriptional regulators of pluripotency and differentiation in embryonic stem cells. Won, Kyoung-Jae; Xu, Zheng; Zhang, Xian; Whitaker, John W; Shoemaker, Robert; Ren, Bing; Xu, Yang; Wang, Wei Nucleic acids research 22730289 2012 Sep 1
Detection of rare genomic variants from pooled sequencing using SPLINTER. Vallania, Francesco; Ramos, Enrique; Cresci, Sharon; Mitra, Robi D; Druley, Todd E Journal of visualized experiments : JoVE 22760212 2012
Crebinostat: a novel cognitive enhancer that inhibits histone deacetylase activity and modulates chromatin-mediated neuroplasticity. Fass, Daniel M; Reis, Surya A; Ghosh, Balaram; Hennig, Krista M; Joseph, Nadine F; Zhao, Wen-Ning; Nieland, Thomas J F; Guan, Ji-Song; Kuhnle, Chelsea E Groves; Tang, Weiping; Barker, Douglas D; Mazitschek, Ralph; Schreiber, Stuart L; Tsai, Li-Huei; Hagga Neuropharmacology 22771460 2013 Jan
Genome organizing function of SATB1 in tumor progression. Kohwi-Shigematsu, Terumi; Poterlowicz, Krzysztof; Ordinario, Ellen; Han, Hye-Jung; Botchkarev, Vladimir A; Kohwi, Yoshinori Seminars in cancer biology 22771615 2013 Apr
RAD51 mutants cause replication defects and chromosomal instability. Kim, Tae Moon; Ko, Jun Ho; Hu, Lingchuan; Kim, Sung-A; Bishop, Alexander J R; Vijg, Jan; Montagna, Cristina; Hasty, Paul Molecular and cellular biology 22778135 2012 Sep
SATB1-mediated functional packaging of chromatin into loops. Kohwi-Shigematsu, Terumi; Kohwi, Yoshinori; Takahashi, Keiko; Richards, Hunter W; Ayers, Stephen D; Han, Hye-Jung; Cai, Shutao Methods (San Diego, Calif.). 22782115 2012 Nov;
A random change point model for cognitive decline in Alzheimer's disease and mild cognitive impairment. Yu, Lei; Boyle, Patricia; Wilson, Robert S; Segawa, Eisuke; Leurgans, Sue; De Jager, Philip L; Bennett, David A Neuroepidemiology 22814083 2012
Ordered arrays of native chromatin molecules for high-resolution imaging and analysis. Cerf, Aline; Tian, Harvey C; Craighead, Harold G ACS nano 22816516 2012 Sep 25
CpG island structure and trithorax/polycomb chromatin domains in human cells. Orlando, David A; Guenther, Matthew G; Frampton, Garrett M; Young, Richard A Genomics 22819920 2012 Nov
Methylation by Set9 modulates FoxO3 stability and transcriptional activity. Calnan, Daniel R; Webb, Ashley E; White, Jamie L; Stowe, Timothy R; Goswami, Tapasree; Shi, Xiaobing; Espejo, Alexsandra; Bedford, Mark T; Gozani, Or; Gygi, Steven P; Brunet, Anne Aging 22820736 2012 Jul
Borrelidin modulates the alternative splicing of VEGF in favour of anti-angiogenic isoforms. Woolard, Jeanette; Vousden, William; Moss, Steven J; Krishnakumar, Arjun; Gammons, Melissa Vr; Nowak, David G; Dixon, Neil; Micklefield, Jason; Spannhoff, Astrid; Bedford, Mark T; Gregory, Matthew A; Martin, Christine J; Leadlay, Peter F; Zhang, Ming Q; Harper, Steven J; Bates, David O; Wilkinson, Barrie Chemical science. 22822423 2011 Feb 01;
BCLAF1 is a radiation-induced H2AX-interacting partner involved in ýýH2AX-mediated regulation of apoptosis and DNA repair. Lee, Y Y; Yu, Y B; Gunawardena, H P; Xie, L; Chen, X Cell death & disease 22833098 2012
ChAP-MS: a method for identification of proteins and histone posttranslational modifications at a single genomic locus. Byrum, Stephanie D; Raman, Ana; Taverna, Sean D; Tackett, Alan J Cell reports 22840409 2012 Jul 26
Opposite orientations of a transcription factor heterodimer bind DNA cooperatively with interaction partners but have different effects on interferon-ýý gene transcription. Burns, Veronica; Kerppola, Tom Klaus The Journal of biological chemistry 22843696 2012 Sep 14
HSF1 drives a transcriptional program distinct from heat shock to support highly malignant human cancers. Mendillo, Marc L; Santagata, Sandro; Koeva, Martina; Bell, George W; Hu, Rong; Tamimi, Rulla M; Fraenkel, Ernest; Ince, Tan A; Whitesell, Luke; Lindquist, Susan Cell 22863008 2012 Aug 3
Comparative genomic analysis of esophageal adenocarcinoma and squamous cell carcinoma. Agrawal, Nishant; Jiao, Yuchen; Bettegowda, Chetan; Hutfless, Susan M; Wang, Yuxuan; David, Stefan; Cheng, Yulan; Twaddell, William S; Latt, Nyan L; Shin, Eun J; Wang, Li-Dong; Wang, Liang; Yang, Wancai; Velculescu, Victor E; Vogelstein, Bert; Papadopoulo Cancer discovery 22877736 2012 Oct
Mouse ooplasm confers context-specific reprogramming capacity. Chan, Michelle M; Smith, Zachary D; Egli, Dieter; Regev, Aviv; Meissner, Alexander Nature genetics 22902786 2012 Sep
The UCSC genome browser and associated tools. Kuhn, Robert M; Haussler, David; Kent, W James Briefings in bioinformatics 22908213 2013 Mar
Epigenetic obstacles encountered by transcription factors: reprogramming against all odds. Gifford, Casey A; Meissner, Alexander Current opinion in genetics & development 22922161 2012 Oct
Genome-wide epigenetic data facilitate understanding of disease susceptibility association studies. Hardison, Ross C The Journal of biological chemistry 22952232 2012 Sep 7
Transcription factor-mediated epigenetic reprogramming. Sindhu, Camille; Samavarchi-Tehrani, Payman; Meissner, Alexander The Journal of biological chemistry 22952239 2012 Sep 7
Comb-p: software for combining, analyzing, grouping and correcting spatially correlated P-values. Pedersen, Brent S; Schwartz, David A; Yang, Ivana V; Kechris, Katerina J Bioinformatics (Oxford, England) 22954632 2012 Nov 15
Systematic localization of common disease-associated variation in regulatory DNA. Maurano MT, Humbert R, Rynes E, Thurman RE, Haugen E, Wang H, Reynolds AP, Sandstrom R, Qu H, Brody J, Shafer A, Neri F, Lee K, Kutyavin T, Stehling-Sun S, Johnson AK, Canfield TK, Giste E, Diegel M, Bates D, Hansen RS, Neph S, et al. Science 22955828 2012 Sep 7
Repair problems in podocytes: Wnt, Notch, and glomerulosclerosis. Kato, Hideki; Susztak, Katalin Seminars in nephrology 22958489 2012 Jul
Spark: a navigational paradigm for genomic data exploration. Nielsen, Cydney B; Younesy, Hamid; O'Geen, Henriette; Xu, Xiaoqin; Jackson, Andrew R; Milosavljevic, Aleksandar; Wang, Ting; Costello, Joseph F; Hirst, Martin; Farnham, Peggy J; Jones, Steven J M Genome research 22960372 2012 Nov
5-hmC in the brain is abundant in synaptic genes and shows differences at the exon-intron boundary. Khare, Tarang; Pai, Shraddha; Koncevicius, Karolis; Pal, Mrinal; Kriukiene, Edita; Liutkeviciute, Zita; Irimia, Manuel; Jia, Peixin; Ptak, Carolyn; Xia, Menghang; Tice, Raymond; Tochigi, Mamoru; Morera, Solange; Nazarians, Anaies; Belsham, Denise; Wong, Albert H C; Blencowe, Benjamin J; Wang, Sun Chong; Kapranov, Philipp; Kustra, Rafal; Labrie, Viviane; Klimasauskas, Saulius; Petronis, Arturas Nature structural & molecular biology 22961382 2012 Oct
5-hmC in the brain is abundant in synaptic genes and shows differences at the exon-intron boundary. Khare, Tarang; Pai, Shraddha; Koncevicius, Karolis; Pal, Mrinal; Kriukiene, Edita; Liutkeviciute, Zita; Irimia, Manuel; Jia, Peixin; Ptak, Carolyn; Xia, Menghang; Tice, Raymond; Tochigi, Mamoru; Morera, Solange; Nazarians, Anaies; Belsham, Denise; Wong, A Nature structural & molecular biology 22961382 2012 Oct
High-fat or ethinyl-oestradiol intake during pregnancy increases mammary cancer risk in several generations of offspring. de Assis, Sonia; Warri, Anni; Cruz, M Idalia; Laja, Olusola; Tian, Ye; Zhang, Bai; Wang, Yue; Huang, Tim Hui-Ming; Hilakivi-Clarke, Leena Nature communications 22968699 2012
A maternal high-fat diet modulates fetal SIRT1 histone and protein deacetylase activity in nonhuman primates. Suter, Melissa A; Chen, Aishe; Burdine, Marie S; Choudhury, Mahua; Harris, R Alan; Lane, Robert H; Friedman, Jacob E; Grove, Kevin L; Tackett, Alan J; Aagaard, Kjersti M FASEB journal : official publication of the Federation of American Societies for Experimental Biology 22982377 2012 Dec
Online tools for bioinformatics analyses in nutrition sciences. Malkaram, Sridhar A; Hassan, Yousef I; Zempleni, Janos Advances in nutrition (Bethesda, Md.) 22983844 2012
Microfluidic extraction, stretching and analysis of human chromosomal DNA from single cells. Benítez, Jaime J; Topolancik, Juraj; Tian, Harvey C; Wallin, Christopher B; Latulippe, David R; Szeto, Kylan; Murphy, Patrick J; Cipriany, Benjamin R; Levy, Stephen L; Soloway, Paul D; Craighead, Harold G Lab on a chip. 23018789 2012 Nov 21;
Transcriptional amplification in tumor cells with elevated c-Myc. Lin, Charles Y; Loven, Jakob; Rahl, Peter B; Paranal, Ronald M; Burge, Christopher B; Bradner, James E; Lee, Tong Ihn; Young, Richard A Cell 23021215 2012 Sep 28
Epigenetic mechanisms and the development of asthma. Yang, Ivana V; Schwartz, David A The Journal of allergy and clinical immunology 23026498 2012 Dec
Combination therapy: histone deacetylase inhibitors and platinum-based chemotherapeutics for cancer. Diyabalanage, Himashinie V K; Granda, Michael L; Hooker, Jacob M Cancer letters 23032720 2013 Feb 1
Aging effects on DNA methylation modules in human brain and blood tissue. Horvath, Steve; Zhang, Yafeng; Langfelder, Peter; Kahn, Rene S; Boks, Marco Pm; van Eijk, Kristel; van den Berg, Leonard H; Ophoff, Roel A Genome biology 23034122 2012 Oct 3
Gel-free multiplexed reduced representation bisulfite sequencing for large-scale DNA methylation profiling. Boyle, Patrick; Clement, Kendell; Gu, Hongcang; Smith, Zachary D; Ziller, Michael; Fostel, Jennifer L; Holmes, Laurie; Meldrim, Jim; Kelley, Fontina; Gnirke, Andreas; Meissner, Alexander Genome biology. 23034176 2012;
Broad ranges of affinity and specificity of anti-histone antibodies revealed by a quantitative peptide immunoprecipitation assay. Nishikori, Shingo; Hattori, Takamitsu; Fuchs, Stephen M; Yasui, Norihisa; Wojcik, John; Koide, Akiko; Strahl, Brian D; Koide, Shohei Journal of molecular biology 23041298 2012 Dec 14
sarA-mediated repression of protease production plays a key role in the pathogenesis of Staphylococcus aureus USA300 isolates. Zielinska, Agnieszka K; Beenken, Karen E; Mrak, Lara N; Spencer, Horace J; Post, Ginell R; Skinner, Robert A; Tackett, Alan J; Horswill, Alexander R; Smeltzer, Mark S Molecular microbiology 23075270 2012 Dec
Progressive degeneration of human neural stem cells caused by pathogenic LRRK2. Liu, Guang-Hui; Qu, Jing; Suzuki, Keiichiro; Nivet, Emmanuel; Li, Mo; Montserrat, Nuria; Yi, Fei; Xu, Xiuling; Ruiz, Sergio; Zhang, Weiqi; Wagner, Ulrich; Kim, Audrey; Ren, Bing; Li, Ying; Goebl, April; Kim, Jessica; Soligalla, Rupa Devi; Dubova, Ilir; Th Nature 23075850 2012 Nov 22
Surveying the epigenomic landscape, one base at a time. Zentner, Gabriel E; Henikoff, Steven Genome biology 23088423 2012 Oct 22
Passaging and colony expansion of human pluripotent stem cells by enzyme-free dissociation in chemically defined culture conditions. Beers, Jeanette; Gulbranson, Daniel R; George, Nicole; Siniscalchi, Lauren I; Jones, Jeffrey; Thomson, James A; Chen, Guokai Nature protocols 23099485 2012 Nov
Revisiting global gene expression analysis. Loven, Jakob; Orlando, David A; Sigova, Alla A; Lin, Charles Y; Rahl, Peter B; Burge, Christopher B; Levens, David L; Lee, Tong Ihn; Young, Richard A Cell 23101621 2012 Oct 26
'Leveling' the playing field for analyses of single-base resolution DNA methylomes. Schultz, Matthew D; Schmitz, Robert J; Ecker, Joseph R Trends in genetics : TIG 23131467 2012 Dec
Atlas2 Cloud: a framework for personal genome analysis in the cloud. Evani, Uday S; Challis, Danny; Yu, Jin; Jackson, Andrew R; Paithankar, Sameer; Bainbridge, Matthew N; Jakkamsetti, Adinarayana; Pham, Peter; Coarfa, Cristian; Milosavljevic, Aleksandar; Yu, Fuli BMC genomics 23134663 2012
A modulator based regulatory network for ERýý signaling pathway. Wu, Heng-Yi; Zheng, Pengyue; Jiang, Guanglong; Liu, Yunlong; Nephew, Kenneth P; Huang, Tim H M; Li, Lang BMC genomics 23134758 2012
Nuclear aggregation of olfactory receptor genes governs their monogenic expression. Clowney, E Josephine; LeGros, Mark A; Mosley, Colleen P; Clowney, Fiona G; Markenskoff-Papadimitriou, Eirene C; Myllys, Markko; Barnea, Gilad; Larabell, Carolyn A; Lomvardas, Stavros Cell 23141535 2012 Nov 9
The UCSC Genome Browser database: extensions and updates 2013. Meyer, Laurence R; Zweig, Ann S; Hinrichs, Angie S; Karolchik, Donna; Kuhn, Robert M; Wong, Matthew; Sloan, Cricket A; Rosenbloom, Kate R; Roe, Greg; Rhead, Brooke; Raney, Brian J; Pohl, Andy; Malladi, Venkat S; Li, Chin H; Lee, Brian T; Learned, Katrina; Nucleic acids research 23155063 2013 Jan
Genetic analysis of DNA methylation and gene expression levels in whole blood of healthy human subjects. van Eijk, Kristel R; de Jong, Simone; Boks, Marco P M; Langeveld, Terry; Colas, Fabrice; Veldink, Jan H; de Kovel, Carolien G F; Janson, Esther; Strengman, Eric; Langfelder, Peter; Kahn, Rene S; van den Berg, Leonard H; Horvath, Steve; Ophoff, Roel A BMC genomics 23157493 2012
Hierarchical modularity in ERýý transcriptional network is associated with distinct functions and implicates clinical outcomes. Tang, Binhua; Hsu, Hang-Kai; Hsu, Pei-Yin; Bonneville, Russell; Chen, Su-Shing; Huang, Tim H-M; Jin, Victor X Scientific reports 23166858 2012
Physical and functional interaction between yeast Pif1 helicase and Rim1 single-stranded DNA binding protein. Ramanagoudr-Bhojappa, Ramanagouda; Blair, Lauren P; Tackett, Alan J; Raney, Kevin D Nucleic acids research 23175612 2013 Jan
Tet-assisted bisulfite sequencing of 5-hydroxymethylcytosine. Yu, Miao; Hon, Gary C; Szulwach, Keith E; Song, Chun-Xiao; Jin, Peng; Ren, Bing; He, Chuan Nature protocols 23196972 2012 Dec
Analyzing the cancer methylome through targeted bisulfite sequencing. Lee, Eun-Joon; Luo, Junfeng; Wilson, James M; Shi, Huidong Cancer letters 23200671 2012 Nov 28
Defined, serum-free conditions for in vitro culture of primary human T-ALL blasts. Yost, A J; Shevchuk, O O; Gooch, R; Gusscott, S; You, M J; Ince, T A; Aster, J C; Weng, A P Leukemia 23246990 2013 Jun
Functional characterization of piggyBat from the bat Myotis lucifugus unveils an active mammalian DNA transposon. Mitra, Rupak; Li, Xianghong; Kapusta, Aurelie; Mayhew, David; Mitra, Robi D; Feschotte, Cedric; Craig, Nancy L Proceedings of the National Academy of Sciences of the United States of America 23248290 2013 Jan 2
Using the Wash U Epigenome Browser to examine genome-wide sequencing data. Zhou, Xin; Wang, Ting Current protocols in bioinformatics / editoral board, Andreas D. Baxevanis ... [et al.] 23255151 2012 Dec
Enrichment of meiotic recombination hotspot sequences by avidin capture technology. Camara Teixeira, Daniel; Malkaram, Sridhar A; Zempleni, Janos Gene 23270922 2013 Mar 1
A novel Bayesian change-point algorithm for genome-wide analysis of diverse ChIPseq data types. Xing, Haipeng; Liao, Willey; Mo, Yifan; Zhang, Michael Q Journal of visualized experiments : JoVE 23271069 2012
Synaptic genes are extensively downregulated across multiple brain regions in normal human aging and Alzheimer's disease. Berchtold, Nicole C; Coleman, Paul D; Cribbs, David H; Rogers, Joseph; Gillen, Daniel L; Cotman, Carl W Neurobiology of aging 23273601 2013 Jun
Major chromosomal breakpoint intervals in breast cancer co-localize with differentially methylated regions. Tang, Man-Hung; Varadan, Vinay; Kamalakaran, Sitharthan; Zhang, Michael Q; Dimitrova, Nevenka; Hicks, James Frontiers in oncology. 23293768 2012;
Differential processing of amyloid precursor protein in brain and in peripheral blood leukocytes. Delvaux, Elaine; Bentley, Karen; Stubbs, Victoria; Sabbagh, Marwan; Coleman, Paul D Neurobiology of aging 23298733 2013 Jun
The simplest explanation: passive DNA demethylation in PGCs. Smith, Zachary D; Meissner, Alexander The EMBO journal 23299938 2013 Feb 6
Identification and assessment of markers of biotin status in healthy adults. Eng, Wei Kay; Giraud, David; Schlegel, Vicki L; Wang, Dong; Lee, Bo Hyun; Zempleni, Janos The British journal of nutrition 23302490 2013 Jul 28
Reduced RAN expression and disrupted transport between cytoplasm and nucleus; a key event in Alzheimer's disease pathophysiology. Mastroeni, Diego; Chouliaras, Leonidas; Grover, Andrew; Liang, Winnie S; Hauns, Kevin; Rogers, Joseph; Coleman, Paul D PloS one 23308199 2013
Genome-wide chromatin state transitions associated with developmental and environmental cues. Zhu, Jiang; Adli, Mazhar; Zou, James Y; Verstappen, Griet; Coyne, Michael; Zhang, Xiaolan; Durham, Timothy; Miri, Mohammad; Deshpande, Vikram; De Jager, Philip L; Bennett, David A; Houmard, Joseph A; Muoio, Deborah M; Onder, Tamer T; Camahort, Ray; Cowan, Cell 23333102 2013 Jan 31
Hypomethylation of noncoding DNA regions and overexpression of the long noncoding RNA, AFAP1-AS1, in Barrett's esophagus and esophageal adenocarcinoma. Wu, Wenjing; Bhagat, Tushar D; Yang, Xue; Song, Jee Hoon; Cheng, Yulan; Agarwal, Rachana; Abraham, John M; Ibrahim, Sariat; Bartenstein, Matthias; Hussain, Zulfiqar; Suzuki, Masako; Yu, Yiting; Chen, Wei; Eng, Charis; Greally, John; Verma, Amit; Meltzer, Gastroenterology 23333711 2013 May
Holocarboxylase synthetase interacts physically with euchromatic histone-lysine N-methyltransferase, linking histone biotinylation with methylation events. Li, Yong; Hassan, Yousef I; Moriyama, Hideaki; Zempleni, Janos The Journal of nutritional biochemistry 23337344 2013 Aug
Bookmarking by specific and nonspecific binding of FoxA1 pioneer factor to mitotic chromosomes. Caravaca, Juan Manuel; Donahue, Greg; Becker, Justin S; He, Ximiao; Vinson, Charles; Zaret, Kenneth S Genes & development 23355396 2013 Feb 1
Histone acetyltransferase cofactor Trrap maintains self-renewal and restricts differentiation of embryonic stem cells. Sawan, Carla; Hernandez-Vargas, Hector; Murr, Rabih; Lopez, Fabrice; Vaissiere, Thomas; Ghantous, Akram Y; Cuenin, Cyrille; Imbert, Jean; Wang, Zhao-Qi; Ren, Bing; Herceg, Zdenko Stem cells (Dayton, Ohio). 23362228 2013 May;
Myogenin recruits the histone chaperone facilitates chromatin transcription (FACT) to promote nucleosome disassembly at muscle-specific genes. Lolis, Alexandra A; Londhe, Priya; Beggs, Benjamin C; Byrum, Stephanie D; Tackett, Alan J; Davie, Judith K The Journal of biological chemistry 23364797 2013 Mar 15
Genome-wide analysis uncovers high frequency, strong differential chromosomal interactions and their associated epigenetic patterns in E2-mediated gene regulation. Wang, Junbai; Lan, Xun; Hsu, Pei-Yin; Hsu, Hang-Kai; Huang, Kun; Parvin, Jeffrey; Huang, Tim H-M; Jin, Victor X BMC genomics 23368971 2013
Separation and purification of multiply acetylated proteins using cation-exchange chromatography. Papazyan, Romeo; Taverna, Sean D Methods in molecular biology (Clifton, N.J.) 23381856 2013
A sequence variant in the phospholipase C epsilon C2 domain is associated with esophageal carcinoma and esophagitis. Wang, Li-Dong; Bi, Xiuli; Song, Xin; Pohl, Nicole M; Cheng, Yulan; Zhou, Yixing; Shears, Stephen; Ansong, Emmanuel; Xing, Mengtao; Wang, Shaomeng; Xu, Xiao-Chun; Huang, Peng; Xu, Liyan; Wang, Liang; Fan, Zongmin; Zhao, Xueke; Dong, Huali; Meltzer, Stephen Molecular carcinogenesis 23390063 2013 Nov
Multiplexed microcolumn-based process for efficient selection of RNA aptamers. Latulippe, David R; Szeto, Kylan; Ozer, Abdullah; Duarte, Fabiana M; Kelly, Christopher V; Pagano, John M; White, Brian S; Shalloway, David; Lis, John T; Craighead, Harold G Analytical chemistry 23398198 2013 Mar 19
DNA methylation: roles in mammalian development. Smith, Zachary D; Meissner, Alexander Nature reviews. Genetics 23400093 2013 Mar
Identification of small molecule inhibitors of Jumonji AT-rich interactive domain 1B (JARID1B) histone demethylase by a sensitive high throughput screen. Sayegh, Joyce; Cao, Jian; Zou, Mike Ran; Morales, Alfonso; Blair, Lauren P; Norcia, Michael; Hoyer, Denton; Tackett, Alan J; Merkel, Jane S; Yan, Qin The Journal of biological chemistry 23408432 2013 Mar 29
Regulation of Drosophila metamorphosis by xenobiotic response regulators. Deng, Huai; Kerppola, Tom K PLoS genetics 23408904 2013 Feb
Epigenomics: sequencing the methylome. Hirst, Martin Methods in molecular biology (Clifton, N.J.) 23412782 2013
Genome-wide map of quantified epigenetic changes during in vitro chondrogenic differentiation of primary human mesenchymal stem cells. Herlofsen, Sarah R; Bryne, Jan Christian; Hoiby, Torill; Wang, Li; Issner, Robbyn; Zhang, Xiaolan; Coyne, Michael J; Boyle, Patrick; Gu, Hongcang; Meza-Zepeda, Leonardo A; Collas, Philippe; Mikkelsen, Tarjei S; Brinchmann, Jan E BMC genomics 23414147 2013
Aberrant regulation of the integrin very late antigen-4 in systemic lupus erythematosus. Rahimi, H; Maurer, K; Song, L; Akhter, E; Petri, M; Sullivan, K E Lupus. 23439470 2013 Mar;
Tet-mediated covalent labelling of 5-methylcytosine for its genome-wide detection and sequencing. Zhang, Liang; Szulwach, Keith E; Hon, Gary C; Song, Chun-Xiao; Park, Beomseok; Yu, Miao; Lu, Xingyu; Dai, Qing; Wang, Xiao; Street, Craig R; Tan, Huiping; Min, Jung-Hyun; Ren, Bing; Jin, Peng; He, Chuan Nature communications 23443545 2013
Regulation of nucleosome dynamics by histone modifications. Zentner, Gabriel E; Henikoff, Steven Nature structural & molecular biology 23463310 2013 Mar
Genome organization and long-range regulation of gene expression by enhancers. Smallwood, Andrea; Ren, Bing Current opinion in cell biology 23465541 2013 Jun
ISWI and CHD chromatin remodelers bind promoters but act in gene bodies. Zentner, Gabriel E; Tsukiyama, Toshio; Henikoff, Steven PLoS genetics 23468649 2013
Confounding by repetitive elements and CpG islands does not explain the association between hypomethylation and genomic instability. Harris, R Alan; Shaw, Chad; Li, Jian; Cheung, Sau Wai; Coarfa, Cristian; Jeong, Mira; Goodell, Margaret A; White, Lisa D; Patel, Ankita; Kang, Sung-Hae; Chinault, A Craig; Gambin, Tomasz; Gambin, Anna; Lupski, James R; Milosavljevic, Aleksandar PLoS genetics 23468659 2013 Feb
Comparative annotation of functional regions in the human genome using epigenomic data. Won, Kyoung-Jae; Zhang, Xian; Wang, Tao; Ding, Bo; Raha, Debasish; Snyder, Michael; Ren, Bing; Wang, Wei Nucleic acids research 23482391 2013 Apr
Alternative Approaches in Gene Discovery and Characterization in Alzheimer's Disease. Ertekin-Taner, Nilufer; De Jager, Phillip L; Yu, Lei; Bennett, David A Current genetic medicine reports 23482655 2013 Mar
Rare somatic cells from human breast tissue exhibit extensive lineage plasticity. Roy, Somdutta; Gascard, Philippe; Dumont, Nancy; Zhao, Jianxin; Pan, Deng; Petrie, Sarah; Margeta, Marta; Tlsty, Thea D Proceedings of the National Academy of Sciences of the United States of America 23487770 2013 Mar 19
Transcriptional regulation and its misregulation in disease. Lee, Tong Ihn; Young, Richard A Cell 23498934 2013 Mar 14
RFECS: a random-forest based algorithm for enhancer identification from chromatin state. Rajagopal, Nisha; Xie, Wei; Li, Yan; Wagner, Uli; Wang, Wei; Stamatoyannopoulos, John; Ernst, Jason; Kellis, Manolis; Ren, Bing PLoS computational biology 23526891 2013 Mar
Epigenetic reprogramming in cancer. Suva, Mario L; Riggi, Nicolo; Bernstein, Bradley E Science (New York, N.Y.) 23539597 2013 Mar 29
Interplay between the cancer genome and epigenome. Shen, Hui; Laird, Peter W Cell 23540689 2013 Mar 28
Endocardial to myocardial notch-wnt-bmp axis regulates early heart valve development. Wang, Yidong; Wu, Bingruo; Chamberlain, Alyssa A; Lui, Wendy; Koirala, Pratistha; Susztak, Katalin; Klein, Diana; Taylor, Verdon; Zhou, Bin PloS one. 23560082 2013;
Epigenetic deregulation of the anaplastic lymphoma kinase gene modulates mesenchymal characteristics of oral squamous cell carcinomas. Huang, Tze-Ta; Gonzales, Cara B; Gu, Fei; Hsu, Ya-Ting; Jadhav, Rohit R; Wang, Chiou-Miin; Redding, Spencer W; Tseng, Chih-En; Lee, Ching-Chih; Thompson, Ian M; Chen, Hau-Ren; Huang, Tim Hui-Ming; Kirma, Nameer B Carcinogenesis 23568951 2013 Aug
Variants in the ATP-binding cassette transporter (ABCA7), apolipoprotein E ýý4,and the risk of late-onset Alzheimer disease in African Americans. Reitz, Christiane; Jun, Gyungah; Naj, Adam; Rajbhandary, Ruchita; Vardarajan, Badri Narayan; Wang, Li-San; Valladares, Otto; Lin, Chiao-Feng; Larson, Eric B; Graff-Radford, Neill R; Evans, Denis; De Jager, Philip L; Crane, Paul K; Buxbaum, Joseph D; Murre JAMA : the journal of the American Medical Association 23571587 2013 Apr 10
An Inflection Point in Gene Discovery Efforts for Neurodegenerative Diseases: From Syndromic Diagnoses Toward Endophenotypes and the Epigenome. De Jager, Philip L; Bennett, David A JAMA neurology 23571780 2013 Apr 9
Master transcription factors and mediator establish super-enhancers at key cell identity genes. Whyte, Warren A; Orlando, David A; Hnisz, Denes; Abraham, Brian J; Lin, Charles Y; Kagey, Michael H; Rahl, Peter B; Lee, Tong Ihn; Young, Richard A Cell 23582322 2013 Apr 11
Selective inhibition of tumor oncogenes by disruption of super-enhancers. Loven, Jakob; Hoke, Heather A; Lin, Charles Y; Lau, Ashley; Orlando, David A; Vakoc, Christopher R; Bradner, James E; Lee, Tong Ihn; Young, Richard A Cell 23582323 2013 Apr 11
Consistent decrease in global DNA methylation and hydroxymethylation in the hippocampus of Alzheimer's disease patients. Chouliaras, Leonidas; Mastroeni, Diego; Delvaux, Elaine; Grover, Andrew; Kenis, Gunter; Hof, Patrick R; Steinbusch, Harry W M; Coleman, Paul D; Rutten, Bart P F; van den Hove, Daniel L A Neurobiology of aging 23582657 2013 Sep
Laser capture microdissection-reduced representation bisulfite sequencing (LCM-RRBS) maps changes in DNA methylation associated with gonadectomy-induced adrenocortical neoplasia in the mouse. Schillebeeckx, Maximiliaan; Schrade, Anja; Lobs, Ann-Kathrin; Pihlajoki, Marjut; Wilson, David B; Mitra, Robi D Nucleic acids research 23589626 2013 Jun
Discovery of histone modification crosstalk networks by stable isotope labeling of amino acids in cell culture mass spectrometry (SILAC MS). Guan, Xiaoyan; Rastogi, Neha; Parthun, Mark R; Freitas, Michael A Molecular & cellular proteomics : MCP 23592332 2013 Aug
Doxorubicin Enhances Nucleosome Turnover around Promoters. Yang, Fan; Kemp, Christopher J; Henikoff, Steven Current biology : CB 23602475 2013 May 6
Sex difference in daily rhythms of clock gene expression in the aged human cerebral cortex. Lim, Andrew S P; Myers, Amanda J; Yu, Lei; Buchman, Aron S; Duffy, Jeanne F; De Jager, Philip L; Bennett, David A Journal of biological rhythms 23606611 2013 Apr
Single-molecule analysis of combinatorial epigenomic states in normal and tumor cells. Murphy, Patrick J; Cipriany, Benjamin R; Wallin, Christopher B; Ju, Chan Yang; Szeto, Kylan; Hagarman, James A; Benitez, Jaime J; Craighead, Harold G; Soloway, Paul D Proceedings of the National Academy of Sciences of the United States of America 23610441 2013 May 7
Evidence for enhanced telomerase activity in Barrett's esophagus with dysplasia and adenocarcinoma. Merchant, Nipun B; Dutta, Sudhir K; Girotra, Mohit; Arora, Manish; Meltzer, Stephen J Asian Pacific journal of cancer prevention : APJCP 23621218 2013
Exploring long-range genome interactions using the WashU Epigenome Browser. Zhou, Xin; Lowdon, Rebecca F; Li, Daofeng; Lawson, Heather A; Madden, Pamela A F; Costello, Joseph F; Wang, Ting Nature methods 23629413 2013 May
CMS: a web-based system for visualization and analysis of genome-wide methylation data of human cancers. Gu, Fei; Doderer, Mark S; Huang, Yi-Wen; Roa, Juan C; Goodfellow, Paul J; Kizer, E Lynette; Huang, Tim H M; Chen, Yidong PloS one 23630576 2013
A data-driven approach to preprocessing Illumina 450K methylation array data. Pidsley, Ruth; Y Wong, Chloe C; Volta, Manuela; Lunnon, Katie; Mill, Jonathan; Schalkwyk, Leonard C BMC genomics 23631413 2013
Transcriptional and epigenetic dynamics during specification of human embryonic stem cells. Gifford, Casey A; Ziller, Michael J; Gu, Hongcang; Trapnell, Cole; Donaghey, Julie; Tsankov, Alexander; Shalek, Alex K; Kelley, David R; Shishkin, Alexander A; Issner, Robbyn; Zhang, Xiaolan; Coyne, Michael; Fostel, Jennifer L; Holmes, Laurie; Meldrim, Ji Cell 23664763 2013 May 23
Epigenomic analysis of multilineage differentiation of human embryonic stem cells. Xie, Wei; Schultz, Matthew D; Lister, Ryan; Hou, Zhonggang; Rajagopal, Nisha; Ray, Pradipta; Whitaker, John W; Tian, Shulan; Hawkins, R David; Leung, Danny; Yang, Hongbo; Wang, Tao; Lee, Ah Young; Swanson, Scott A; Zhang, Jiuchun; Zhu, Yun; Kim, Audrey; N Cell 23664764 2013 May 23
Role of Macrophage Receptor with Collagenous Structure in Innate Immune Tolerance. Jing, Jian; Yang, Ivana V; Hui, Lucy; Patel, Jay A; Evans, Christopher M; Prikeris, Rytis; Kobzik, Lester; O'Connor, Brian P; Schwartz, David A Journal of immunology (Baltimore, Md. : 1950) 23667110 2013 May 10
Stochastic gene expression in mammals: lessons from olfaction. Magklara, Angeliki; Lomvardas, Stavros Trends in cell biology 23689023 2013 May 17
An aberrant transcription factor network essential for Wnt signaling and stem cell maintenance in glioblastoma. Rheinbay, Esther; Suva, Mario L; Gillespie, Shawn M; Wakimoto, Hiroaki; Patel, Anoop P; Shahid, Mohammad; Oksuz, Ozgur; Rabkin, Samuel D; Martuza, Robert L; Rivera, Miguel N; Louis, David N; Kasif, Simon; Chi, Andrew S; Bernstein, Bradley E Cell reports 23707066 2013 May 30
CD33 Alzheimer's disease locus: altered monocyte function and amyloid biology. Bradshaw, Elizabeth M; Chibnik, Lori B; Keenan, Brendan T; Ottoboni, Linda; Raj, Towfique; Tang, Anna; Rosenkrantz, Laura L; Imboywa, Selina; Lee, Michelle; Von Korff, Alina; The Alzheimer Disease Neuroimaging Initiative; Morris, Martha C; Evans, Denis A; Nature neuroscience 23708142 2013 May 23
DNA hypomethylation within specific transposable element families associates with tissue-specific enhancer landscape. Xie, Mingchao; Hong, Chibo; Zhang, Bo; Lowdon, Rebecca F; Xing, Xiaoyun; Li, Daofeng; Zhou, Xin; Lee, Hyung Joo; Maire, Cecile L; Ligon, Keith L; Gascard, Philippe; Sigaroudinia, Mahvash; Tlsty, Thea D; Kadlecek, Theresa; Weiss, Arthur; O'Geen, Henriette; Nature genetics 23708189 2013 Jul
Density-dependent cooperative non-specific binding in solid-phase SELEX affinity selection. Ozer, Abdullah; White, Brian S; Lis, John T; Shalloway, David Nucleic acids research 23737446 2013 Jun 3
Density-dependent cooperative non-specific binding in solid-phase SELEX affinity selection. Ozer, Abdullah; White, Brian S; Lis, John T; Shalloway, David Nucleic acids research 23737446 2013 Aug
DNA methylation data analysis and its application to cancer research. Ma, Xiaotu; Wang, Yi-Wei; Zhang, Michael Q; Gazdar, Adi F Epigenomics 23750645 2013 Jun
ARF inhibits the growth and malignant progression of non-small-cell lung carcinoma. Busch, S E; Moser, R D; Gurley, K E; Kelly-Spratt, K S; Liggitt, H D; Kemp, C J Oncogene 23752194 2013 Jun 10
Sites of acetylation on newly synthesized histone H4 are required for chromatin assembly and DNA damage response signaling. Ge, Zhongqi; Nair, Devi; Guan, Xiaoyan; Rastogi, Neha; Freitas, Michael A; Parthun, Mark R Molecular and cellular biology 23775118 2013 Aug
Diabetic nephropathy: a national dialogue. Breyer, Matthew D; Coffman, Thomas M; Flessner, Michael F; Fried, Linda F; Harris, Raymond C; Ketchum, Christian J; Kretzler, Matthias; Nelson, Robert G; Sedor, John R; Susztak, Katalin; Kidney Research National Dialogue (KRND) Clinical journal of the American Society of Nephrology : CJASN 23788618 2013 Sep
Global chromatin state analysis reveals lineage-specific enhancers during the initiation of human T helper 1 and T helper 2 cell polarization. Hawkins, R David; Larjo, Antti; Tripathi, Subhash K; Wagner, Ulrich; Luu, Ying; Lonnberg, Tapio; Raghav, Sunil K; Lee, Leonard K; Lund, Riikka; Ren, Bing; Lahdesmaki, Harri; Lahesmaa, Riitta Immunity 23791644 2013 Jun 27
Class I HDAC imaging using [ ( 3) H]CI-994 autoradiography. Wang, Yajie; Zhang, Yan-Ling; Hennig, Krista; Gale, Jennifer P; Hong, Yijia; Cha, Anna; Riley, Misha; Wagner, Florence; Haggarty, Stephen J; Holson, Edward; Hooker, Jacob Epigenetics : official journal of the DNA Methylation Society 23803584 2013 Jun 11
Functional DNA methylation differences between tissues, cell types, and across individuals discovered using the M&M algorithm. Zhang, Bo; Zhou, Yan; Lin, Nan; Lowdon, Rebecca F; Hong, Chibo; Nagarajan, Raman P; Cheng, Jeffrey B; Li, Daofeng; Stevens, Michael; Lee, Hyung Joo; Xing, Xiaoyun; Zhou, Jia; Sundaram, Vasavi; Elliott, Ginell; Gu, Junchen; Shi, Taoping; Gascard, Philippe; Genome research 23804400 2013 Sep
Estimating absolute methylation levels at single-CpG resolution from methylation enrichment and restriction enzyme sequencing methods. Stevens, Michael; Cheng, Jeffrey B; Li, Daofeng; Xie, Mingchao; Hong, Chibo; Maire, Cecile L; Ligon, Keith L; Hirst, Martin; Marra, Marco A; Costello, Joseph F; Wang, Ting Genome research 23804401 2013 Sep
FDG-PET imaging reveals local brain glucose utilization is altered by class I histone deacetylase inhibitors. Schroeder, Frederick A; Chonde, Daniel B; Riley, Misha M; Moseley, Christian K; Granda, Michael L; Wilson, Colin M; Wagner, Florence F; Zhang, Yan-Ling; Gale, Jennifer; Holson, Edward B; Haggarty, Stephen J; Hooker, Jacob M Neuroscience letters 23810801 2013 Jun 25
From promises to practical strategies in epigenetic epidemiology. Mill, Jonathan; Heijmans, Bastiaan T Nature reviews. Genetics 23817309 2013 Aug
Pervasive transcription of the human genome produces thousands of previously unidentified long intergenic noncoding RNAs. Hangauer, Matthew J; Vaughn, Ian W; McManus, Michael T PLoS genetics 23818866 2013 Jun
Poised Chromatin at the ZEB1 Promoter Enables Breast Cancer Cell Plasticity and Enhances Tumorigenicity. Chaffer, Christine L; Marjanovic, Nemanja D; Lee, Tony; Bell, George; Kleer, Celina G; Reinhardt, Ferenc; D'Alessio, Ana C; Young, Richard A; Weinberg, Robert A Cell 23827675 2013 Jul 3
Browsing (Epi)genomes: a guide to data resources and epigenome browsers for stem cell researchers. Karnik, Rahul; Meissner, Alexander Cell stem cell 23827707 2013 Jul 3
Developmental biology. Enhancing pluripotency and lineage specification. Xie, Wei; Ren, Bing Science (New York, N.Y.) 23869010 2013 Jul 19
An epigenetic trap stabilizes singular olfactory receptor expression. Lyons, David B; Allen, William E; Goh, Tracie; Tsai, Lulu; Barnea, Gilad; Lomvardas, Stavros Cell 23870122 2013 Jul 18
DNA unmethylome profiling by covalent capture of CpG sites. Kriukiene, Edita; Labrie, Viviane; Khare, Tarang; Urbanaviciute, Giedre; Lapinaite, Audrone; Koncevicius, Karolis; Li, Daofeng; Wang, Ting; Pai, Shraddha; Ptak, Carolyn; Gordevicius, Juozas; Wang, Sun-Chong; Petronis, Arturas; Klimasauskas, Saulius Nature communications 23877302 2013
Endoglin promoter hypermethylation identifies a field defect in human primary esophageal cancer. Jin, Zhe; Zhao, Zhenfu; Cheng, Yulan; Dong, Ming; Zhang, Xiaojing; Wang, Liang; Fan, Xinmin; Feng, Xianling; Mori, Yuriko; Meltzer, Stephen J Cancer 23893879 2013 Jul 24
Methylomics of gene expression in human monocytes. Liu, Yongmei; Ding, Jingzhong; Reynolds, Lindsay M; Lohman, Kurt; Register, Thomas C; De La Fuente, Alberto; Howard, Timothy D; Hawkins, Greg A; Cui, Wei; Morris, Jessica; Smith, Shelly G; Barr, R Graham; Kaufman, Joel D; Burke, Gregory L; Post, Wendy; Sh Human molecular genetics 23900078 2013 Dec 15
The effects of carbon dioxide and temperature on microRNA expression in Arabidopsis development. May, Patrick; Liao, Will; Wu, Yijin; Shuai, Bin; McCombie, W Richard; Zhang, Michael Q; Liu, Qiong A Nature communications 23900278 2013
Whole-body pharmacokinetics of HDAC inhibitor drugs, butyric acid, valproic acid and 4-phenylbutyric acid measured with carbon-11 labeled analogs by PET. Kim, Sung Won; Hooker, Jacob M; Otto, Nicola; Win, Khaing; Muench, Lisa; Shea, Colleen; Carter, Pauline; King, Payton; Reid, Alicia E; Volkow, Nora D; Fowler, Joanna S Nuclear medicine and biology 23906667 2013 Jul 29
Bimolecular fluorescence complementation (BiFC) analysis of protein interactions in live cells. Kerppola, Tom K Cold Spring Harbor protocols 23906917 2013 Aug
Charting a dynamic DNA methylation landscape of the human genome. Ziller, Michael J; Gu, Hongcang; Muller, Fabian; Donaghey, Julie; Tsai, Linus T-Y; Kohlbacher, Oliver; De Jager, Philip L; Rosen, Evan D; Bennett, David A; Bernstein, Bradley E; Gnirke, Andreas; Meissner, Alexander Nature 23925113 2013 Aug 22
Double minute chromosomes in glioblastoma multiforme are revealed by precise reconstruction of oncogenic amplicons. Sanborn, J Zachary; Salama, Sofie R; Grifford, Mia; Brennan, Cameron W; Mikkelsen, Tom; Jhanwar, Suresh; Katzman, Sol; Chin, Lynda; Haussler, David Cancer research 23940299 2013 Oct 1
H1 histones: current perspectives and challenges. Harshman, Sean W; Young, Nicolas L; Parthun, Mark R; Freitas, Michael A Nucleic acids research 23945933 2013 Nov
A genome-wide siRNA screen identifies proteasome addiction as a vulnerability of basal-like triple-negative breast cancer cells. Petrocca, Fabio; Altschuler, Gabriel; Tan, Shen Mynn; Mendillo, Marc L; Yan, Haoheng; Jerry, D Joseph; Kung, Andrew L; Hide, Winston; Ince, Tan A; Lieberman, Judy Cancer cell 23948298 2013 Aug 12
Amplification of distant estrogen response elements deregulates target genes associated with tamoxifen resistance in breast cancer. Hsu, Pei-Yin; Hsu, Hang-Kai; Lan, Xun; Juan, Liran; Yan, Pearlly S; Labanowska, Jadwiga; Heerema, Nyla; Hsiao, Tzu-Hung; Chiu, Yu-Chiao; Chen, Yidong; Liu, Yunlong; Li, Lang; Li, Rong; Thompson, Ian M; Nephew, Kenneth P; Sharp, Zelton D; Kirma, Nameer B; Cancer cell 23948299 2013 Aug 12
Developmental fate and cellular maturity encoded in human regulatory DNA landscapes. Stergachis, Andrew B; Neph, Shane; Reynolds, Alex; Humbert, Richard; Miller, Brady; Paige, Sharon L; Vernot, Benjamin; Cheng, Jeffrey B; Thurman, Robert E; Sandstrom, Richard; Haugen, Eric; Heimfeld, Shelly; Murry, Charles E; Akey, Joshua M; Stamatoyannop Cell 23953118 2013 Aug 15
Recombinant antibodies to histone post-translational modifications. Hattori, Takamitsu; Taft, Joseph M; Swist, Kalina M; Luo, Hao; Witt, Heather; Slattery, Matthew; Koide, Akiko; Ruthenburg, Alexander J; Krajewski, Krzysztof; Strahl, Brian D; White, Kevin P; Farnham, Peggy J; Zhao, Yingming; Koide, Shohei Nature methods 23955773 2013 Oct
A selective HDAC 1/2 inhibitor modulates chromatin and gene expression in brain and alters mouse behavior in two mood-related tests. Schroeder, Frederick A; Lewis, Michael C; Fass, Daniel M; Wagner, Florence F; Zhang, Yan-Ling; Hennig, Krista M; Gale, Jennifer; Zhao, Wen-Ning; Reis, Surya; Barker, Douglas D; Berry-Scott, Erin; Kim, Sung Won; Clore, Elizabeth L; Hooker, Jacob M; Holson, PloS one 23967191 2013
Quantitative Proteomics Identifies Activation of Hallmark Pathways of Cancer in Patient Melanoma. Byrum, Stephanie D; Larson, Signe K; Avaritt, Nathan L; Moreland, Linley E; Mackintosh, Samuel G; Cheung, Wang L; Tackett, Alan J Journal of proteomics & bioinformatics 23976835 2013 Mar 1
A universal DNA-based protein detection system. Tran, Thua N N; Cui, Jinhui; Hartman, Mark R; Peng, Songming; Funabashi, Hisakage; Duan, Faping; Yang, Dayong; March, John C; Lis, John T; Cui, Haixin; Luo, Dan Journal of the American Chemical Society 23978265 2013 Sep 25
Epigenetic memory at embryonic enhancers identified in DNA methylation maps from adult mouse tissues. Hon, Gary C; Rajagopal, Nisha; Shen, Yin; McCleary, David F; Yue, Feng; Dang, My D; Ren, Bing Nature genetics 23995138 2013 Oct
Long non-coding RNA HNF1A-AS1 regulates proliferation and migration in oesophageal adenocarcinoma cells. Yang, Xue; Song, Jee Hoon; Cheng, Yulan; Wu, Wenjing; Bhagat, Tushar; Yu, Yiting; Abraham, John M; Ibrahim, Sariat; Ravich, William; Roland, Bani Chander; Khashab, Mouen; Singh, Vikesh K; Shin, Eun Ji; Yang, Xiao; Verma, Amit K; Meltzer, Stephen J; Mori, Gut 24000294 2014 Jun
Total daily activity declines more rapidly with increasing age in older adults. Buchman, Aron S; Wilson, Robert S; Yu, Lei; James, Bryan D; Boyle, Patricia A; Bennett, David A Archives of gerontology and geriatrics. 24007938 2014 Jan-Feb;
Comparative anatomy of chromosomal domains with imprinted and non-imprinted allele-specific DNA methylation. Paliwal, Anupam; Temkin, Alexis M; Kerkel, Kristi; Yale, Alexander; Yotova, Iveta; Drost, Natalia; Lax, Simon; Nhan-Chang, Chia-Ling; Powell, Charles; Borczuk, Alain; Aviv, Abraham; Wapner, Ronald; Chen, Xiaowei; Nagy, Peter L; Schork, Nicholas; Do, Cathe PLoS genetics 24009515 2013 Aug
Epigenomics: The Science of No-Longer-Junk DNA. Why Study it in Chronic Kidney Disease? Ko, Yi-An; Susztak, Katalin Seminars in nephrology 24011577 2013 Jul
Locus-specific editing of histone modifications at endogenous enhancers. Mendenhall, Eric M; Williamson, Kaylyn E; Reyon, Deepak; Zou, James Y; Ram, Oren; Joung, J Keith; Bernstein, Bradley E Nature biotechnology 24013198 2013 Dec
Epigenetic studies in Alzheimer's disease: Current findings, caveats, and considerations for future studies. Lunnon, Katie; Mill, Jonathan American journal of medical genetics. Part B, Neuropsychiatric genetics : the official publication of the International Society of Psychiatric Genetics 24038819 2013 Sep 13
Visualizing epigenetics: Current advances and advantages in HDAC PET imaging techniques. Wang, C; Schroeder, F A; Hooker, J M Neuroscience 24051365 2013 Sep 17
Identification of novel imprinted differentially methylated regions by global analysis of human-parthenogenetic-induced pluripotent stem cells. Stelzer, Yonatan; Ronen, Daniel; Bock, Christoph; Boyle, Patrick; Meissner, Alexander; Benvenisty, Nissim Stem cell reports. 24052944 2013;
Mapping human epigenomes. Rivera, Chloe M; Ren, Bing Cell 24074860 2013 Sep 26
Recommendations for the design and analysis of epigenome-wide association studies. Michels, Karin B; Binder, Alexandra M; Dedeurwaerder, Sarah; Epstein, Charles B; Greally, John M; Gut, Ivo; Houseman, E Andres; Izzi, Benedetta; Kelsey, Karl T; Meissner, Alexander; Milosavljevic, Aleksandar; Siegmund, Kimberly D; Bock, Christoph; Irizarry, Rafael A Nature methods. 24076989 2013 Oct;
CDKN2A/p16 inactivation mechanisms and their relationship to smoke exposure and molecular features in non-small-cell lung cancer. Tam, Kit W; Zhang, Wei; Soh, Junichi; Stastny, Victor; Chen, Min; Sun, Han; Thu, Kelsie; Rios, Jonathan J; Yang, Chenchen; Marconett, Crystal N; Selamat, Suhaida A; Laird-Offringa, Ite A; Taguchi, Ayumu; Hanash, Samir; Shames, David; Ma, Xiaotu; Zhang, Mi Journal of thoracic oncology : official publication of the International Association for the Study of Lung Cancer 24077454 2013 Nov
STAR: an integrated solution to management and visualization of sequencing data. Wang, Tao; Liu, Jie; Shen, Li; Tonti-Filippini, Julian; Zhu, Yun; Jia, Haiyang; Lister, Ryan; Whitaker, John W; Ecker, Joseph R; Millar, A Harvey; Ren, Bing; Wang, Wei Bioinformatics (Oxford, England) 24078702 2013 Dec 15
MAL hypermethylation is a tissue-specific event that correlates with MAL mRNA expression in esophageal carcinoma. Jin, Zhe; Wang, Liang; Zhang, Yuan; Cheng, Yulan; Gao, Yan; Feng, Xianling; Dong, Ming; Cao, Ziyi; Chen, Si; Yu, Huimin; Zhao, Zhenfu; Zhang, Xiaojing; Liu, Jie; Mori, Yuriko; Fan, Xinmin; Meltzer, Stephen J Scientific reports 24088706 2013
Micro- and nanoscale devices for the investigation of epigenetics and chromatin dynamics. Aguilar, Carlos A; Craighead, Harold G Nature nanotechnology 24091454 2013 Oct
Cytosine methylation changes in enhancer regions of core pro-fibrotic genes characterize kidney fibrosis development. Ko, Yi-An; Mohtat, Davoud; Suzuki, Masako; Park, Ae Seo Deok; Izquierdo, Maria Concepcion; Han, Sang Youb; Kang, Hyun Mi; Si, Han; Hostetter, Thomas; Pullman, James M; Fazzari, Melissa; Verma, Amit; Zheng, Deyou; Greally, John M; Susztak, Katalin Genome biology 24098934 2013
Super-enhancers in the control of cell identity and disease. Hnisz, Denes; Abraham, Brian J; Lee, Tong Ihn; Lau, Ashley; Saint-Andre, Violaine; Sigova, Alla A; Hoke, Heather A; Young, Richard A Cell 24119843 2013 Nov 7
Black raspberries protectively regulate methylation of Wnt pathway genes in precancerous colon tissue. Wang, Li-Shu; Kuo, Chieh-Ti; Huang, Tim H-M; Yearsley, Martha; Oshima, Kiyoko; Stoner, Gary D; Yu, Jianhua; Lechner, John F; Huang, Yi-Wen Cancer prevention research (Philadelphia, Pa.) 24129635 2013 Dec
CRISPR interference (CRISPRi) for sequence-specific control of gene expression. Larson, Matthew H; Gilbert, Luke A; Wang, Xiaowo; Lim, Wendell A; Weissman, Jonathan S; Qi, Lei S Nature protocols 24136345 2013 Nov
A high-resolution map of the three-dimensional chromatin interactome in human cells. Jin, Fulai; Li, Yan; Dixon, Jesse R; Selvaraj, Siddarth; Ye, Zhen; Lee, Ah Young; Yen, Chia-An; Schmitt, Anthony D; Espinoza, Celso A; Ren, Bing Nature 24141950 2013 Nov 14
Mot1 redistributes TBP from TATA-containing to TATA-less promoters. Zentner, Gabriel E; Henikoff, Steven Molecular and cellular biology 24144978 2013 Dec
Understanding the epigenetic syntax for the genetic alphabet in the kidney. Susztak, Katalin Journal of the American Society of Nephrology : JASN 24179169 2014 Jan
Whole-genome haplotype reconstruction using proximity-ligation and shotgun sequencing. Selvaraj, Siddarth; R Dixon, Jesse; Bansal, Vikas; Ren, Bing Nature biotechnology 24185094 2013 Dec
Exomic analysis of myxoid liposarcomas, synovial sarcomas, and osteosarcomas. Joseph, Christine G; Hwang, Heejung; Jiao, Yuchen; Wood, Laura D; Kinde, Isaac; Wu, Jian; Mandahl, Nils; Luo, Jinyong; Hruban, Ralph H; Diaz Jr, Luis A; He, Tong-Chuan; Vogelstein, Bert; Kinzler, Kenneth W; Mertens, Fredrik; Papadopoulos, Nickolas Genes, chromosomes & cancer 24190505 2014 Jan
The human protein PRR14 tethers heterochromatin to the nuclear lamina during interphase and mitotic exit. Poleshko, Andrey; Mansfield, Katelyn M; Burlingame, Caroline C; Andrake, Mark D; Shah, Neil R; Katz, Richard A Cell reports 24209742 2013 Oct 31
Radionuclide labeling and evaluation of candidate radioligands for PET imaging of histone deacetylase in the brain. Seo, Young Jun; Muench, Lisa; Reid, Alicia; Chen, Jinzhu; Kang, Yeona; Hooker, Jacob M; Volkow, Nora D; Fowler, Joanna S; Kim, Sung Won Bioorganic & medicinal chemistry letters 24210501 2013 Dec 15
Aberrant methylation of the Ras-related associated with diabetes gene in human primary esophageal cancer. Jin, Zhe; Feng, Xianling; Jian, Qianhe; Cheng, Yulan; Gao, Yan; Zhang, Xiaojing; Wang, Liang; Zhang, Yuan; Huang, Weiling; Fan, Xinmin; Chen, Si; Yu, Huimin; Zhao, Zhenfu; Dong, Ming; Liu, Jie; Mori, Yuriko; Meltzer, Stephen J Anticancer research 24222170 2013 Nov
Track data hubs enable visualization of user-defined genome-wide annotations on the UCSC Genome Browser. Raney, Brian J; Dreszer, Timothy R; Barber, Galt P; Clawson, Hiram; Fujita, Pauline A; Wang, Ting; Nguyen, Ngan; Paten, Benedict; Zweig, Ann S; Karolchik, Donna; Kent, W James Bioinformatics (Oxford, England) 24227676 2014 Apr 1
Mechanisms of cohesin-mediated gene regulation and lessons learned from cohesinopathies. Ball Jr, Alexander R; Chen, Yen-Yun; Yokomori, Kyoko Biochimica et biophysica acta 24269489 2013 Nov 22
ADCK4 ''reenergizes'' nephrotic syndrome. Malaga-Dieguez, Laura; Susztak, Katalin The Journal of clinical investigation. 24270414 2013 Dec;
Inferring the perturbed microRNA regulatory networks in cancer using hierarchical gene co-expression signatures. Gu, Jin; Xuan, Zhenyu PloS one 24278370 2013
An improved synthesis of 1'-[18F]fluoroethyl-*-D-lactose ([18F]-FEL) for positron emission tomography imaging of pancreatic cancer. Turkman, Nashaat; Gelovani, Juri G; Alauddin, Mian M Journal of labelled compounds & radiopharmaceuticals 24285438 2013 Jun 15
Gene expression signature of normal cell-of-origin predicts ovarian tumor outcomes. Merritt, Melissa A; Bentink, Stefan; Schwede, Matthew; Iwanicki, Marcin P; Quackenbush, John; Woo, Terri; Agoston, Elin S; Reinhardt, Ferenc; Crum, Christopher P; Berkowitz, Ross S; Mok, Samuel C; Witt, Abigail E; Jones, Michelle A; Wang, Bin; Ince, Tan A PloS one 24303006 2013
SILAC Peptide Ratio Calculator: A Tool for SILAC Quantitation of Peptides and Post-Translational Modifications. Guan, Xiaoyan; Rastogi, Neha; Parthun, Mark R; Freitas, Michael A Journal of proteome research 24328097 2014 Feb 7
Genome-wide localization of small molecules. Anders, Lars; Guenther, Matthew G; Qi, Jun; Fan, Zi Peng; Marineau, Jason J; Rahl, Peter B; Loven, Jakob; Sigova, Alla A; Smith, William B; Lee, Tong Ihn; Bradner, James E; Young, Richard A Nature biotechnology 24336317 2014 Jan
High-resolution mapping of transcription factor binding sites on native chromatin. Kasinathan, Sivakanthan; Orsi, Guillermo A; Zentner, Gabriel E; Ahmad, Kami; Henikoff, Steven Nature methods 24336359 2013 Dec 15
Characterizing the strand-specific distribution of non-CpG methylation in human pluripotent cells. Guo, Weilong; Chung, Wen-Yu; Qian, Minping; Pellegrini, Matteo; Zhang, Michael Q Nucleic acids research 24343027 2014 Mar
Dynamic Imaging of Genomic Loci in Living Human Cells by an Optimized CRISPR/Cas System. Chen, Baohui; Gilbert, Luke A; Cimini, Beth A; Schnitzbauer, Joerg; Zhang, Wei; Li, Gene-Wei; Park, Jason; Blackburn, Elizabeth H; Weissman, Jonathan S; Qi, Lei S; Huang, Bo Cell 24360272 2013 Dec 19
Doxorubicin, DNA torsion, and chromatin dynamics. Yang, Fan; Teves, Sheila S; Kemp, Christopher J; Henikoff, Steven Biochimica et biophysica acta 24361676 2014 Jan
Hypomethylation of the IL17RC Promoter in Peripheral Blood Leukocytes Is Not A Hallmark of Age-Related Macular Degeneration. Oliver, Verity F; Franchina, Maria; Jaffe, Andrew E; Branham, Kari E; Othman, Mohammad; Heckenlively, John R; Swaroop, Anand; Campochiaro, Betsy; Vote, Brendan J; Craig, Jamie E; Saffery, Richard; Mackey, David A; Qian, Jiang; Zack, Donald J; Hewitt, Alex Cell reports 24373284 2013 Dec 26
RAPID-SELEX for RNA Aptamers. Szeto, Kylan; Latulippe, David R; Ozer, Abdullah; Pagano, John M; White, Brian S; Shalloway, David; Lis, John T; Craighead, Harold G PloS one 24376564 2013
Design, synthesis, and evaluation of hydroxamic acid-based molecular probes for in vivo imaging of histone deacetylase (HDAC) in brain. Wang, Changning; Eessalu, Thomas E; Barth, Vanessa N; Mitch, Charles H; Wagner, Florence F; Hong, Yijia; Neelamegam, Ramesh; Schroeder, Frederick A; Holson, Edward B; Haggarty, Stephen J; Hooker, Jacob M American journal of nuclear medicine and molecular imaging. 24380043 2013;
MYC and transcription elongation. Rahl, Peter B; Young, Richard A Cold Spring Harbor perspectives in medicine 24384817 2014 Jan
Comparison and quantitative verification of mapping algorithms for whole-genome bisulfite sequencing. Kunde-Ramamoorthy, Govindarajan; Coarfa, Cristian; Laritsky, Eleonora; Kessler, Noah J; Harris, R Alan; Xu, Mingchu; Chen, Rui; Shen, Lanlan; Milosavljevic, Aleksandar; Waterland, Robert A Nucleic acids research 24391148 2014 Apr
Seasonal changes in gene expression represent cell-type composition in whole blood. De Jong, Simone; Neeleman, Marjolein; Luykx, Jurjen J; ten Berg, Maarten J; Strengman, Eric; Den Breeijen, Hanneke H; Stijvers, Leon C; Buizer-Voskamp, Jacobine E; Bakker, Steven C; Kahn, Rene S; Horvath, Steve; Van Solinge, Wouter W; Ophoff, Roel A Human molecular genetics 24399446 2014 May 15
Multiple roles of Nrf2-Keap1 signaling: regulation of development and xenobiotic response using distinct mechanisms. Deng, Huai Fly 24406335 2014 Jan-Mar
What we talk about when we talk about fat. Rosen, Evan D; Spiegelman, Bruce M Cell 24439368 2014 Jan 16
Epigenetic epidemiology: promises for public health research. Bakulski, Kelly M; Fallin, M Daniele Environmental and molecular mutagenesis 24449392 2014 Apr
Effects of vitamin D3 stimulation of thioredoxin-interacting protein in hepatocellular carcinoma. Hamilton, James P; Potter, James J; Koganti, Lahari; Meltzer, Stephen J; Mezey, Esteban Hepatology research : the official journal of the Japan Society of Hepatology. 24451003 2014 Dec;
Taxonomy of breast cancer based on normal cell phenotype predicts outcome. Santagata, Sandro; Thakkar, Ankita; Ergonul, Ayse; Wang, Bin; Woo, Terri; Hu, Rong; Harrell, J Chuck; McNamara, George; Schwede, Matthew; Culhane, Aedin C; Kindelberger, David; Rodig, Scott; Richardson, Andrea; Schnitt, Stuart J; Tamimi, Rulla M; Ince, Ta The Journal of clinical investigation 24463450 2014 Feb 3
TBX2 blocks myogenesis and promotes proliferation in rhabdomyosarcoma cells. Zhu, Bo; Zhang, Meiling; Byrum, Stephanie D; Tackett, Alan J; Davie, Judith K International journal of cancer. Journal international du cancer 24470334 2014 Aug 15
Notch ties a knot on fistula maturation. Dember, Laura M; Susztak, Katalin Journal of the American Society of Nephrology : JASN. 24480826 2014 Apr;
Nuclear architecture as an epigenetic regulator of neural development and function. Alexander, J M; Lomvardas, S Neuroscience 24486963 2014 Apr 4
Minor grove binding ligands disrupt PARP-1 activation pathways. Kirsanov, Kirill I; Kotova, Elena; Makhov, Petr; Golovine, Konstantin; Lesovaya, Ekaterina A; Kolenko, Vladimir M; Yakubovskaya, Marianna G; Tulin, Alexei V Oncotarget 24504413 2014 Jan 30
Kinase-mediated changes in nucleosome conformation trigger chromatin decondensation via poly(ADP-ribosyl)ation. Thomas, Colin J; Kotova, Elena; Andrake, Mark; Adolf-Bryfogle, Jared; Glaser, Robert; Regnard, Catherine; Tulin, Alexei V Molecular cell 24508391 2014 Mar 6
Building a pipeline to discover and validate novel therapeutic targets and lead compounds for Alzheimer's disease. Bennett, David A; Yu, Lei; De Jager, Philip L Biochemical pharmacology 24508835 2014 Apr 15
DNA methylation profile associated with rapid decline in kidney function: findings from the CRIC study. Wing, Maria R; Devaney, Joseph M; Joffe, Marshall M; Xie, Dawei; Feldman, Harold I; Dominic, Elizabeth A; Guzman, Nicolas J; Ramezani, Ali; Susztak, Katalin; Herman, James G; Cope, Leslie; Harmon, Brennan; Kwabi-Addo, Bernard; Gordish-Dressman, Heather; G Nephrology, dialysis, transplantation : official publication of the European Dialysis and Transplant Association - European Renal Association 24516231 2014 Apr
High-throughput binding characterization of RNA aptamer selections using a microplate-based multiplex microcolumn device. Szeto, Kylan; Reinholt, Sarah J; Duarte, Fabiana M; Pagano, John M; Ozer, Abdullah; Yao, Li; Lis, John T; Craighead, Harold G Analytical and bioanalytical chemistry 24553662 2014 Apr
Association of Genetic Variants in GN*3 with Functional Dyspepsia: A Meta-Analysis. Dai, Fei; Liu, Yaping; Shi, Haitao; Ge, Shuqiong; Song, Jun; Dong, Lei; Yang, Jingyun Digestive diseases and sciences 24557575 2014 Feb 21
Noncoding RNAs and LRRFIP1 Regulate TNF Expression. Shi, Lihua; Song, Li; Fitzgerald, Michael; Maurer, Kelly; Bagashev, Asen; Sullivan, Kathleen E Journal of immunology (Baltimore, Md. : 1950) 24567534 2014 Apr 1
An epigenetic mechanism of resistance to targeted therapy in T cell acute lymphoblastic leukemia. Knoechel, Birgit; Roderick, Justine E; Williamson, Kaylyn E; Zhu, Jiang; Lohr, Jens G; Cotton, Matthew J; Gillespie, Shawn M; Fernandez, Daniel; Ku, Manching; Wang, Hongfang; Piccioni, Federica; Silver, Serena J; Jain, Mohit; Pearson, Daniel; Kluk, Michae Nature genetics 24584072 2014 Apr
Contribution of Alzheimer disease to mortality in the United States. James, Bryan D; Leurgans, Sue E; Hebert, Liesi E; Scherr, Paul A; Yaffe, Kristine; Bennett, David A Neurology 24598707 2014 Mar 25
Interpreting the language of histone and DNA modifications. Rothbart, Scott B; Strahl, Brian D Biochimica et biophysica acta 24631868 2014 Aug
Genetics: Closing the distance on obesity culprits. Gorkin, David U; Ren, Bing Nature 24646989 2014 Mar 20
Epigenetics: a new way to look at kidney diseases. Beckerman, Pazit; Ko, Yi-An; Susztak, Katalin Nephrology, dialysis, transplantation : official publication of the European Dialysis and Transplant Association - European Renal Association 24675284 2014 Mar 27
Cross-region reduction in 5-hydroxymethylcytosine in Alzheimer's disease brain. Condliffe, Daniel; Wong, Andrew; Troakes, Claire; Proitsi, Petroula; Patel, Yogen; Chouliaras, Leonidas; Fernandes, Cathy; Cooper, Jonathan; Lovestone, Simon; Schalkwyk, Leonard; Mill, Jonathan; Lunnon, Katie Neurobiology of aging 24679604 2014 Feb 6
KAP1 represses differentiation-inducible genes in embryonic stem cells through cooperative binding with PRC1 and derepresses pluripotency-associated genes. Cheng, Bo; Ren, Xiaojun; Kerppola, Tom K Molecular and cellular biology 24687849 2014 Mar 31
Pregnancy complicated by obesity induces global transcript expression alterations in visceral and subcutaneous fat. Bashiri, Asher; Heo, Hye J; Ben-Avraham, Danny; Mazor, Moshe; Budagov, Temuri; Einstein, Francine H; Atzmon, Gil Molecular genetics and genomics : MGG. 24696292 2014 Aug;
A smooth muscle-like origin for beige adipocytes. Long, Jonathan Z; Svensson, Katrin J; Tsai, Linus; Zeng, Xing; Roh, Hyun C; Kong, Xingxing; Rao, Rajesh R; Lou, Jesse; Lokurkar, Isha; Baur, Wendy; Castellot Jr, John J; Rosen, Evan D; Spiegelman, Bruce M Cell metabolism 24709624 2014 May 06
Recurrent epimutations activate gene body promoters in primary glioblastoma. Nagarajan, Raman P; Zhang, Bo; Bell, Robert J A; Johnson, Brett E; Olshen, Adam B; Sundaram, Vasavi; Li, Daofeng; Graham, Ashley E; Diaz, Aaron; Fouse, Shaun D; Smirnov, Ivan; Song, Jun; Paris, Pamela L; Wang, Ting; Costello, Joseph F Genome research 24709822 2014 May
Light-inducible gene regulation with engineered zinc finger proteins. Polstein, Lauren R; Gersbach, Charles A Methods in molecular biology (Clifton, N.J.) 24718797 2014
methylC Track: visual integration of single-base resolution DNA methylation data on the WashU EpiGenome Browser. Zhou, Xin; Li, Daofeng; Lowdon, Rebecca F; Costello, Joseph F; Wang, Ting Bioinformatics (Oxford, England) 24728854 2014 Aug 1
Molecular network analysis enhances understanding of the biology of mental disorders. Grennan, Kay S; Chen, Chao; Gershon, Elliot S; Liu, Chunyu BioEssays : news and reviews in molecular, cellular and developmental biology. 24733456 2014 Jun;
A versatile framework for microbial engineering using synthetic non-coding RNAs. Qi, Lei S; Arkin, Adam P Nature reviews. Microbiology 24736794 2014 May
The nucleosomal barrier to promoter escape by RNA polymerase II is overcome by the chromatin remodeler Chd1. Skene, Peter J; Hernandez, Aaron E; Groudine, Mark; Henikoff, Steven eLife. 24737864 2014;
Aggregate culture of human embryonic stem cell-derived hepatocytes in suspension are an improved in vitro model for drug metabolism and toxicity testing. Sengupta, Srikumar; Johnson, Brian Patrick; Swanson, Scott Allen; Stewart, Ron; Bradfield, Christopher Alan; Thomson, James Alexander Toxicological sciences : an official journal of the Society of Toxicology 24752503 2014 Jul
Regulation of DNA methylation turnover at LTR retrotransposons and imprinted loci by the histone methyltransferase Setdb1. Leung, Danny; Du, Tingting; Wagner, Ulrich; Xie, Wei; Lee, Ah Young; Goyal, Preeti; Li, Yujing; Szulwach, Keith E; Jin, Peng; Lorincz, Matthew C; Ren, Bing Proceedings of the National Academy of Sciences of the United States of America 24757056 2014 May 6
A phase Ib study of the effects of black raspberries on rectal polyps in patients with familial adenomatous polyposis. Wang, Li-Shu; Burke, Carol A; Hasson, Henrietta; Kuo, Chieh-Ti; Molmenti, Christine L Sardo; Seguin, Claire; Liu, Pengyuan; Huang, Tim H-M; Frankel, Wendy L; Stoner, Gary D Cancer prevention research (Philadelphia, Pa.) 24764585 2014 Jul
Image-guided synthesis reveals potent blood-brain barrier permeable histone deacetylase inhibitors. Seo, Young Jun; Kang, Yeona; Muench, Lisa; Reid, Alicia; Caesar, Shannon; Jean, Logan; Wagner, Florence; Holson, Edward; Haggarty, Stephen J; Weiss, Philipp; King, Payton; Carter, Pauline; Volkow, Nora D; Fowler, Joanna S; Hooker, Jacob M; Kim, Sung Won ACS chemical neuroscience 24780082 2014 Jul 16
CTCF haploinsufficiency destabilizes DNA methylation and predisposes to cancer. Kemp, Christopher J; Moore, James M; Moser, Russell; Bernard, Brady; Teater, Matt; Smith, Leslie E; Rabaia, Natalia A; Gurley, Kay E; Guinney, Justin; Busch, Stephanie E; Shaknovich, Rita; Lobanenkov, Victor V; Liggitt, Denny; Shmulevich, Ilya; Melnick, Ari; Filippova, Galina N Cell reports. 24794443 2014 May 22;
The SLE transcriptome exhibits evidence of chronic endotoxin exposure and has widespread dysregulation of non-coding and coding RNAs. Shi, Lihua; Zhang, Zhe; Yu, Angela M; Wang, Wei; Wei, Zhi; Akhter, Ehtisham; Maurer, Kelly; Costa Reis, Patricia; Song, Li; Petri, Michelle; Sullivan, Kathleen E PloS one 24796678 2014
Comprehensive analysis of RNA-protein interactions by high-throughput sequencing-RNA affinity profiling. Tome, Jacob M; Ozer, Abdullah; Pagano, John M; Gheba, Dan; Schroth, Gary P; Lis, John T Nature methods 24809628 2014 Jun
Genetic and epigenetic characteristics of FSHD-associated 4q and 10q D4Z4 that are distinct from non-4q/10q D4Z4 homologs. Zeng, Weihua; Chen, Yen-Yun; Newkirk, Daniel A; Wu, Beibei; Balog, Judit; Kong, Xiangduo; Ball Jr, Alexander R; Zanotti, Simona; Tawil, Rabi; Hashimoto, Naohiro; Mortazavi, Ali; van der Maarel, Silvere M; Yokomori, Kyoko Human mutation 24838473 2014 Aug
A versatile framework for microbial engineering using synthetic non-coding RNAs. Qi, Lei S; Arkin, Adam P Nature reviews. Microbiology 24847554 2014 May
Bookmarking promoters in mitotic chromatin: poly(ADP-ribose)polymerase-1 as an epigenetic mark. Lodhi, Niraj; Kossenkov, Andrew V; Tulin, Alexei V Nucleic acids research 24861619 2014
Genome stress response in early development. Marzluff, William F; Duronio, Robert J Developmental cell 24871944 2014 May 27
Sweet debate: fructose versus glucose in diabetic kidney disease. Beckerman, Pazit; Susztak, Katalin Journal of the American Society of Nephrology : JASN. 24876119 2014 Nov;
Synthetic zinc finger proteins: the advent of targeted gene regulation and genome modification technologies. Gersbach, Charles A; Gaj, Thomas; Barbas 3rd, Carlos F Accounts of chemical research. 24877793 2014 Aug 19;
Tumors induce coordinate growth of artery, vein, and lymphatic vessel triads. Ruddell, Alanna; Croft, Alexandra; Kelly-Spratt, Karen; Furuya, Momoko; Kemp, Christopher J BMC cancer 24886322 2014
Molecular mechanisms of diabetic kidney disease. Reidy, Kimberly; Kang, Hyun Mi; Hostetter, Thomas; Susztak, Katalin The Journal of clinical investigation. 24892707 2014 Jun;
Multigenerational effects of maternal undernutrition. Einstein, Francine H Cell metabolism 24896533 2014 Jun 3
Epigenomics of Alzheimer's disease. Bennett, David A; Yu, Lei; Yang, Jingyun; Srivastava, Gyan P; Aubin, Cristin; De Jager, Philip L Translational research : the journal of laboratory and clinical medicine. 24905038 2015 Jan;
The 3D Genome in Transcriptional Regulation and Pluripotency. Gorkin, David U; Leung, Danny; Ren, Bing Cell stem cell 24905166 2014 Jun 5
Kidney cancer is characterized by aberrant methylation of tissue-specific enhancers that are prognostic for overall survival. Hu, Caroline Y; Mohtat, Davoud; Yu, Yiting; Ko, Yi-An; Shenoy, Niraj; Bhattacharya, Sanchari; Izquierdo, Maria C; Park, Ae Seo Deok; Giricz, Orsolya; Vallumsetla, Nishanth; Gundabolu, Krishna; Ware, Kristin; Bhagat, Tushar D; Suzuki, Masako; Pullman, James; Liu, X Shirley; Greally, John M; Susztak, Katalin; Verma, Amit Clinical cancer research : an official journal of the American Association for Cancer Research. 24916699 2014 Aug 15;
Activating human genes with zinc finger proteins, transcription activator-like effectors and CRISPR/Cas9 for gene therapy and regenerative medicine. Gersbach, Charles A; Perez-Pinera, Pablo Expert opinion on therapeutic targets 24917359 2014 Aug
Grasping nettles: cellular heterogeneity and other confounders in epigenome-wide association studies. Liang, Liming; Cookson, William O C Human molecular genetics. 24927738 2014 Sep 15;
Copy number polymorphisms near SLC2A9 are associated with serum uric acid concentrations. Scharpf, Robert B; Mireles, Lynn; Yang, Qiong; Kottgen, Anna; Ruczinski, Ingo; Susztak, Katalin; Halper-Stromberg, Eitan; Tin, Adrienne; Cristiano, Stephen; Chakravarti, Aravinda; Boerwinkle, Eric; Fox, Caroline S; Coresh, Josef; Linda Kao, Wen Hong BMC genetics. 25007794 2014;
Transcription factor regulation and chromosome dynamics during pseudohyphal growth. Mayhew, David; Mitra, Robi D Molecular biology of the cell. 25009286 2014 Sep 1;
Engineering synthetic TALE and CRISPR/Cas9 transcription factors for regulating gene expression. Kabadi, Ami M; Gersbach, Charles A Methods (San Diego, Calif.) 25010559 2014 Jul 8
Characterization of genome-methylome interactions in 22 nuclear pedigrees. Plongthongkum, Nongluk; van Eijk, Kristel R; de Jong, Simone; Wang, Tina; Sul, Jae Hoon; Boks, Marco P M; Kahn, Rene S; Fung, Ho-Lim; Ophoff, Roel A; Zhang, Kun PloS one 25019935 2014
A chemical strategy for the cell-based detection of HDAC activity. Diyabalanage, Himashinie V K; Van de Bittner, Genevieve C; Ricq, Emily L; Hooker, Jacob M ACS chemical biology 25056147 2014 Jun 20
Origin and consequences of the relationship between protein mean and variance. Vallania, Francesco Luigi Massimo; Sherman, Marc; Goodwin, Zane; Mogno, Ilaria; Cohen, Barak Alon; Mitra, Robi David PloS one. 25062021 2014;
Visualization of the Drosophila dKeap1-CncC interaction on chromatin illumines cooperative, xenobiotic-specific gene activation. Deng, Huai; Kerppola, Tom K Development (Cambridge, England). 25063457 2014 Aug;
DNA methylation dynamics of the human preimplantation embryo. Smith, Zachary D; Chan, Michelle M; Humm, Kathryn C; Karnik, Rahul; Mekhoubad, Shila; Regev, Aviv; Eggan, Kevin; Meissner, Alexander Nature 25079558 2014 Jul 31
Analysis of interactions between the epigenome and structural mutability of the genome using Genboree Workbench tools. Coarfa, Cristian; Pichot, Christina; Jackson, Andrew; Tandon, Arpit; Amin, Viren; Raghuraman, Sriram; Paithankar, Sameer; Lee, Adrian V; McGuire, Sean E; Milosavljevic, Aleksandar BMC bioinformatics. 25080362 2014;
New Technologies Provide Quantum Changes in the Scale, Speed, and Success of SELEX Methods and Aptamer Characterization. Ozer, Abdullah; Pagano, John M; Lis, John T Molecular therapy. Nucleic acids. 25093707 2014;
A PWWP domain-containing protein targets the NuA3 acetyltransferase complex via histone H3 lysine 36 trimethylation to coordinate transcriptional elongation at coding regions. Gilbert, Tonya M; McDaniel, Stephen L; Byrum, Stephanie D; Cades, Jessica A; Dancy, Blair C R; Wade, Herschel; Tackett, Alan J; Strahl, Brian D; Taverna, Sean D Molecular & cellular proteomics : MCP. 25104842 2014 Nov;
The bromodomain of Gcn5 regulates site specificity of lysine acetylation on histone H3. Cieniewicz, Anne M; Moreland, Linley; Ringel, Alison E; Mackintosh, Samuel G; Raman, Ana; Gilbert, Tonya M; Wolberger, Cynthia; Tackett, Alan J; Taverna, Sean D Molecular & cellular proteomics : MCP. 25106422 2014 Nov;
DNA Modification Study of Major Depressive Disorder: Beyond Locus-by-Locus Comparisons. Oh, Gabriel; Wang, Sun-Chong; Pal, Mrinal; Chen, Zheng Fei; Khare, Tarang; Tochigi, Mamoru; Ng, Catherine; Yang, Yeqing A; Kwan, Andrew; Kaminsky, Zachary A; Mill, Jonathan; Gunasinghe, Cerisse; Tackett, Jennifer L; Gottesman, Irving I; Willemsen, Gonneke; de Geus, Eco J C; Vink, Jacqueline M; Slagboom, P Eline; Wray, Naomi R; Heath, Andrew C; Montgomery, Grant W; Turecki, Gustavo; Martin, Nicholas G; Boomsma, Dorret I; McGuffin, Peter; Kustra, Rafal; Petronis, Art Biological psychiatry. 25108803 2015 Feb 1;
Distinct and predictive histone lysine acetylation patterns at promoters, enhancers, and gene bodies. Rajagopal, Nisha; Ernst, Jason; Ray, Pradipta; Wu, Jie; Zhang, Michael; Kellis, Manolis; Ren, Bing G3 (Bethesda, Md.). 25122670 2014 Nov;
Analysis of an artificial zinc finger epigenetic modulator: widespread binding but limited regulation. Grimmer, Matthew R; Stolzenburg, Sabine; Ford, Ethan; Lister, Ryan; Blancafort, Pilar; Farnham, Peggy J Nucleic acids research. 25122745 2014;
Multiplex CRISPR/Cas9-based genome engineering from a single lentiviral vector. Kabadi, Ami M; Ousterout, David G; Hilton, Isaac B; Gersbach, Charles A Nucleic acids research. 25122746 2014 Oct 29;
Functional kinomics identifies candidate therapeutic targets in head and neck cancer. Moser, Russell; Xu, Chang; Kao, Michael; Annis, James; Lerma, Luisa Angelica; Schaupp, Christopher M; Gurley, Kay E; Jang, In Sock; Biktasova, Asel; Yarbrough, Wendell G; Margolin, Adam A; Grandori, Carla; Kemp, Christopher J; Mendez, Eduardo Clinical cancer research : an official journal of the American Association for Cancer Research 25125259 2014 Aug 15
Alzheimer's disease: early alterations in brain DNA methylation at ANK1, BIN1, RHBDF2 and other loci. De Jager, Philip L; Srivastava, Gyan; Lunnon, Katie; Burgess, Jeremy; Schalkwyk, Leonard C; Yu, Lei; Eaton, Matthew L; Keenan, Brendan T; Ernst, Jason; McCabe, Cristin; Tang, Anna; Raj, Towfique; Replogle, Joseph; Brodeur, Wendy; Gabriel, Stacey; Chai, High S; Younkin, Curtis; Younkin, Steven G; Zou, Fanggeng; Szyf, Moshe; Epstein, Charles B; Schneider, Julie A; Bernstein, Bradley E; Meissner, Alex; Ertekin-Taner, Nilufer; Chibnik, Lori B; Kellis, Manolis; Mill, Jonathan; Bennett, David A Nature neuroscience. 25129075 2014 Sep;
Methylomic profiling implicates cortical deregulation of ANK1 in Alzheimer's disease. Lunnon, Katie; Smith, Rebecca; Hannon, Eilis; De Jager, Philip L; Srivastava, Gyan; Volta, Manuela; Troakes, Claire; Al-Sarraj, Safa; Burrage, Joe; Macdonald, Ruby; Condliffe, Daniel; Harries, Lorna W; Katsel, Pavel; Haroutunian, Vahram; Kaminsky, Zachary Nature neuroscience 25129077 2014 Sep
Human factors and pathways essential for mediating epigenetic gene silencing. Poleshko, Andrey; Kossenkov, Andrew V; Shalginskikh, Natalia; Pecherskaya, Anna; Einarson, Margret B; Marie Skalka, Anna; Katz, Richard A Epigenetics. 25147916 2014 Sep;
Effect of breastfeeding on childhood BMI and obesity: the China Family Panel Studies. Jing, Huiquan; Xu, Hongwei; Wan, Junmin; Yang, Yang; Ding, Hua; Chen, Minyan; Li, Lizhuo; Lv, Ping; Hu, Jingwei; Yang, Jingyun Medicine. 25170931 2014 Aug;
PET imaging demonstrates histone deacetylase target engagement and clarifies brain penetrance of known and novel small molecule inhibitors in rat. Schroeder, F A; Wang, C; Van de Bittner, G C; Neelamegam, R; Takakura, W R; Karunakaran, A; Wey, H Y; Reis, S A; Gale, J; Zhang, Y L; Holson, E B; Haggarty, S J; Hooker, J M ACS chemical neuroscience. 25188794 2014 Oct 15;
In vivo imaging of histone deacetylases (HDACs) in the central nervous system and major peripheral organs. Wang, Changning; Schroeder, Frederick A; Wey, Hsiao-Ying; Borra, Ronald; Wagner, Florence F; Reis, Surya; Kim, Sung Won; Holson, Edward B; Haggarty, Stephen J; Hooker, Jacob M Journal of medicinal chemistry. 25203558 2014 Oct 9;
Relation of DASH- and Mediterranean-like dietary patterns to cognitive decline in older persons. Tangney, Christy C; Li, Hong; Wang, Yamin; Barnes, Lisa; Schneider, Julie A; Bennett, David A; Morris, Martha C Neurology. 25230996 2014 Oct 14;
Functional genomic annotation of genetic risk loci highlights inflammation and epithelial biology networks in CKD. Ledo, Nora; Ko, Yi-An; Park, Ae-Seo Deok; Kang, Hyun-Mi; Han, Sang-Youb; Choi, Peter; Susztak, Katalin Journal of the American Society of Nephrology : JASN. 25231882 2015 Mar;
Global loss of DNA methylation uncovers intronic enhancers in genes showing expression changes. Blattler, Adam; Yao, Lijing; Witt, Heather; Guo, Yu; Nicolet, Charles M; Berman, Benjamin P; Farnham, Peggy J Genome biology. 25239471 2014;
Predicting the human epigenome from DNA motifs. Whitaker, John W; Chen, Zhao; Wang, Wei Nature methods. 25240437 2015 Mar;
Correlation between DNA methylation and gene expression in the brains of patients with bipolar disorder and schizophrenia. Chen, Chao; Zhang, Chunling; Cheng, Lijun; Reilly, James L; Bishop, Jeffrey R; Sweeney, John A; Chen, Hua-Yun; Gershon, Elliot S; Liu, Chunyu Bipolar disorders. 25243493 2014 Dec;
Normal cell phenotypes of breast epithelial cells provide the foundation of a breast cancer taxonomy. Santagata, Sandro; Ince, Tan A Expert review of anticancer therapy. 25263303 2014 Dec;
Genome engineering: the next genomic revolution. Gersbach, Charles A Nature methods. 25264777 2014 Oct;
Functional annotation of colon cancer risk SNPs. Yao, Lijing; Tak, Yu Gyoung; Berman, Benjamin P; Farnham, Peggy J Nature communications. 25268989 2014;
A philosophy for CNS radiotracer design. Van de Bittner, Genevieve C; Ricq, Emily L; Hooker, Jacob M Accounts of chemical research. 25272291 2014 Oct 21;
Comparative DNA methylome analysis of endometrial carcinoma reveals complex and distinct deregulation of cancer promoters and enhancers. Zhang, Bo; Xing, XiaoYun; Li, Jing; Lowdon, Rebecca F; Zhou, Yan; Lin, Nan; Zhang, Baoxue; Sundaram, Vasavi; Chiappinelli, Katherine B; Hagemann, Ian S; Mutch, David G; Goodfellow, Paul J; Wang, Ting BMC genomics. 25286960 2014;
Novel markers of gonadectomy-induced adrenocortical neoplasia in the mouse and ferret. Schillebeeckx, Maximiliaan; Pihlajoki, Marjut; Gretzinger, Elisabeth; Yang, Wei; Thol, Franziska; Hiller, Theresa; Lobs, Ann-Kathrin; Rohrig, Theresa; Schrade, Anja; Cochran, Rebecca; Jay, Patrick Y; Heikinheimo, Markku; Mitra, Robi D; Wilson, David B Molecular and cellular endocrinology. 25289806 2015 Jan 5;
High-resolution digital profiling of the epigenome. Zentner, Gabriel E; Henikoff, Steven Nature reviews. Genetics. 25297728 2014 Dec;
Sexual dimorphism in epigenomic responses of stem cells to extreme fetal growth. Delahaye, Fabien; Wijetunga, N Ari; Heo, Hye J; Tozour, Jessica N; Zhao, Yong Mei; Greally, John M; Einstein, Francine H Nature communications. 25300954 2014;
Genome-Scale CRISPR-Mediated Control of Gene Repression and Activation. Gilbert, Luke A; Horlbeck, Max A; Adamson, Britt; Villalta, Jacqueline E; Chen, Yuwen; Whitehead, Evan H; Guimaraes, Carla; Panning, Barbara; Ploegh, Hidde L; Bassik, Michael C; Qi, Lei S; Kampmann, Martin; Weissman, Jonathan S Cell. 25307932 2014 Oct 23;
A protein-tagging system for signal amplification in gene expression and fluorescence imaging. Tanenbaum, Marvin E; Gilbert, Luke A; Qi, Lei S; Weissman, Jonathan S; Vale, Ronald D Cell. 25307933 2014 Oct 23;
Widespread contribution of transposable elements to the innovation of gene regulatory networks. Sundaram, Vasavi; Cheng, Yong; Ma, Zhihai; Li, Daofeng; Xing, Xiaoyun; Edge, Peter; Snyder, Michael P; Wang, Ting Genome research. 25319995 2014 Dec;
Special issue on engineered DNA-binding proteins. Kabadi, Ami M; Gersbach, Charles A ACS synthetic biology. 25324185 2014 Oct 17;
The meta-epigenomic structure of purified human stem cell populations is defined at cis-regulatory sequences. Wijetunga, N Ari; Delahaye, Fabien; Zhao, Yong M; Golden, Aaron; Mar, Jessica C; Einstein, Francine H; Greally, John M Nature communications. 25327398 2014;
Association of genetic variants in and promoter hypermethylation of CDH1 with gastric cancer: a meta-analysis. Jing, Huiquan; Dai, Fei; Zhao, Chuntao; Yang, Juan; Li, Lizhuo; Kota, Pravina; Mao, Lijuan; Xiang, Kaimin; Zheng, Changqing; Yang, Jingyun Medicine 25340495 2014 Oct
Methylomic profiling of human brain tissue supports a neurodevelopmental origin for schizophrenia. Pidsley, Ruth; Viana, Joana; Hannon, Eilis; Spiers, Helen; Troakes, Claire; Al-Saraj, Safa; Mechawar, Naguib; Turecki, Gustavo; Schalkwyk, Leonard C; Bray, Nicholas J; Mill, Jonathan Genome biology. 25347937 2014;
Penalized multimarker vs. single-marker regression methods for genome-wide association studies of quantitative traits. Yi, Hui; Breheny, Patrick; Imam, Netsanet; Liu, Yongmei; Hoeschele, Ina Genetics. 25354699 2015 Jan;
Coverage recommendations for methylation analysis by whole-genome bisulfite sequencing. Ziller, Michael J; Hansen, Kasper D; Meissner, Alexander; Aryee, Martin J Nature methods. 25362363 2015 Mar;
Genetic and epigenetic fine mapping of causal autoimmune disease variants. Farh, Kyle Kai-How; Marson, Alexander; Zhu, Jiang; Kleinewietfeld, Markus; Housley, William J; Beik, Samantha; Shoresh, Noam; Whitton, Holly; Ryan, Russell J H; Shishkin, Alexander A; Hatan, Meital; Carrasco-Alfonso, Marlene J; Mayer, Dita; Luckey, C John; Patsopoulos, Nikolaos A; De Jager, Philip L; Kuchroo, Vijay K; Epstein, Charles B; Daly, Mark J; Hafler, David A; Bernstein, Bradley E Nature. 25363779 2015 Feb 19;
Association of Brain DNA methylation in SORL1, ABCA7, HLA-DRB5, SLC24A4, and BIN1 with pathological diagnosis of Alzheimer disease. Yu, Lei; Chibnik, Lori B; Srivastava, Gyan P; Pochet, Nathalie; Yang, Jingyun; Xu, Jishu; Kozubek, James; Obholzer, Nikolaus; Leurgans, Sue E; Schneider, Julie A; Meissner, Alexander; De Jager, Philip L; Bennett, David A JAMA neurology. 25365775 2015 Jan;
24-hour rhythms of DNA methylation and their relation with rhythms of RNA expression in the human dorsolateral prefrontal cortex. Lim, Andrew S P; Srivastava, Gyan P; Yu, Lei; Chibnik, Lori B; Xu, Jishu; Buchman, Aron S; Schneider, Julie A; Myers, Amanda J; Bennett, David A; De Jager, Philip L PLoS genetics. 25375876 2014 Nov;
Age-related variations in the methylome associated with gene expression in human monocytes and T cells. Reynolds, Lindsay M; Taylor, Jackson R; Ding, Jingzhong; Lohman, Kurt; Johnson, Craig; Siscovick, David; Burke, Gregory; Post, Wendy; Shea, Steven; Jacobs Jr, David R; Stunnenberg, Hendrik; Kritchevsky, Stephen B; Hoeschele, Ina; McCall, Charles E; Herrington, David M; Tracy, Russell P; Liu, Yongmei Nature communications. 25404168 2014;
RADIA: RNA and DNA integrated analysis for somatic mutation detection. Radenbaugh, Amie J; Ma, Singer; Ewing, Adam; Stuart, Joshua M; Collisson, Eric A; Zhu, Jingchun; Haussler, David PloS one. 25405470 2014;
Specific gene repression by CRISPRi system transferred through bacterial conjugation. Ji, Weiyue; Lee, Derrick; Wong, Eric; Dadlani, Priyanka; Dinh, David; Huang, Verna; Kearns, Kendall; Teng, Sherry; Chen, Susan; Haliburton, John; Heimberg, Graham; Heineike, Benjamin; Ramasubramanian, Anusuya; Stevens, Thomas; Helmke, Kara J; Zepeda, Veronica; Qi, Lei S; Lim, Wendell A ACS synthetic biology. 25409531 2014 Dec 19;
A comparative encyclopedia of DNA elements in the mouse genome. Yue, Feng; Cheng, Yong; Breschi, Alessandra; Vierstra, Jeff; Wu, Weisheng; Ryba, Tyrone; Sandstrom, Richard; Ma, Zhihai; Davis, Carrie; Pope, Benjamin D; Shen, Yin; Pervouchine, Dmitri D; Djebali, Sarah; Thurman, Robert E; Kaul, Rajinder; Rynes, Eric; Kir Nature. 25409824 2014 Nov 20;
Principles of regulatory information conservation between mouse and human. Cheng, Yong; Ma, Zhihai; Kim, Bong-Hyun; Wu, Weisheng; Cayting, Philip; Boyle, Alan P; Sundaram, Vasavi; Xing, Xiaoyun; Dogan, Nergiz; Li, Jingjing; Euskirchen, Ghia; Lin, Shin; Lin, Yiing; Visel, Axel; Kawli, Trupti; Yang, Xinqiong; Patacsil, Dorrelyn; K Nature. 25409826 2014 Nov 20;
Aberrantly expressed mRNAs and long non-coding RNAs in patients with invasive ductal breast carcinoma: a pilot study. Chen, Xuedong; Yang, Jingyun; Qian, Liyuan; Cao, Tianzhu Molecular medicine reports. 25411894 2015 Mar;
Enhancer interaction networks as a means for singular olfactory receptor expression. Markenscoff-Papadimitriou, Eirene; Allen, William E; Colquitt, Bradley M; Goh, Tracie; Murphy, Karl K; Monahan, Kevin; Mosley, Colleen P; Ahituv, Nadav; Lomvardas, Stavros Cell. 25417106 2014 Oct 23;
Interferon regulatory factor 1 marks activated genes and can induce target gene expression in systemic lupus erythematosus. Zhang, Zhe; Shi, Lihua; Song, Li; Ephrem, Elshaddai; Petri, Michelle; Sullivan, Kathleen E Arthritis & rheumatology (Hoboken, N.J.). 25418955 2015 Mar;
Proteomics-Based Identification of Differentially Abundant Proteins from Human Keratinocytes Exposed to Arsenic Trioxide. Udensi, Udensi K; Tackett, Alan J; Byrum, Stephanie; Avaritt, Nathan L; Sengupta, Deepanwita; Moreland, Linley W; Tchounwou, Paul B; Isokpehi, Raphael D Journal of proteomics & bioinformatics. 25419056 2014 Jul;
Defective fatty acid oxidation in renal tubular epithelial cells has a key role in kidney fibrosis development. Kang, Hyun Mi; Ahn, Seon Ho; Choi, Peter; Ko, Yi-An; Han, Seung Hyeok; Chinga, Frank; Park, Ae Seo Deok; Tao, Jianling; Sharma, Kumar; Pullman, James; Bottinger, Erwin P; Goldberg, Ira J; Susztak, Katalin Nature medicine. 25419705 2015 Jan;
Sequencing the cancer methylome. Shull, Austin Y; Noonepalle, Satish K; Lee, Eun-Joon; Choi, Jeong-Hyeon; Shi, Huidong Methods in molecular biology (Clifton, N.J.). 25421684 2015;
Regulatory network decoded from epigenomes of surface ectoderm-derived cell types. Lowdon, Rebecca F; Zhang, Bo; Bilenky, Misha; Mauro, Thea; Li, Daofeng; Gascard, Philippe; Sigaroudinia, Mahvash; Farnham, Peggy J; Bastian, Boris C; Tlsty, Thea D; Marra, Marco A; Hirst, Martin; Costello, Joseph F; Wang, Ting; Cheng, Jeffrey B Nature communications. 25421844 2014;
Identification of schizophrenia-associated loci by combining DNA methylation and gene expression data from whole blood. van Eijk, Kristel R; de Jong, Simone; Strengman, Eric; Buizer-Voskamp, Jacobine E; Kahn, Rene S; Boks, Marco P; Horvath, Steve; Ophoff, Roel A European journal of human genetics : EJHG. 25424713 2015 Aug;
Heterochromatin-mediated gene silencing facilitates the diversification of olfactory neurons. Lyons, David B; Magklara, Angeliki; Goh, Tracie; Sampath, Srihari C; Schaefer, Anne; Schotta, Gunnar; Lomvardas, Stavros Cell reports. 25437545 2014 Nov 6;
Epigenomics in translational research. Replogle, Joseph M; De Jager, Philip L Translational research : the journal of laboratory and clinical medicine. 25445204 2015 Jan;
A CRISPR/Cas9-based system for reprogramming cell lineage specification. Chakraborty, Syandan; Ji, HaYeun; Kabadi, Ami M; Gersbach, Charles A; Christoforou, Nicolas; Leong, Kam W Stem cell reports. 25448066 2014 Dec 9;
Combining MeDIP-seq and MRE-seq to investigate genome-wide CpG methylation. Li, Daofeng; Zhang, Bo; Xing, Xiaoyun; Wang, Ting Methods (San Diego, Calif.). 25448294 2015 Jan 15;
Building the Connectivity Map of epigenetics: chromatin profiling by quantitative targeted mass spectrometry. Creech, Amanda L; Taylor, Jordan E; Maier, Verena K; Wu, Xiaoyun; Feeney, Caitlin M; Udeshi, Namrata D; Peach, Sally E; Boehm, Jesse S; Lee, Jeannie T; Carr, Steven A; Jaffe, Jacob D Methods (San Diego, Calif.). 25448295 2015 Jan 15;
Computational schemes for the prediction and annotation of enhancers from epigenomic assays. Whitaker, John W; Nguyen, Tung T; Zhu, Yun; Wildberg, Andre; Wang, Wei Methods (San Diego, Calif.). 25461775 2015 Jan 15;
TEMPORARY REMOVAL: Blood methylomic signatures of presymptomatic dementia in elderly subjects with type 2 diabetes mellitus. Lunnon, Katie; Smith, Rebecca G; Cooper, Itzik; Greenbaum, Lior; Mill, Jonathan; Beeri, Michal Schnaider Neurobiology of aging. 25475537 2014 Nov 8;
SORBS1 gene, a new candidate for diabetic nephropathy: results from a multi-stage genome-wide association study in patients with type 1 diabetes. Germain, Marine; Pezzolesi, Marcus G; Sandholm, Niina; McKnight, Amy J; Susztak, Katalin; Lajer, Maria; Forsblom, Carol; Marre, Michel; Parving, Hans-Henrik; Rossing, Peter; Toppila, Iiro; Skupien, Jan; Roussel, Ronan; Ko, Yi-An; Ledo, Nora; Folkersen, Lasse; Civelek, Mete; Maxwell, Alexander P; Tregouet, David-Alexandre; Groop, Per-Henrik; Tarnow, Lise; Hadjadj, Samy Diabetologia. 25476525 2015 Mar;
rMATS: robust and flexible detection of differential alternative splicing from replicate RNA-Seq data. Shen, Shihao; Park, Juw Won; Lu, Zhi-xiang; Lin, Lan; Henry, Michael D; Wu, Ying Nian; Zhou, Qing; Xing, Yi Proceedings of the National Academy of Sciences of the United States of America. 25480548 2014 Dec 23;
Locally disordered methylation forms the basis of intratumor methylome variation in chronic lymphocytic leukemia. Landau, Dan A; Clement, Kendell; Ziller, Michael J; Boyle, Patrick; Fan, Jean; Gu, Hongcang; Stevenson, Kristen; Sougnez, Carrie; Wang, Lili; Li, Shuqiang; Kotliar, Dylan; Zhang, Wandi; Ghandi, Mahmoud; Garraway, Levi; Fernandes, Stacey M; Livak, Kenneth J; Gabriel, Stacey; Gnirke, Andreas; Lander, Eric S; Brown, Jennifer R; Neuberg, Donna; Kharchenko, Peter V; Hacohen, Nir; Getz, Gad; Meissner, Alexander; Wu, Catherine J Cancer cell. 25490447 2014 Dec 8;
Enhanced MyoD-Induced Transdifferentiation to a Myogenic Lineage by Fusion to a Potent Transactivation Domain. Kabadi, Ami M; Thakore, Pratiksha I; Vockley, Christopher M; Ousterout, David G; Gibson, Tyler M; Guilak, Farshid; Reddy, Timothy E; Gersbach, Charles A ACS synthetic biology. 25494287 2015 Jun 19;
Toying with fate: Redirecting the differentiation of adrenocortical progenitor cells into gonadal-like tissue. Rohrig, Theresa; Pihlajoki, Marjut; Ziegler, Ricarda; Cochran, Rebecca S; Schrade, Anja; Schillebeeckx, Maximiliaan; Mitra, Robi D; Heikinheimo, Markku; Wilson, David B Molecular and cellular endocrinology. 25498963 2015 Jun 15;
Identification of nuclear hormone receptor pathways causing insulin resistance by transcriptional and epigenomic analysis. Kang, Sona; Tsai, Linus T; Zhou, Yiming; Evertts, Adam; Xu, Su; Griffin, Michael J; Issner, Robbyn; Whitton, Holly J; Garcia, Benjamin A; Epstein, Charles B; Mikkelsen, Tarjei S; Rosen, Evan D Nature cell biology. 25503565 2015 Jan;
A common set of distinct features that characterize noncoding RNAs across multiple species. Hu, Long; Di, Chao; Kai, Mingxuan; Yang, Yu-Cheng T; Li, Yang; Qiu, Yunjiang; Hu, Xihao; Yip, Kevin Y; Zhang, Michael Q; Lu, Zhi John Nucleic acids research. 25505163 2015 Jan;
The mitochondrial epigenome: a role in Alzheimer's disease? Devall, Matthew; Mill, Jonathan; Lunnon, Katie Epigenomics. 25531259 2014;
Engineering complex synthetic transcriptional programs with CRISPR RNA scaffolds. Zalatan, Jesse G; Lee, Michael E; Almeida, Ricardo; Gilbert, Luke A; Whitehead, Evan H; La Russa, Marie; Tsai, Jordan C; Weissman, Jonathan S; Dueber, John E; Qi, Lei S; Lim, Wendell A Cell. 25533786 2015 Jan 15;
Dissecting neural differentiation regulatory networks through epigenetic footprinting. Ziller, Michael J; Edri, Reuven; Yaffe, Yakey; Donaghey, Julie; Pop, Ramona; Mallard, William; Issner, Robbyn; Gifford, Casey A; Goren, Alon; Xing, Jeffrey; Gu, Hongcang; Cacchiarelli, Davide; Tsankov, Alexander M; Epstein, Charles; Rinn, John L; Mikkelsen, Tarjei S; Kohlbacher, Oliver; Gnirke, Andreas; Bernstein, Bradley E; Elkabetz, Yechiel; Meissner, Alexander Nature. 25533951 2015 Feb 19;
Considering the kinetics of mRNA synthesis in the analysis of the genome and epigenome reveals determinants of co-transcriptional splicing. Davis-Turak, Jeremy C; Allison, Karmel; Shokhirev, Maxim N; Ponomarenko, Petr; Tsimring, Lev S; Glass, Christopher K; Johnson, Tracy L; Hoffmann, Alexander Nucleic acids research. 25541195 2015 Jan;
Normal cell-type epigenetics and breast cancer classification: a case study of cell mixture-adjusted analysis of DNA methylation data from tumors. Houseman, Eugene Andrés; Ince, Tan A Cancer informatics. 25574126 2014;
Genomic discovery of potent chromatin insulators for human gene therapy. Liu, Mingdong; Maurano, Matthew T; Wang, Hao; Qi, Heyuan; Song, Chao-Zhong; Navas, Patrick A; Emery, David W; Stamatoyannopoulos, John A; Stamatoyannopoulos, George Nature biotechnology. 25580597 2015 Feb;
Blood methylomic signatures of presymptomatic dementia in elderly subjects with type 2 diabetes mellitus. Lunnon, Katie; Smith, Rebecca G; Cooper, Itzik; Greenbaum, Lior; Mill, Jonathan; Beeri, Michal Schnaider Neurobiology of aging. 25585531 2015 Mar;
Characterization and target identification of a DNA aptamer that labels pluripotent stem cells. Hou, Zhonggang; Meyer, Susanne; Propson, Nicholas E; Nie, Jeff; Jiang, Peng; Stewart, Ron; Thomson, James A Cell research. 25591927 2015 Mar;
(Epi)genomics approaches and their applications. Meissner, Alexander Methods (San Diego, Calif.). 25597875 2015 Jan 15;
Interferon regulatory factor 1 and histone H4 acetylation in systemic lupus erythematosus. Leung, Yiu Tak; Shi, Lihua; Maurer, Kelly; Song, Li; Zhang, Zhe; Petri, Michelle; Sullivan, Kathleen E Epigenetics : official journal of the DNA Methylation Society. 25611806 2015;
Aging and DNA methylation. Jung, Marc; Pfeifer, Gerd P BMC biology. 25637097 2015;
Inhibitor of DNA Binding 4 (ID4) is highly expressed in human melanoma tissues and may function to restrict normal differentiation of melanoma cells. Peretz, Yuval; Wu, Hong; Patel, Shayan; Bellacosa, Alfonso; Katz, Richard A PloS one. 25642713 2015;
Genetics and epigenetics of circadian rhythms and their potential roles in neuropsychiatric disorders. Liu, Chunyu; Chung, Michael Neuroscience bulletin. 25652815 2015 Feb;
The TMEM106B locus and TDP-43 pathology in older persons without FTLD. Yu, Lei; De Jager, Philip L; Yang, Jingyun; Trojanowski, John Q; Bennett, David A; Schneider, Julie A Neurology. 25653292 2015 Mar 3;
Small molecules enhance CRISPR genome editing in pluripotent stem cells. Yu, Chen; Liu, Yanxia; Ma, Tianhua; Liu, Kai; Xu, Shaohua; Zhang, Yu; Liu, Honglei; La Russa, Marie; Xie, Min; Ding, Sheng; Qi, Lei S Cell stem cell. 25658371 2015 Feb 5;
A light-inducible CRISPR-Cas9 system for control of endogenous gene activation. Polstein, Lauren R; Gersbach, Charles A Nature chemical biology. 25664691 2015 Mar;
Novel antioxidants protect mitochondria from the effects of oligomeric amyloid beta and contribute to the maintenance of epigenome function. Mastroeni, Diego; Khdour, Omar M; Arce, Pablo M; Hecht, Sidney M; Coleman, Paul D ACS chemical neuroscience. 25668062 2015 Apr 15;
Interrogating the function of metazoan histones using engineered gene clusters. McKay, Daniel J; Klusza, Stephen; Penke, Taylor J R; Meers, Michael P; Curry, Kaitlin P; McDaniel, Stephen L; Malek, Pamela Y; Cooper, Stephen W; Tatomer, Deirdre C; Lieb, Jason D; Strahl, Brian D; Duronio, Robert J; Matera, A Gregory Developmental cell. 25669886 2015 Feb 9;
Joint annotation of chromatin state and chromatin conformation reveals relationships among domain types and identifies domains of cell-type-specific expression. Libbrecht, Maxwell W; Ay, Ferhat; Hoffman, Michael M; Gilbert, David M; Bilmes, Jeffrey A; Noble, William Stafford Genome research. 25677182 2015 Apr;
Functional Proteomic Analysis of Repressive Histone Methyltransferase Complexes Reveals ZNF518B as a G9A Regulator. Maier, Verena K; Feeney, Caitlin M; Taylor, Jordan E; Creech, Amanda L; Qiao, Jana W; Szanto, Attila; Das, Partha P; Chevrier, Nicholas; Cifuentes-Rojas, Catherine; Orkin, Stuart H; Carr, Steven A; Jaffe, Jacob D; Mertins, Philipp; Lee, Jeannie T Molecular & cellular proteomics : MCP. 25680957 2015 Jun;
Stable oncogenic silencing in vivo by programmable and targeted de novo DNA methylation in breast cancer. Stolzenburg, S; Beltran, A S; Swift-Scanlan, T; Rivenbark, A G; Rashwan, R; Blancafort, P Oncogene. 25684141 2015 Feb 16;
Quantitative proteomic analysis of histone modifications. Huang, He; Lin, Shu; Garcia, Benjamin A; Zhao, Yingming Chemical reviews. 25688442 2015 Mar 25;
Epigenomic annotation of genetic variants using the Roadmap Epigenome Browser. Zhou, Xin; Li, Daofeng; Zhang, Bo; Lowdon, Rebecca F; Rockweiler, Nicole B; Sears, Renee L; Madden, Pamela A F; Smirnov, Ivan; Costello, Joseph F; Wang, Ting Nature biotechnology. 25690851 2015 Apr;
Epigenetic and transcriptional determinants of the human breast. Gascard, Philippe; Bilenky, Misha; Sigaroudinia, Mahvash; Zhao, Jianxin; Li, Luolan; Carles, Annaick; Delaney, Allen; Tam, Angela; Kamoh, Baljit; Cho, Stephanie; Griffith, Malachi; Chu, Andy; Robertson, Gordon; Cheung, Dorothy; Li, Irene; Heravi-Moussavi, Alireza; Moksa, Michelle; Mingay, Matthew; Hussainkhel, Angela; Davis, Brad; Nagarajan, Raman P; Hong, Chibo; Echipare, Lorigail; O'Geen, Henriette; Hangauer, Matthew J; Cheng, Jeffrey B; Neel, Dana; Hu, Donglei; McManus, Michael T; Moore, Richard; Mungall, Andrew; Ma, Yussanne; Plettner, Patrick; Ziv, Elad; Wang, Ting; Farnham, Peggy J; Jones, Steven J M; Marra, Marco A; Tlsty, Thea D; Costello, Joseph F; Hirst, Martin Nature communications. 25690954 2015;
Intermediate DNA methylation is a conserved signature of genome regulation. Elliott, GiNell; Hong, Chibo; Xing, Xiaoyun; Zhou, Xin; Li, Daofeng; Coarfa, Cristian; Bell, Robert J A; Maire, Cecile L; Ligon, Keith L; Sigaroudinia, Mahvash; Gascard, Philippe; Tlsty, Thea D; Harris, R Alan; Schalkwyk, Leonard C; Bilenky, Misha; Mill, Jonathan; Farnham, Peggy J; Kellis, Manolis; Marra, Marco A; Milosavljevic, Aleksandar; Hirst, Martin; Stormo, Gary D; Wang, Ting; Costello, Joseph F Nature communications. 25691127 2015;
Epigenomic footprints across 111 reference epigenomes reveal tissue-specific epigenetic regulation of lincRNAs. Amin, Viren; Harris, R Alan; Onuchic, Vitor; Jackson, Andrew R; Charnecki, Tim; Paithankar, Sameer; Lakshmi Subramanian, Sai; Riehle, Kevin; Coarfa, Cristian; Milosavljevic, Aleksandar Nature communications. 25691256 2015;
Integrative analysis of 111 reference human epigenomes. Roadmap Epigenomics Consortium; Kundaje, Anshul; Meuleman, Wouter; Ernst, Jason; Bilenky, Misha; Yen, Angela; Heravi-Moussavi, Alireza; Kheradpour, Pouya; Zhang, Zhizhuo; Wang, Jianrong; Ziller, Michael J; Amin, Viren; Whitaker, John W; Schultz, Matthew D; Ward, Lucas D; Sarkar, Abhishek; Quon, Gerald; Sandstrom, Richard S; Eaton, Matthew L; Wu, Yi-Chieh; Pfenning, Andreas R; Wang, Xinchen; Claussnitzer, Melina; Liu, Yaping; Coarfa, Cristian; Harris, R Alan; Shoresh, Noam; Epstein, Charles B; Gjoneska, Elizabeta; Leung, Danny; Xie, Wei; Hawkins, R David; Lister, Ryan; Hong, Chibo; Gascard, Philippe; Mungall, Andrew J; Moore, Richard; Chuah, Eric; Tam, Angela; Canfield, Theresa K; Hansen, R Scott; Kaul, Rajinder; Sabo, Peter J; Bansal, Mukul S; Carles, Annaick; Dixon, Jesse R; Farh, Kai-How; Feizi, Soheil; Karlic, Rosa; Kim, Ah-Ram; Kulkarni, Ashwinikumar; Li, Daofeng; Lowdon, Rebecca; Elliott, GiNell; Mercer, Tim R; Neph, Shane J; Onuchic, Vitor; Polak, Paz; Rajagopal, Nisha; Ray, Pradipta; Sallari, Richard C; Siebenthall, Kyle T; Sinnott-Armstrong, Nicholas A; Stevens, Michael; Thurman, Robert E; Wu, Jie; Zhang, Bo; Zhou, Xin; Beaudet, Arthur E; Boyer, Laurie A; De Jager, Philip L; Farnham, Peggy J; Fisher, Susan J; Haussler, David; Jones, Steven J M; Li, Wei; Marra, Marco A; McManus, Michael T; Sunyaev, Shamil; Thomson, James A; Tlsty, Thea D; Tsai, Li-Huei; Wang, Wei; Waterland, Robert A; Zhang, Michael Q; Chadwick, Lisa H; Bernstein, Bradley E; Costello, Joseph F; Ecker, Joseph R; Hirst, Martin; Meissner, Alexander; Milosavljevic, Aleksandar; Ren, Bing; Stamatoyannopoulos, John A; Wang, Ting; Kellis, Manolis Nature. 25693563 2015 Feb 19;
Chromatin architecture reorganization during stem cell differentiation. Dixon, Jesse R; Jung, Inkyung; Selvaraj, Siddarth; Shen, Yin; Antosiewicz-Bourget, Jessica E; Lee, Ah Young; Ye, Zhen; Kim, Audrey; Rajagopal, Nisha; Xie, Wei; Diao, Yarui; Liang, Jing; Zhao, Huimin; Lobanenkov, Victor V; Ecker, Joseph R; Thomson, James A; Ren, Bing Nature. 25693564 2015 Feb 19;
Transcription factor binding dynamics during human ES cell differentiation. Tsankov, Alexander M; Gu, Hongcang; Akopian, Veronika; Ziller, Michael J; Donaghey, Julie; Amit, Ido; Gnirke, Andreas; Meissner, Alexander Nature. 25693565 2015 Feb 19;
Integrative analysis of haplotype-resolved epigenomes across human tissues. Leung, Danny; Jung, Inkyung; Rajagopal, Nisha; Schmitt, Anthony; Selvaraj, Siddarth; Lee, Ah Young; Yen, Chia-An; Lin, Shin; Lin, Yiing; Qiu, Yunjiang; Xie, Wei; Yue, Feng; Hariharan, Manoj; Ray, Pradipta; Kuan, Samantha; Edsall, Lee; Yang, Hongbo; Chi, Neil C; Zhang, Michael Q; Ecker, Joseph R; Ren, Bing Nature. 25693566 2015 Feb 19;
Cell-of-origin chromatin organization shapes the mutational landscape of cancer. Polak, Paz; Karli?, Rosa; Koren, Amnon; Thurman, Robert; Sandstrom, Richard; Lawrence, Michael S; Reynolds, Alex; Rynes, Eric; Vlahovi?ek, Kristian; Stamatoyannopoulos, John A; Sunyaev, Shamil R Nature. 25693567 2015 Feb 19;
PRIMEGENSw3: a web-based tool for high-throughput primer and probe design. Kushwaha, Garima; Srivastava, Gyan Prakash; Xu, Dong Methods in molecular biology (Clifton, N.J.). 25697661 2015;
Developmental enhancers revealed by extensive DNA methylome maps of zebrafish early embryos. Lee, Hyung Joo; Lowdon, Rebecca F; Maricque, Brett; Zhang, Bo; Stevens, Michael; Li, Daofeng; Johnson, Stephen L; Wang, Ting Nature communications. 25697895 2015 Feb 20;
Anthracyclines induce double-strand DNA breaks at active gene promoters. Yang, Fan; Kemp, Christopher J; Henikoffa, Steven Mutation research. 25705119 2015 Mar;
Epigenome engineering in cancer: fairytale or a realistic path to the clinic? Falahi, Fahimeh; Sgro, Agustin; Blancafort, Pilar Frontiers in oncology. 25705610 2015;
An epigenome-wide association study of total serum immunoglobulin E concentration. Liang, Liming; Willis-Owen, Saffron A G; Laprise, Catherine; Wong, Kenny C C; Davies, Gwyneth A; Hudson, Thomas J; Binia, Aristea; Hopkin, Julian M; Yang, Ivana V; Grundberg, Elin; Busche, Stephan; Hudson, Marie; Ronnblom, Lars; Pastinen, Tomi M; Schwartz, David A; Lathrop, G Mark; Moffatt, Miriam F; Cookson, William O C M Nature. 25707804 2015 Apr 30;
Physical activity, motor function, and white matter hyperintensity burden in healthy older adults. Fleischman, Debra A; Yang, Jingyun; Arfanakis, Konstantinos; Arvanitakis, Zoe; Leurgans, Sue E; Turner, Arlener D; Barnes, Lisa L; Bennett, David A; Buchman, Aron S Neurology. 25762710 2015 Mar 31;
Kinetic Analysis and Quantification of [¹¹C]Martinostat for in Vivo HDAC Imaging of the Brain. Wey, Hsiao-Ying; Wang, Changning; Schroeder, Frederick A; Logan, Jean; Price, Julie C; Hooker, Jacob M ACS chemical neuroscience. 25768025 2015 May 20;
DNA methylation and childhood asthma in the inner city. Yang, Ivana V; Pedersen, Brent S; Liu, Andrew; O'Connor, George T; Teach, Stephen J; Kattan, Meyer; Misiak, Rana Tawil; Gruchalla, Rebecca; Steinbach, Suzanne F; Szefler, Stanley J; Gill, Michelle A; Calatroni, Agustin; David, Gloria; Hennessy, Corinne E; The Journal of allergy and clinical immunology. 25769910 2015 Jul;
Induction of hematopoietic and endothelial cell program orchestrated by ETS transcription factor ER71/ETV2. Liu, Fang; Li, Daofeng; Yu, Yik Yeung Lawrence; Kang, Inyoung; Cha, Min-Ji; Kim, Ju Young; Park, Changwon; Watson, Dennis K; Wang, Ting; Choi, Kyunghee EMBO reports. 25802403 2015 May;
Targeted disruption of DNMT1, DNMT3A and DNMT3B in human embryonic stem cells. Liao, Jing; Karnik, Rahul; Gu, Hongcang; Ziller, Michael J; Clement, Kendell; Tsankov, Alexander M; Akopian, Veronika; Gifford, Casey A; Donaghey, Julie; Galonska, Christina; Pop, Ramona; Reyon, Deepak; Tsai, Shengdar Q; Mallard, William; Joung, J Keith; Rinn, John L; Gnirke, Andreas; Meissner, Alexander Nature genetics. 25822089 2015 May;
Genome Modification in Enterococcus faecalis OG1RF Assessed by Bisulfite Sequencing and Single-Molecule Real-Time Sequencing. Huo, Wenwen; Adams, Hannah M; Zhang, Michael Q; Palmer, Kelli L Journal of bacteriology. 25825433 2015 Jun;
Epigenetic priming of enhancers predicts developmental competence of hESC-derived endodermal lineage intermediates. Wang, Allen; Yue, Feng; Li, Yan; Xie, Ruiyu; Harper, Thomas; Patel, Nisha A; Muth, Kayla; Palmer, Jeffrey; Qiu, Yunjiang; Wang, Jinzhao; Lam, Dieter K; Raum, Jeffrey C; Stoffers, Doris A; Ren, Bing; Sander, Maike Cell stem cell. 25842977 2015 Apr 2;
An anti-silencer- and SATB1-dependent chromatin hub regulates Rag1 and Rag2 gene expression during thymocyte development. Hao, Bingtao; Naik, Abani Kanta; Watanabe, Akiko; Tanaka, Hirokazu; Chen, Liang; Richards, Hunter W; Kondo, Motonari; Taniuchi, Ichiro; Kohwi, Yoshinori; Kohwi-Shigematsu, Terumi; Krangel, Michael S The Journal of experimental medicine. 25847946 2015 May 4;
Genes with de novo mutations are shared by four neuropsychiatric disorders discovered from NPdenovo database. Li, Jinchen; Cai, Tao; Jiang, Yi; Chen, Huiqian; He, Xin; Chen, Chao; Li, Xianfeng; Shao, Qianzhi; Ran, Xia; Li, Zhongshan; Xia, Kun; Liu, Chunyu; Sun, Zhong Sheng; Wu, Jinyu Molecular psychiatry 25849321 2016 Feb
Epigenome editing by a CRISPR-Cas9-based acetyltransferase activates genes from promoters and enhancers. Hilton, Isaac B; D'Ippolito, Anthony M; Vockley, Christopher M; Thakore, Pratiksha I; Crawford, Gregory E; Reddy, Timothy E; Gersbach, Charles A Nature biotechnology. 25849900 2015 May;
Regulation of chromatin accessibility and Zic binding at enhancers in the developing cerebellum. Frank, Christopher L; Liu, Fang; Wijayatunge, Ranjula; Song, Lingyun; Biegler, Matthew T; Yang, Marty G; Vockley, Christopher M; Safi, Alexias; Gersbach, Charles A; Crawford, Gregory E; West, Anne E Nature neuroscience. 25849986 2015 May;
Paternal sperm DNA methylation associated with early signs of autism risk in an autism-enriched cohort. Feinberg, Jason I; Bakulski, Kelly M; Jaffe, Andrew E; Tryggvadottir, Rakel; Brown, Shannon C; Goldman, Lynn R; Croen, Lisa A; Hertz-Picciotto, Irva; Newschaffer, Craig J; Daniele Fallin, M; Feinberg, Andrew P International journal of epidemiology. 25878217 2015 Aug;
MIRA-seq for DNA methylation analysis of CpG islands. Jung, Marc; Kadam, Swati; Xiong, Wenying; Rauch, Tibor A; Jin, Seung-Gi; Pfeifer, Gerd P Epigenomics. 25881900 2015 Apr 17;
Transcriptomic profiles of aging in purified human immune cells. Reynolds, Lindsay M; Ding, Jingzhong; Taylor, Jackson R; Lohman, Kurt; Soranzo, Nicola; de la Fuente, Alberto; Liu, Tie Fu; Johnson, Craig; Barr, R Graham; Register, Thomas C; Donohue, Kathleen M; Talor, Monica V; Cihakova, Daniela; Gu, Charles; Divers, Jasmin; Siscovick, David; Burke, Gregory; Post, Wendy; Shea, Steven; Jacobs Jr, David R; Hoeschele, Ina; McCall, Charles E; Kritchevsky, Stephen B; Herrington, David; Tracy, Russell P; Liu, Yongmei BMC genomics. 25898983 2015;
Prenatal mercury concentration is associated with changes in DNA methylation at TCEANC2 in newborns. Bakulski, Kelly M; Lee, HwaJin; Feinberg, Jason I; Wells, Ellen M; Brown, Shannon; Herbstman, Julie B; Witter, Frank R; Halden, Rolf U; Caldwell, Kathleen; Mortensen, Mary Ellen; Jaffe, Andrew E; Moye Jr, John; Caulfield, Laura E; Pan, Yi; Goldman, Lynn R International journal of epidemiology. 25906783 2015 Aug;
A unique chromatin complex occupies young ?-satellite arrays of human centromeres. Henikoff, Jorja G; Thakur, Jitendra; Kasinathan, Sivakanthan; Henikoff, Steven Science advances. 25927077 2015 Feb 12;
Chemosensory receptor specificity and regulation. Dalton, Ryan P; Lomvardas, Stavros Annual review of neuroscience. 25938729 2015 Jul 8;
The evolving understanding of the contribution of lipid metabolism to diabetic kidney disease. Stadler, Krisztian; Goldberg, Ira J; Susztak, Katalin Current diabetes reports. 25957525 2015 Jul;
Cognitive aging in older Black and White persons. Wilson, Robert S; Capuano, Ana W; Sytsma, Joel; Bennett, David A; Barnes, Lisa L Psychology and aging. 25961876 2015 Jun;
Longitudinal epigenetic and gene expression profiles analyzed by three-component analysis reveal down-regulation of genes involved in protein translation in human aging. Jung, Marc; Jin, Seung-Gi; Zhang, Xiaoying; Xiong, Wenying; Gogoshin, Grigoriy; Rodin, Andrei S; Pfeifer, Gerd P Nucleic acids research. 25977295 2015 Sep 3;
Targeted Transcriptional Repression in Bacteria Using CRISPR Interference (CRISPRi). Hawkins, John S; Wong, Spencer; Peters, Jason M; Almeida, Ricardo; Qi, Lei S Methods in molecular biology (Clifton, N.J.). 25981485 2015;
Inferring regulatory element landscapes and transcription factor networks from cancer methylomes. Yao, Lijing; Shen, Hui; Laird, Peter W; Farnham, Peggy J; Berman, Benjamin P Genome biology. 25994056 2015;
Association of DNA methylation in the brain with age in older persons is confounded by common neuropathologies. Yang, Jingyun; Yu, Lei; Gaiteri, Christopher; Srivastava, Gyan P; Chibnik, Lori B; Leurgans, Sue E; Schneider, Julie A; Meissner, Alexander; De Jager, Philip L; Bennett, David A The international journal of biochemistry & cell biology. 26003740 2015 May 21;
The Role of MicroRNAs and Human Epidermal Growth Factor Receptor 2 in Proliferative Lupus Nephritis. Costa-Reis, Patrícia; Russo, Pierre A; Zhang, Zhe; Colonna, Lucrezia; Maurer, Kelly; Gallucci, Stefania; Schulz, Steffan W; Kiani, Adnan N; Petri, Michelle; Sullivan, Kathleen E Arthritis & rheumatology (Hoboken, N.J.) 26016809 2015 Sep
Genome-wide specificity of DNA binding, gene regulation, and chromatin remodeling by TALE- and CRISPR/Cas9-based transcriptional activators. Polstein, Lauren R; Perez-Pinera, Pablo; Kocak, D Dewran; Vockley, Christopher M; Bledsoe, Peggy; Song, Lingyun; Safi, Alexias; Crawford, Gregory E; Reddy, Timothy E; Gersbach, Charles A Genome research. 26025803 2015 Aug;
GATA factors in endocrine neoplasia. Pihlajoki, Marjut; Färkkilä, Anniina; Soini, Tea; Heikinheimo, Markku; Wilson, David B Molecular and cellular endocrinology. 26027919 2016 Feb 05;
Human body epigenome maps reveal noncanonical DNA methylation variation. Schultz, Matthew D; He, Yupeng; Whitaker, John W; Hariharan, Manoj; Mukamel, Eran A; Leung, Danny; Rajagopal, Nisha; Nery, Joseph R; Urich, Mark A; Chen, Huaming; Lin, Shin; Lin, Yiing; Jung, Inkyung; Schmitt, Anthony D; Selvaraj, Siddarth; Ren, Bing; Sejnowski, Terrence J; Wang, Wei; Ecker, Joseph R Nature. 26030523 2015 Jul 9;
Phosphorus-32, a clinically available drug, inhibits cancer growth by inducing DNA double-strand breakage. Cheng, Yulan; Kiess, Ana P; Herman, Joseph M; Pomper, Martin G; Meltzer, Stephen J; Abraham, John M PloS one. 26030880 2015;
Deletion of Lkb1 in Renal Tubular Epithelial Cells Leads to CKD by Altering Metabolism. Han, Seung Hyeok; Malaga-Dieguez, Laura; Chinga, Frank; Kang, Hyun Mi; Tao, Jianling; Reidy, Kimberly; Susztak, Katalin Journal of the American Society of Nephrology : JASN. 26054542 2016 Feb;
Irregular 24-hour activity rhythms and the metabolic syndrome in older adults. Sohail, Shahmir; Yu, Lei; Bennett, David A; Buchman, Aron S; Lim, Andrew S P Chronobiology international. 26061588 2015;
Differential DNA methylation identified in the blood and retina of AMD patients. Oliver, Verity F; Jaffe, Andrew E; Song, Jin; Wang, Guohua; Zhang, Pingwu; Branham, Kari E; Swaroop, Anand; Eberhart, Charles G; Zack, Donald J; Qian, Jiang; Merbs, Shannath L Epigenetics. 26067391 2015;
High Precision DNA Modification Analysis of HCG9 in Major Psychosis. Pal, Mrinal; Ebrahimi, Sasha; Oh, Gabriel; Khare, Tarang; Zhang, Aiping; Kaminsky, Zachary A; Wang, Sun-Chong; Petronis, Arturas Schizophrenia bulletin. 26078387 2016 Jan;
Characterization of twenty-five ovarian tumour cell lines that phenocopy primary tumours. Ince, Tan A; Sousa, Aurea D; Jones, Michelle A; Harrell, J Chuck; Agoston, Elin S; Krohn, Marit; Selfors, Laura M; Liu, Wenbin; Chen, Ken; Yong, Mao; Buchwald, Peter; Wang, Bin; Hale, Katherine S; Cohick, Evan; Sergent, Petra; Witt, Abigail; Kozhekbaeva, Nature communications. 26080861 2015;
Control of Protein Activity and Cell Fate Specification via Light-Mediated Nuclear Translocation. Yumerefendi, Hayretin; Dickinson, Daniel J; Wang, Hui; Zimmerman, Seth P; Bear, James E; Goldstein, Bob; Hahn, Klaus; Kuhlman, Brian PloS one. 26083500 2015;
Population dynamics of cancer cells with cell state conversions. Zhou, Da; Wu, Dingming; Li, Zhe; Qian, Minping; Zhang, Michael Q Quantitative biology. 26085954 2013 Sep;
Chromosomes. A comprehensive Xist interactome reveals cohesin repulsion and an RNA-directed chromosome conformation. Minajigi, Anand; Froberg, John; Wei, Chunyao; Sunwoo, Hongjae; Kesner, Barry; Colognori, David; Lessing, Derek; Payer, Bernhard; Boukhali, Myriam; Haas, Wilhelm; Lee, Jeannie T Science (New York, N.Y.) 26089354 2015 Jul 17
Alzheimer's loci: epigenetic associations and interaction with genetic factors. Chibnik, Lori B; Yu, Lei; Eaton, Matthew L; Srivastava, Gyan; Schneider, Julie A; Kellis, Manolis; Bennett, David A; De Jager, Philip L Annals of clinical and translational neurology. 26125039 2015 Jun;
Alterations of a Cellular Cholesterol Metabolism Network Are a Molecular Feature of Obesity-Related Type 2 Diabetes and Cardiovascular Disease. Ding, Jingzhong; Reynolds, Lindsay M; Zeller, Tanja; Müller, Christian; Lohman, Kurt; Nicklas, Barbara J; Kritchevsky, Stephen B; Huang, Zhiqing; de la Fuente, Alberto; Soranzo, Nicola; Settlage, Robert E; Chuang, Chia-Chi; Howard, Timothy; Xu, Ning; Good Diabetes. 26153245 2015 Oct;
MicroRNAs Classify Different Disease Behavior Phenotypes of Crohn's Disease and May Have Prognostic Utility. Peck, Bailey C E; Weiser, Matthew; Lee, Saangyoung E; Gipson, Gregory R; Iyer, Vishal B; Sartor, Ryan B; Herfarth, Hans H; Long, Millie D; Hansen, Jonathan J; Isaacs, Kim L; Trembath, Dimitri G; Rahbar, Reza; Sadiq, Timothy S; Furey, Terrence S; Sethupath Inflammatory bowel diseases. 26164662 2015 Sep;
Quantitative assessment of RNA-protein interactions with high-throughput sequencing-RNA affinity profiling. Ozer, Abdullah; Tome, Jacob M; Friedman, Robin C; Gheba, Dan; Schroth, Gary P; Lis, John T Nature protocols. 26182240 2015 Aug;
Diet-Induced Podocyte Dysfunction in Drosophila and Mammals. Na, Jianbo; Sweetwyne, Mariya T; Park, Ae Seo Deok; Susztak, Katalin; Cagan, Ross L Cell reports. 26190114 2015 Jul 28;
Role of DNA methylation in renal cell carcinoma. Shenoy, Niraj; Vallumsetla, Nishanth; Zou, Yiyu; Galeas, Jose Nahun; Shrivastava, Makardhwaj; Hu, Caroline; Susztak, Katalin; Verma, Amit Journal of hematology & oncology. 26198328 2015 Jul 22;
Genomic analysis reveals distinct mechanisms and functional classes of SOX10-regulated genes in melanocytes. Fufa, Temesgen D; Harris, Melissa L; Watkins-Chow, Dawn E; Levy, Denise; Gorkin, David U; Gildea, Derek E; Song, Lingyun; Safi, Alexias; Crawford, Gregory E; Sviderskaya, Elena V; Bennett, Dorothy C; Mccallion, Andrew S; Loftus, Stacie K; Pavan, William J Human molecular genetics. 26206884 2015 Oct 1;
Endotoxin tolerance in monocytes can be mitigated by ?2-interferon. Shi, Lihua; Song, Li; Maurer, Kelly; Sharp, James; Zhang, Zhe; Sullivan, Kathleen E Journal of leukocyte biology. 26206900 2015 Oct;
Alternative preprocessing of RNA-Sequencing data in The Cancer Genome Atlas leads to improved analysis results. Rahman, Mumtahena; Jackson, Laurie K; Johnson, W Evan; Li, Dean Y; Bild, Andrea H; Piccolo, Stephen R Bioinformatics (Oxford, England). 26209429 2015 Nov 15;
CRISPR-ERA: a comprehensive design tool for CRISPR-mediated gene editing, repression and activation. Liu, Honglei; Wei, Zheng; Dominguez, Antonia; Li, Yanda; Wang, Xiaowo; Qi, Lei S Bioinformatics (Oxford, England). 26209430 2015 Nov 15;
Synthetic biology approaches to engineer T cells. Wu, Chia-Yung; Rupp, Levi J; Roybal, Kole T; Lim, Wendell A Current opinion in immunology. 26218616 2015 Aug;
Heat shock factor 1 induces cancer stem cell phenotype in breast cancer cell lines. Wang, Bin; Lee, Chung-Wei; Witt, Abigail; Thakkar, Ankita; Ince, Tan A Breast cancer research and treatment. 26223813 2015 Aug;
Epigenetic Signatures as Biomarkers of Exposure. Ladd-Acosta, Christine Current environmental health reports. 26231361 2015 Jun;
Identification of Global DNA Methylation Signatures in Glioblastoma-Derived Cancer Stem Cells. Lee, Eun-Joon; Rath, Prakash; Liu, Jimei; Ryu, Dungsung; Pei, Lirong; Noonepalle, Satish K; Shull, Austin Y; Feng, Qi; Litofsky, N Scott; Miller, Douglas C; Anthony, Douglas C; Kirk, Mark D; Laterra, John; Deng, Libin; Xin, Hong-Bo; Wang, Xinguo; Choi, Jeong-Hyeon; Shi, Huidong Journal of genetics and genomics = Yi chuan xue bao. 26233891 2015 Jul 20;
Klotho: a tumor suppressor and modulator of the Wnt/?-catenin pathway in human hepatocellular carcinoma. Tang, Xiaowei; Wang, Yun; Fan, Zhining; Ji, Guozhong; Wang, Min; Lin, Jie; Huang, Shu; Meltzer, Stephen J Laboratory investigation; a journal of technical methods and pathology. 26237271 2016 Feb;
Evidence of CNIH3 involvement in opioid dependence. Nelson, E C; Agrawal, A; Heath, A C; Bogdan, R; Sherva, R; Zhang, B; Al-Hasani, R; Bruchas, M R; Chou, Y-L; Demers, C H; Carey, C E; Conley, E D; Fakira, A K; Farrer, L A; Goate, A; Gordon, S; Henders, A K; Hesselbrock, V; Kapoor, M; Lynskey, M T; Madden, P A F; Moron, J A; Rice, J P; Saccone, N L; Schwab, S G; Shand, F L; Todorov, A A; Wallace, L; Wang, T; Wray, N R; Zhou, X; Degenhardt, L; Martin, N G; Hariri, A R; Kranzler, H R; Gelernter, J; Bierut, L J; Clark, D J; Montgomery, G W Molecular psychiatry. 26239289 2015 Aug 4;
Role of DNA Methylation in Modulating Transcription Factor Occupancy. Maurano, Matthew T; Wang, Hao; John, Sam; Shafer, Anthony; Canfield, Theresa; Lee, Kristen; Stamatoyannopoulos, John A Cell reports. 26257180 2015 Aug 18;
Comparative analyses of CTCF and BORIS occupancies uncover two distinct classes of CTCF binding genomic regions. Pugacheva, Elena M; Rivero-Hinojosa, Samuel; Espinoza, Celso A; Méndez-Catalá, Claudia Fabiola; Kang, Sungyun; Suzuki, Teruhiko; Kosaka-Suzuki, Natsuki; Robinson, Susan; Nagarajan, Vijayaraj; Ye, Zhen; Boukaba, Abdelhalim; Rasko, John E J; Strunnikov, Ale Genome biology. 26268681 2015;
Systematic chromatin state comparison of epigenomes associated with diverse properties including sex and tissue type. Yen, Angela; Kellis, Manolis Nature communications. 26282110 2015;
LINE-1 expression and retrotransposition in Barrett's esophagus and esophageal carcinoma. Doucet-O'Hare, Tara T; Rodi?, Nemanja; Sharma, Reema; Darbari, Isha; Abril, Gabriela; Choi, Jungbin A; Young Ahn, Ji; Cheng, Yulan; Anders, Robert A; Burns, Kathleen H; Meltzer, Stephen J; Kazazian Jr, Haig H Proceedings of the National Academy of Sciences of the United States of America. 26283398 2015 Sep 1;
Notch1 and Notch2 in Podocytes Play Differential Roles During Diabetic Nephropathy Development. Sweetwyne, Mariya T; Gruenwald, Antje; Niranjan, Thiruvur; Nishinakamura, Ryuichi; Strobl, Lothar J; Susztak, Katalin Diabetes. 26293507 2015 Dec;
Life course socioeconomic status and DNA methylation in genes related to stress reactivity and inflammation: The multi-ethnic study of atherosclerosis. Needham, Belinda L; Smith, Jennifer A; Zhao, Wei; Wang, Xu; Mukherjee, Bhramar; Kardia, Sharon L R; Shively, Carol A; Seeman, Teresa E; Liu, Yongmei; Diez Roux, Ava V Epigenetics. 26295359 2015;
Spatiotemporal control of estrogen-responsive transcription in ER?-positive breast cancer cells. Hsu, P-Y; Hsu, H-K; Hsiao, T-H; Ye, Z; Wang, E; Profit, A L; Jatoi, I; Chen, Y; Kirma, N B; Jin, V X; Sharp, Z D; Huang, T H-M Oncogene. 26300005 2016 05 05;
Genetic Control of Chromatin States in Humans Involves Local and Distal Chromosomal Interactions. Grubert, Fabian; Zaugg, Judith B; Kasowski, Maya; Ursu, Oana; Spacek, Damek V; Martin, Alicia R; Greenside, Peyton; Srivas, Rohith; Phanstiel, Doug H; Pekowska, Aleksandra; Heidari, Nastaran; Euskirchen, Ghia; Huber, Wolfgang; Pritchard, Jonathan K; Busta Cell. 26300125 2015 Aug 27;
DNA Methylation of the Aryl Hydrocarbon Receptor Repressor Associations With Cigarette Smoking and Subclinical Atherosclerosis. Reynolds, Lindsay M; Wan, Ma; Ding, Jingzhong; Taylor, Jackson R; Lohman, Kurt; Su, Dan; Bennett, Brian D; Porter, Devin K; Gimple, Ryan; Pittman, Gary S; Wang, Xuting; Howard, Timothy D; Siscovick, David; Psaty, Bruce M; Shea, Steven; Burke, Gregory L; J Circulation. Cardiovascular genetics. 26307030 2015 Oct;
Impact of a cis-associated gene expression SNP on chromosome 20q11.22 on bipolar disorder susceptibility, hippocampal structure and cognitive performance. Li, Ming; Luo, Xiong-Jian; Landén, Mikael; Bergen, Sarah E; Hultman, Christina M; Li, Xiao; Zhang, Wen; Yao, Yong-Gang; Zhang, Chen; Liu, Jiewei; Mattheisen, Manuel; Cichon, Sven; Mühleisen, Thomas W; Degenhardt, Franziska A; Nöthen, Markus M; Schulze, Thomas G; Grigoroiu-Serbanescu, Maria; Li, Hao; Fuller, Chris K; Chen, Chunhui; Dong, Qi; Chen, Chuansheng; Jamain, Stéphane; Leboyer, Marion; Bellivier, Frank; Etain, Bruno; Kahn, Jean-Pierre; Henry, Chantal; Preisig, Martin; Kutalik, Zoltán; Castelao, Enrique; Wright, Adam; Mitchell, Philip B; Fullerton, Janice M; Schofield, Peter R; Montgomery, Grant W; Medland, Sarah E; Gordon, Scott D; Martin, Nicholas G; MooDS Consortium; Swedish Bipolar Study Group; Rietschel, Marcella; Liu, Chunyu; Kleinman, Joel E; Hyde, Thomas M; Weinberger, Daniel R; Su, Bing The British journal of psychiatry : the journal of mental science. 26338991 2016 Feb;
BACOM2.0 facilitates absolute normalization and quantification of somatic copy number alterations in heterogeneous tumor. Fu, Yi; Yu, Guoqiang; Levine, Douglas A; Wang, Niya; Shih, Ie-Ming; Zhang, Zhen; Clarke, Robert; Wang, Yue Scientific reports. 26350498 2015;
Labelling and optical erasure of synaptic memory traces in the motor cortex. Hayashi-Takagi, Akiko; Yagishita, Sho; Nakamura, Mayumi; Shirai, Fukutoshi; Wu, Yi I; Loshbaugh, Amanda L; Kuhlman, Brian; Hahn, Klaus M; Kasai, Haruo Nature. 26352471 2015 Sep 17;
Bacterial CRISPR: accomplishments and prospects. Peters, Jason M; Silvis, Melanie R; Zhao, Dehua; Hawkins, John S; Gross, Carol A; Qi, Lei S Current opinion in microbiology. 26363124 2015 Oct;
The CRISPR road: from bench to bedside on an RNA-guided path. Garcia-Bloj, Benjamin; Moses, Colette; Blancafort, Pilar Annals of translational medicine. 26366391 2015 Aug;
The New State of the Art: Cas9 for Gene Activation and Repression. La Russa, Marie F; Qi, Lei S Molecular and cellular biology. 26370509 2015 Nov;
Structure and specificity of the RNA-guided endonuclease Cas9 during DNA interrogation, target binding and cleavage. Josephs, Eric A; Kocak, D Dewran; Fitzgibbon, Christopher J; McMenemy, Joshua; Gersbach, Charles A; Marszalek, Piotr E Nucleic acids research. 26384421 2015 Oct 15;
The long noncoding RNA landscape in hypoxic and inflammatory renal epithelial injury. Lin, Jennie; Zhang, Xuan; Xue, Chenyi; Zhang, Hanrui; Shashaty, Michael G S; Gosai, Sager J; Meyer, Nuala; Grazioli, Alison; Hinkle, Christine; Caughey, Jennifer; Li, Wenjun; Susztak, Katalin; Gregory, Brian D; Li, Mingyao; Reilly, Muredach P American journal of physiology. Renal physiology. 26400545 2015 Dec 01;
methylPipe and compEpiTools: a suite of R packages for the integrative analysis of epigenomics data. Kishore, Kamal; de Pretis, Stefano; Lister, Ryan; Morelli, Marco J; Bianchi, Valerio; Amati, Bruno; Ecker, Joseph R; Pelizzola, Mattia BMC bioinformatics. 26415965 2015;
TQ inhibits hepatocellular carcinoma growth in vitro and in vivo via repression of Notch signaling. Ke, Xiquan; Zhao, Yan; Lu, Xinlan; Wang, Zhe; Liu, Yuanyuan; Ren, Mudan; Lu, Guifang; Zhang, Dan; Sun, Zhenguo; Xu, Zhipeng; Song, Jee Hoon; Cheng, Yulan; Meltzer, Stephen J; He, Shuixiang Oncotarget. 26416455 2015 Oct 20;
Enabling functional genomics with genome engineering. Hilton, Isaac B; Gersbach, Charles A Genome research. 26430154 2015 Oct;
Animal Models of Chemical Carcinogenesis: Driving Breakthroughs in Cancer Research for 100 Years. Kemp, Christopher J Cold Spring Harbor protocols. 26430259 2015 Oct;
Monocyte enhancers are highly altered in systemic lupus erythematosus. Shi, Lihua; Zhang, Zhe; Song, Li; Leung, Yiu Tak; Petri, Michelle A; Sullivan, Kathleen E Epigenomics. 26442457 2015;
The Development of TALE Nucleases for Biotechnology. Ousterout, David G; Gersbach, Charles A Methods in molecular biology (Clifton, N.J.). 26443211 2016;
Design, Assembly, and Characterization of TALE-Based Transcriptional Activators and Repressors. Thakore, Pratiksha I; Gersbach, Charles A Methods in molecular biology (Clifton, N.J.). 26443215 2016;
Demystifying the secret mission of enhancers: linking distal regulatory elements to target genes. Yao, Lijing; Berman, Benjamin P; Farnham, Peggy J Critical reviews in biochemistry and molecular biology. 26446758 2015;
Dual Roles of RNF2 in Melanoma Progression. Rai, Kunal; Akdemir, Kadir C; Kwong, Lawrence N; Fiziev, Petko; Wu, Chang-Jiun; Keung, Emily Z; Sharma, Sneha; Samant, Neha S; Williams, Maura; Axelrad, Jacob B; Shah, Amiksha; Yang, Dong; Grimm, Elizabeth A; Barton, Michelle C; Milton, Denai R; Heffernan, Timothy P; Horner, James W; Ekmekcioglu, Suhendan; Lazar, Alexander J; Ernst, Jason; Chin, Lynda Cancer discovery 26450788 2015 Dec
Parent-of-Origin Effects of the APOB Gene on Adiposity in Young Adults. Hochner, Hagit; Allard, Catherine; Granot-Hershkovitz, Einat; Chen, Jinbo; Sitlani, Colleen M; Sazdovska, Sandra; Lumley, Thomas; McKnight, Barbara; Rice, Kenneth; Enquobahrie, Daniel A; Meigs, James B; Kwok, Pui; Hivert, Marie-France; Borecki, Ingrid B; Gomez, Felicia; Wang, Ting; van Duijn, Cornelia; Amin, Najaf; Rotter, Jerome I; Stamatoyannopoulos, John; Meiner, Vardiella; Manor, Orly; Dupuis, Josée; Friedlander, Yechiel; Siscovick, David S PLoS genetics. 26451733 2015 Oct;
Interindividual methylomic variation across blood, cortex, and cerebellum: implications for epigenetic studies of neurological and neuropsychiatric phenotypes. Hannon, Eilis; Lunnon, Katie; Schalkwyk, Leonard; Mill, Jonathan Epigenetics. 26457534 2015;
Integrated miRNA profiling and bioinformatics analyses reveal potential causative miRNAs in gastric adenocarcinoma. Zhang, Xiaojing; Peng, Yin; Jin, Zhe; Huang, Weiling; Cheng, Yulan; Liu, Yudan; Feng, Xianling; Yang, Mengting; Huang, Yong; Zhao, Zhenfu; Wang, Liang; Wei, Yanjie; Fan, Xinmin; Zheng, Duo; Meltzer, Stephen J Oncotarget. 26460735 2015 Oct 20;
Ribosome profiling reveals the what, when, where and how of protein synthesis. Brar, Gloria A; Weissman, Jonathan S Nature reviews. Molecular cell biology. 26465719 2015 Nov;
Correlating in Vitro and in Vivo Activities of Light-Inducible Dimers: A Cellular Optogenetics Guide. Hallett, Ryan A; Zimmerman, Seth P; Yumerefendi, Hayretin; Bear, James E; Kuhlman, Brian ACS synthetic biology. 26474029 2016 Jan 15;
Methylomic analysis of monozygotic twins discordant for childhood psychotic symptoms. Fisher, Helen L; Murphy, Therese M; Arseneault, Louise; Caspi, Avshalom; Moffitt, Terrie E; Viana, Joana; Hannon, Eilis; Pidsley, Ruth; Burrage, Joe; Dempster, Emma L; Wong, Chloe C Y; Pariante, Carmine M; Mill, Jonathan Epigenetics. 26479702 2015;
Psychiatric genetics in China: achievements and challenges. Liu, Chunyu; Saffen, David; Schulze, Thomas G; Burmeister, Margit; Sham, Pak Chung; Yao, Yong-Gang; Kuo, Po-Hsiu; Chen, Chao; An, Yu; Dai, Jiapei; Yue, Weihua; Li, Miao Xin; Xue, Hong; Su, Bing; Chen, Li; Shi, Yongyong; Qiao, Mingqi; Liu, Tiebang; Xia, Kun; Chan, Raymond C K Molecular psychiatry 26481319 2016 Jan
ChEC-seq kinetics discriminates transcription factor binding sites by DNA sequence and shape in vivo. Zentner, Gabriel E; Kasinathan, Sivakanthan; Xin, Beibei; Rohs, Remo; Henikoff, Steven Nature communications. 26490019 2015;
Highly specific epigenome editing by CRISPR-Cas9 repressors for silencing of distal regulatory elements. Thakore, Pratiksha I; D'Ippolito, Anthony M; Song, Lingyun; Safi, Alexias; Shivakumar, Nishkala K; Kabadi, Ami M; Reddy, Timothy E; Crawford, Gregory E; Gersbach, Charles A Nature methods. 26501517 2015 Dec;
Large-scale identification of sequence variants influencing human transcription factor occupancy in vivo. Maurano, Matthew T; Haugen, Eric; Sandstrom, Richard; Vierstra, Jeff; Shafer, Anthony; Kaul, Rajinder; Stamatoyannopoulos, John A Nature genetics. 26502339 2015 Dec;
Validation and genomic interrogation of the MET variant rs11762213 as a predictor of adverse outcomes in clear cell renal cell carcinoma. Hakimi, A Ari; Ostrovnaya, Irina; Jacobsen, Anders; Susztak, Katalin; Coleman, Jonathan A; Russo, Paul; Winer, Andrew G; Mano, Roy; Sankin, Alexander I; Motzer, Robert J; Voss, Martin H; Offit, Kenneth; Purdue, Mark; Pomerantz, Mark; Freedman, Matthew; Choueiri, Toni K; Hsieh, James J; Klein, Robert J Cancer. 26505625 2016 Feb 01;
Perinatal deiodinase 2 expression in hepatocytes defines epigenetic susceptibility to liver steatosis and obesity. Fonseca, Tatiana L; Fernandes, Gustavo W; McAninch, Elizabeth A; Bocco, Barbara M L C; Abdalla, Sherine M; Ribeiro, Miriam O; Mohácsik, Petra; Fekete, Csaba; Li, Daofeng; Xing, Xiaoyun; Wang, Ting; Gereben, Balázs; Bianco, Antonio C Proceedings of the National Academy of Sciences of the United States of America. 26508642 2015 Nov 10;
ETO family protein Mtgr1 mediates Prdm14 functions in stem cell maintenance and primordial germ cell formation. Nady, Nataliya; Gupta, Ankit; Ma, Ziyang; Swigut, Tomek; Koide, Akiko; Koide, Shohei; Wysocka, Joanna eLife. 26523391 2015;
Complete haplotype phasing of the MHC and KIR loci with targeted HaploSeq. Selvaraj, Siddarth; Schmitt, Anthony D; Dixon, Jesse R; Ren, Bing BMC genomics. 26541200 2015;
Aberrant intracellular localization of H3k4me3 demonstrates an early epigenetic phenomenon in Alzheimer's disease. Mastroeni, Diego; Delvaux, Elaine; Nolz, Jennifer; Tan, Yuyan; Grover, Andrew; Oddo, Salvatore; Coleman, Paul D Neurobiology of aging. 26553823 2015 Dec;
Identification of differentially methylated loci using wavelet-based functional mixed models. Lee, Wonyul; Morris, Jeffrey S Bioinformatics (Oxford, England). 26559505 2016 Mar 01;
CpG methylation differences between neurons and glia are highly conserved from mouse to human. Kessler, Noah J; Van Baak, Timothy E; Baker, Maria S; Laritsky, Eleonora; Coarfa, Cristian; Waterland, Robert A Human molecular genetics. 26566671 2016 Jan 15;
The Association Between Apolipoprotein E and Functional Outcome After Traumatic Brain Injury: A Meta-Analysis. Li, Lizhuo; Bao, Yijun; He, Songbai; Wang, Gang; Guan, Yanlei; Ma, Dexuan; Wu, Rile; Wang, Pengfei; Huang, Xiaolong; Tao, Shanwei; Liu, Qiwen; Wang, Yunjie; Yang, Jingyun Medicine. 26579811 2015 Nov;
Monoacylglycerol lipase (MGLL) polymorphism rs604300 interacts with childhood adversity to predict cannabis dependence symptoms and amygdala habituation: Evidence from an endocannabinoid system-level analysis. Carey, Caitlin E; Agrawal, Arpana; Zhang, Bo; Conley, Emily D; Degenhardt, Louisa; Heath, Andrew C; Li, Daofeng; Lynskey, Michael T; Martin, Nicholas G; Montgomery, Grant W; Wang, Ting; Bierut, Laura J; Hariri, Ahmad R; Nelson, Elliot C; Bogdan, Ryan Journal of abnormal psychology. 26595473 2015 Nov;
A Systematic Approach to Identify Candidate Transcription Factors that Control Cell Identity. D'Alessio, Ana C; Fan, Zi Peng; Wert, Katherine J; Baranov, Petr; Cohen, Malkiel A; Saini, Janmeet S; Cohick, Evan; Charniga, Carol; Dadon, Daniel; Hannett, Nancy M; Young, Michael J; Temple, Sally; Jaenisch, Rudoff; Lee, Tong Ihn; Young, Richard A Stem cell reports. 26603904 2015 Nov 10;
Trans effects of chromosome aneuploidies on DNA methylation patterns in human Down syndrome and mouse models. Mendioroz, Maite; Do, Catherine; Jiang, Xiaoling; Liu, Chunhong; Darbary, Huferesh K; Lang, Charles F; Lin, John; Thomas, Anna; Abu-Amero, Sayeda; Stanier, Philip; Temkin, Alexis; Yale, Alexander; Liu, Meng-Min; Li, Yang; Salas, Martha; Kerkel, Kristi; Ca Genome biology. 26607552 2015;
Methylation QTLs in the developing brain and their enrichment in schizophrenia risk loci. Hannon, Eilis; Spiers, Helen; Viana, Joana; Pidsley, Ruth; Burrage, Joe; Murphy, Therese M; Troakes, Claire; Turecki, Gustavo; O'Donovan, Michael C; Schalkwyk, Leonard C; Bray, Nicholas J; Mill, Jonathan Nature neuroscience. 26619357 2016 Jan;
Genome-wide Association Studies Identify Genetic Loci Associated With Albuminuria in Diabetes. Teumer, Alexander; Tin, Adrienne; Sorice, Rossella; Gorski, Mathias; Yeo, Nan Cher; Chu, Audrey Y; Li, Man; Li, Yong; Mijatovic, Vladan; Ko, Yi-An; Taliun, Daniel; Luciani, Alessandro; Chen, Ming-Huei; Yang, Qiong; Foster, Meredith C; Olden, Matthias; Hiraki, Linda T; Tayo, Bamidele O; Fuchsberger, Christian; Dieffenbach, Aida Karina; Shuldiner, Alan R; Smith, Albert V; Zappa, Allison M; Lupo, Antonio; Kollerits, Barbara; Ponte, Belen; Stengel, Bénédicte; Krämer, Bernhard K; Paulweber, Bernhard; Mitchell, Braxton D; Hayward, Caroline; Helmer, Catherine; Meisinger, Christa; Gieger, Christian; Shaffer, Christian M; Müller, Christian; Langenberg, Claudia; Ackermann, Daniel; Siscovick, David; DCCT/EDIC; Boerwinkle, Eric; Kronenberg, Florian; Ehret, Georg B; Homuth, Georg; Waeber, Gerard; Navis, Gerjan; Gambaro, Giovanni; Malerba, Giovanni; Eiriksdottir, Gudny; Li, Guo; Wichmann, H Erich; Grallert, Harald; Wallaschofski, Henri; Völzke, Henry; Brenner, Herrmann; Kramer, Holly; Mateo Leach, I; Rudan, Igor; Hillege, Hans L; Beckmann, Jacques S; Lambert, Jean Charles; Luan, Jian'an; Zhao, Jing Hua; Chalmers, John; Coresh, Josef; Denny, Joshua C; Butterbach, Katja; Launer, Lenore J; Ferrucci, Luigi; Kedenko, Lyudmyla; Haun, Margot; Metzger, Marie; Woodward, Mark; Hoffman, Matthew J; Nauck, Matthias; Waldenberger, Melanie; Pruijm, Menno; Bochud, Murielle; Rheinberger, Myriam; Verweij, Niek; Wareham, Nicholas J; Endlich, Nicole; Soranzo, Nicole; Polasek, Ozren; van der Harst, Pim; Pramstaller, Peter Paul; Vollenweider, Peter; Wild, Philipp S; Gansevoort, Ron T; Rettig, Rainer; Biffar, Reiner; Carroll, Robert J; Katz, Ronit; Loos, Ruth J F; Hwang, Shih-Jen; Coassin, Stefan; Bergmann, Sven; Rosas, Sylvia E; Stracke, Sylvia; Harris, Tamara B; Corre, Tanguy; Zeller, Tanja; Illig, Thomas; Aspelund, Thor; Tanaka, Toshiko; Lendeckel, Uwe; Völker, Uwe; Gudnason, Vilmundur; Chouraki, Vincent; Koenig, Wolfgang; Kutalik, Zoltan; O'Connell, Jeffrey R; Parsa, Afshin; Heid, Iris M; Paterson, Andrew D; de Boer, Ian H; Devuyst, Olivier; Lazar, Jozef; Endlich, Karlhans; Susztak, Katalin; Tremblay, Johanne; Hamet, Pavel; Jacob, Howard J; Böger, Carsten A; Fox, Caroline S; Pattaro, Cristian; Köttgen, Anna Diabetes. 26631737 2016 Mar;
In Utero Cigarette Smoke Affects Allergic Airway Disease But Does Not Alter the Lung Methylome. Eyring, Kenneth R; Pedersen, Brent S; Yang, Ivana V; Schwartz, David A PloS one. 26642056 2015;
Down-Regulated Phosphoglycerate Kinase 1 Expression Is Associated With Poor Prognosis in Patients With Gallbladder Cancer. Lu, Wei; Gao, Jian; Yang, Jingyun; Cao, Yang; Jiang, Lin; Li, Maolan; Zhang, Yijian; Zhou, Jian; Liu, Yingbin Medicine. 26656369 2015 Dec;
Beyond editing: repurposing CRISPR-Cas9 for precision genome regulation and interrogation. Dominguez, Antonia A; Lim, Wendell A; Qi, Lei S Nature reviews. Molecular cell biology 26670017 2016 Jan
Development of a Fluorinated Class-I HDAC Radiotracer Reveals Key Chemical Determinants of Brain Penetrance. Strebl, Martin G; Wang, Changning; Schroeder, Frederick A; Placzek, Michael S; Wey, Hsiao-Ying; Van de Bittner, Genevieve C; Neelamegam, Ramesh; Hooker, Jacob M ACS chemical neuroscience. 26675505 2016 05 18;
Epigenetic age of the pre-frontal cortex is associated with neuritic plaques, amyloid load, and Alzheimer's disease related cognitive functioning. Levine, Morgan E; Lu, Ake T; Bennett, David A; Horvath, Steve Aging 26684672 2015 Dec
PET Neurochemical Imaging Modes. Placzek, Michael S; Zhao, Wenjun; Wey, Hsiao-Ying; Morin, Thomas M; Hooker, Jacob M Seminars in nuclear medicine. 26687854 2016 Jan;
Genome editing: the end of the beginning. Doudna, Jennifer A; Gersbach, Charles A Genome biology. 26700220 2015;
Epithelial Plasticity versus EMT in Kidney Fibrosis. Huang, Shizheng; Susztak, Katalin Trends in molecular medicine. 26700490 2016 Jan;
Genetic and Epigenetic Variation, but Not Diet, Shape the Sperm Methylome. Shea, Jeremy M; Serra, Ryan W; Carone, Benjamin R; Shulha, Hennady P; Kucukural, Alper; Ziller, Michael J; Vallaster, Markus P; Gu, Hongcang; Tapper, Andrew R; Gardner, Paul D; Meissner, Alexander; Garber, Manuel; Rando, Oliver J Developmental cell. 26702833 2015 Dec 21;
Mathematical modelling of transcriptional heterogeneity identifies novel markers and subpopulations in complex tissues. Wang, Niya; Hoffman, Eric P; Chen, Lulu; Chen, Li; Zhang, Zhen; Liu, Chunyu; Yu, Guoqiang; Herrington, David M; Clarke, Robert; Wang, Yue Scientific reports 26739359 2016 Jan 07
Expanding the CRISPR imaging toolset with Staphylococcus aureus Cas9 for simultaneous imaging of multiple genomic loci. Chen, Baohui; Hu, Jeffrey; Almeida, Ricardo; Liu, Harrison; Balakrishnan, Sanjeev; Covill-Cooke, Christian; Lim, Wendell A; Huang, Bo Nucleic acids research. 26740581 2016 Jan 5;
Interactions between Adipocytes and Breast Cancer Cells Stimulate Cytokine Production and Drive Src/Sox2/miR-302b-Mediated Malignant Progression. Picon-Ruiz, Manuel; Pan, Chendong; Drews-Elger, Katherine; Jang, Kibeom; Besser, Alexandra H; Zhao, Dekuang; Morata-Tarifa, Cynthia; Kim, Minsoon; Ince, Tan A; Azzam, Diana J; Wander, Seth A; Wang, Bin; Ergonul, Burcu; Datar, Ram H; Cote, Richard J; Howard, Guy A; El-Ashry, Dorraya; Torné-Poyatos, Pablo; Marchal, Juan A; Slingerland, Joyce M Cancer research 26744520 2016 Jan 15
Sox9-Positive Progenitor Cells Play a Key Role in Renal Tubule Epithelial Regeneration in Mice. Kang, Hyun Mi; Huang, Shizheng; Reidy, Kimberly; Han, Seung Hyeok; Chinga, Frank; Susztak, Katalin Cell reports. 26776520 2016 Feb 2;
Tissue-specific patterns of allelically-skewed DNA methylation. Marzi, Sarah J; Meaburn, Emma L; Dempster, Emma L; Lunnon, Katie; Paya-Cano, Jose L; Smith, Rebecca G; Volta, Manuela; Troakes, Claire; Schalkwyk, Leonard C; Mill, Jonathan Epigenetics. 26786711 2016;
Interaction of methylation-related genetic variants with circulating fatty acids on plasma lipids: a meta-analysis of 7 studies and methylation analysis of 3 studies in the Cohorts for Heart and Aging Research in Genomic Epidemiology consortium. Ma, Yiyi; Follis, Jack L; Smith, Caren E; Tanaka, Toshiko; Manichaikul, Ani W; Chu, Audrey Y; Samieri, Cecilia; Zhou, Xia; Guan, Weihua; Wang, Lu; Biggs, Mary L; Chen, Yii-Der I; Hernandez, Dena G; Borecki, Ingrid; Chasman, Daniel I; Rich, Stephen S; Ferrucci, Luigi; Irvin, Marguerite Ryan; Aslibekyan, Stella; Zhi, Degui; Tiwari, Hemant K; Claas, Steven A; Sha, Jin; Kabagambe, Edmond K; Lai, Chao-Qiang; Parnell, Laurence D; Lee, Yu-Chi; Amouyel, Philippe; Lambert, Jean-Charles; Psaty, Bruce M; King, Irena B; Mozaffarian, Dariush; McKnight, Barbara; Bandinelli, Stefania; Tsai, Michael Y; Ridker, Paul M; Ding, Jingzhong; Mstat, Kurt Lohmant; Liu, Yongmei; Sotoodehnia, Nona; Barberger-Gateau, Pascale; Steffen, Lyn M; Siscovick, David S; Absher, Devin; Arnett, Donna K; Ordovás, José M; Lemaitre, Rozenn N The American journal of clinical nutrition. 26791180 2016 Feb;
Dissecting structure-activity-relationships of crebinostat: Brain penetrant HDAC inhibitors for neuroepigenetic regulation. Ghosh, Balaram; Zhao, Wen-Ning; Reis, Surya A; Patnaik, Debasis; Fass, Daniel M; Tsai, Li-Huei; Mazitschek, Ralph; Haggarty, Stephen J Bioorganic & medicinal chemistry letters. 26804233 2016 Feb 15;
A full Bayesian partition model for identifying hypo- and hyper-methylated loci from single nucleotide resolution sequencing data. Wang, Henan; He, Chong; Kushwaha, Garima; Xu, Dong; Qiu, Jing BMC bioinformatics. 26818685 2016;
APOL1 Variants: From Parasites to Kidney Function to Cardiovascular Disease. Reiner, Alex P; Susztak, Katalin Arteriosclerosis, thrombosis, and vascular biology 26819463 2016 Feb
Editing the epigenome: technologies for programmable transcription and epigenetic modulation. Thakore, Pratiksha I; Black, Joshua B; Hilton, Isaac B; Gersbach, Charles A Nature methods. 26820547 2016 Feb;
Genetic associations at 53 loci highlight cell types and biological pathways relevant for kidney function. Pattaro, Cristian (see original citation for additional authors) Nature communications. 26831199 2016 Jan 21;
H3K4 tri-methylation breadth at transcription start sites impacts the transcriptome of systemic lupus erythematosus. Zhang, Zhe; Shi, Lihua; Dawany, Noor; Kelsen, Judith; Petri, Michelle A; Sullivan, Kathleen E Clinical epigenetics. 26839600 2016;
ATR-101 disrupts mitochondrial functions in adrenocortical carcinoma cells and in vivo. Cheng, Yunhui; Kerppola, Raili Emilia; Kerppola, Tom Klaus Endocrine-related cancer. 26843528 2016 Apr;
Antigen clasping by two antigen-binding sites of an exceptionally specific antibody for histone methylation. Hattori, Takamitsu; Lai, Darson; Dementieva, Irina S; Montaño, Sherwin P; Kurosawa, Kohei; Zheng, Yupeng; Akin, Louesa R; ?wist-Rosowska, Kalina M; Grzybowski, Adrian T; Koide, Akiko; Krajewski, Krzysztof; Strahl, Brian D; Kelleher, Neil L; Ruthenburg, Alexander J; Koide, Shohei Proceedings of the National Academy of Sciences of the United States of America. 26862167 2016 Feb 23;
Long non-coding antisense RNA KRT7-AS is activated in gastric cancers and supports cancer cell progression by increasing KRT7 expression. Huang, B; Song, J H; Cheng, Y; Abraham, J M; Ibrahim, S; Sun, Z; Ke, X; Meltzer, S J Oncogene. 26876208 2016 Feb 15;
Epigenetic regulation of mitochondrial function in neurodegenerative disease: New insights from advances in genomic technologies. Devall, Matthew; Roubroeks, Janou; Mill, Jonathan; Weedon, Michael; Lunnon, Katie Neuroscience letters. 26876477 2016 Jun 20;
Variation in 5-hydroxymethylcytosine across human cortex and cerebellum. Lunnon, Katie; Hannon, Eilis; Smith, Rebecca G; Dempster, Emma; Wong, Chloe; Burrage, Joe; Troakes, Claire; Al-Sarraj, Safa; Kepa, Agnieszka; Schalkwyk, Leonard; Mill, Jonathan Genome biology. 26883014 2016 Feb 16;
Mapping of Variable DNA Methylation Across Multiple Cell Types Defines a Dynamic Regulatory Landscape of the Human Genome. Gu, Junchen; Stevens, Michael; Xing, Xiaoyun; Li, Daofeng; Zhang, Bo; Payton, Jacqueline E; Oltz, Eugene M; Jarvis, James N; Jiang, Kaiyu; Cicero, Theodore; Costello, Joseph F; Wang, Ting G3 (Bethesda) 26888867 2016
YAP Induces Human Naive Pluripotency. Qin, Han; Hejna, Miroslav; Liu, Yanxia; Percharde, Michelle; Wossidlo, Mark; Blouin, Laure; Durruthy-Durruthy, Jens; Wong, Priscilla; Qi, Zhongxia; Yu, Jingwei; Qi, Lei S; Sebastiano, Vittorio; Song, Jun S; Ramalho-Santos, Miguel Cell reports. 26947063 2016 Mar 15;
Molecular circuitry of stem cell fate in skeletal muscle regeneration, ageing and disease. Almada, Albert E; Wagers, Amy J Nature reviews. Molecular cell biology. 26956195 2016 May;
Constructing 3D interaction maps from 1D epigenomes. Zhu, Yun; Chen, Zhao; Zhang, Kai; Wang, Mengchi; Medovoy, David; Whitaker, John W; Ding, Bo; Li, Nan; Zheng, Lina; Wang, Wei Nature communications. 26960733 2016;
CRISPR Interference Efficiently Induces Specific and Reversible Gene Silencing in Human iPSCs. Mandegar, Mohammad A; Huebsch, Nathaniel; Frolov, Ekaterina B; Shin, Edward; Truong, Annie; Olvera, Michael P; Chan, Amanda H; Miyaoka, Yuichiro; Holmes, Kristin; Spencer, C Ian; Judge, Luke M; Gordon, David E; Eskildsen, Tilde V; Villalta, Jacqueline E; Horlbeck, Max A; Gilbert, Luke A; Krogan, Nevan J; Sheikh, Søren P; Weissman, Jonathan S; Qi, Lei S; So, Po-Lin; Conklin, Bruce R Cell stem cell. 26971820 2016 Apr 7;
Occupational cognitive requirements and late-life cognitive aging. Pool, Lindsay R; Weuve, Jennifer; Wilson, Robert S; Bültmann, Ute; Evans, Denis A; Mendes de Leon, Carlos F Neurology. 26984944 2016 04 12;
The Association Between Genetic Variants in the Dopaminergic System and Posttraumatic Stress Disorder: A Meta-Analysis. Li, Lizhuo; Bao, Yijun; He, Songbai; Wang, Gang; Guan, Yanlei; Ma, Dexuan; Wang, Pengfei; Huang, Xiaolong; Tao, Shanwei; Zhang, Dewei; Liu, Qiwen; Wang, Yunjie; Yang, Jingyun Medicine 26986136 2016 Mar
Nucleosomes impede Cas9 access to DNA in vivo and in vitro. Horlbeck, Max A; Witkowsky, Lea B; Guglielmi, Benjamin; Replogle, Joseph M; Gilbert, Luke A; Villalta, Jacqueline E; Torigoe, Sharon E; Tjian, Robert; Weissman, Jonathan S eLife 26987018 2016 Mar 17
Versatile protein tagging in cells with split fluorescent protein. Kamiyama, Daichi; Sekine, Sayaka; Barsi-Rhyne, Benjamin; Hu, Jeffrey; Chen, Baohui; Gilbert, Luke A; Ishikawa, Hiroaki; Leonetti, Manuel D; Marshall, Wallace F; Weissman, Jonathan S; Huang, Bo Nature communications. 26988139 2016;
Methylation profiles in peripheral blood CD4+ lymphocytes versus brain: The relation to Alzheimer's disease pathology. Yu, Lei; Chibnik, Lori B; Yang, Jingyun; McCabe, Cristin; Xu, Jishu; Schneider, Julie A; De Jager, Philip L; Bennett, David A Alzheimer's & dementia : the journal of the Alzheimer's Association. 27016692 2016 Mar 24;
Mitotic bookmarking: maintaining post-mitotic reprogramming of transcription reactivation. Lodhi, Niraj; Ji, Yingbiao; Tulin, Alexei Current molecular biology reports. 27042400 2016 Mar;
Podocytes: the Weakest Link in Diabetic Kidney Disease? Lin, Jamie S; Susztak, Katalin Current diabetes reports. 27053072 2016 May;
Evolution of Epigenetic Regulation in Vertebrate Genomes. Lowdon, Rebecca F; Jang, Hyo Sik; Wang, Ting Trends Genet 27080453 2016 May
Allele-Skewed DNA Modification in the Brain: Relevance to a Schizophrenia GWAS. Gagliano, Sarah A; Ptak, Carolyn; Mak, Denise Y F; Shamsi, Mehrdad; Oh, Gabriel; Knight, Joanne; Boutros, Paul C; Petronis, Arturas American journal of human genetics. 27087318 2016 May 05;
Light-induced nuclear export reveals rapid dynamics of epigenetic modifications. Yumerefendi, Hayretin; Lerner, Andrew Michael; Zimmerman, Seth Parker; Hahn, Klaus; Bear, James E; Strahl, Brian D; Kuhlman, Brian Nature chemical biology. 27089030 2016 Jun;
Metabolic Regulation of Gene Expression by Histone Lysine ?-Hydroxybutyrylation. Xie, Zhongyu; Zhang, Di; Chung, Dongjun; Tang, Zhanyun; Huang, He; Dai, Lunzhi; Qi, Shankang; Li, Jingya; Colak, Gozde; Chen, Yue; Xia, Chunmei; Peng, Chao; Ruan, Haibin; Kirkey, Matt; Wang, Danli; Jensen, Lindy M; Kwon, Oh Kwang; Lee, Sangkyu; Pletcher, Scott D; Tan, Minjia; Lombard, David B; White, Kevin P; Zhao, Hongyu; Li, Jia; Roeder, Robert G; Yang, Xiaoyong; Zhao, Yingming Molecular cell. 27105115 2016 04 21;
Vitamin D and androgen receptor-targeted therapy for triple-negative breast cancer. Thakkar, A; Wang, B; Picon-Ruiz, M; Buchwald, P; Ince, Tan A Breast cancer research and treatment. 27120467 2016 May;
Epigenetic assimilation in the aging human brain. Oh, Gabriel; Ebrahimi, Sasha; Wang, Sun-Chong; Cortese, Rene; Kaminsky, Zachary A; Gottesman, Irving I; Burke, James R; Plassman, Brenda L; Petronis, Art Genome biology. 27122015 2016 Apr 28;
Nucleosome breathing and remodeling constrain CRISPR-Cas9 function. Isaac, R Stefan; Jiang, Fuguo; Doudna, Jennifer A; Lim, Wendell A; Narlikar, Geeta J; Almeida, Ricardo eLife. 27130520 2016 Apr 28;
Methylation of histone H4 lysine 20 by PR-Set7 ensures the integrity of late replicating sequence domains in Drosophila. Li, Yulong; Armstrong, Robin L; Duronio, Robert J; MacAlpine, David M Nucleic acids research. 27131378 2016 Sep 06;
Taking Stock of Regulatory Variation. Maurano, Matthew T; Stamatoyannopoulos, John A Cell systems. 27135686 2015 Jul 29;
Developmental signalling pathways in renal fibrosis: the roles of Notch, Wnt and Hedgehog. Edeling, Maria; Ragi, Grace; Huang, Shizheng; Pavenstädt, Hermann; Susztak, Katalin Nature reviews. Nephrology. 27140856 2016 07;
Mechanisms and Disease Associations of Haplotype-Dependent Allele-Specific DNA Methylation. Do, Catherine; Lang, Charles F; Lin, John; Darbary, Huferesh; Krupska, Izabela; Gaba, Aulona; Petukhova, Lynn; Vonsattel, Jean-Paul; Gallagher, Mary P; Goland, Robin S; Clynes, Raphael A; Dwork, Andrew; Kral, John G; Monk, Catherine; Christiano, Angela M; Tycko, Benjamin American journal of human genetics. 27153397 2016 May 05;
Novel method to ascertain chromatin accessibility at specific genomic loci from frozen brain homogenates and laser capture microdissected defined cells. Delvaux, Elaine; Mastroeni, Diego; Nolz, Jennifer; Coleman, Paul D Neuroepigenetics. 27158594 2016 Jun;
Alterations to chromatin in intestinal macrophages link IL-10 deficiency to inappropriate inflammatory responses. Simon, Jeremy M; Davis, James P; Lee, Saangyoung E; Schaner, Matthew R; Gipson, Gregory R; Weiser, Matthew; Sartor, R Balfour; Herfarth, Hans H; Rahbar, Reza; Sadiq, Timothy S; Koruda, Mark J; McGovern, Dermot P; Lieb, Jason D; Mohlke, Karen L; Furey, Terrence S; Sheikh, Shehzad Z European journal of immunology. 27159132 2016 08;
Lactase nonpersistence is directed by DNA-variation-dependent epigenetic aging. Labrie, Viviane; Buske, Orion J; Oh, Edward; Jeremian, Richie; Ptak, Carolyn; Gasi?nas, Giedrius; Maleckas, Almantas; Petereit, R?ta; ?virbliene, Aida; Adamonis, K?stutis; Kriukien?, Edita; Koncevi?ius, Karolis; Gordevi?ius, Juozas; Nair, Akhil; Zhang, Aiping; Ebrahimi, Sasha; Oh, Gabriel; ?ik?nys, Virginijus; Kup?inskas, Limas; Brudno, Michael; Petronis, Arturas Nature structural & molecular biology. 27159559 2016 06;
Lamellipodia are crucial for haptotactic sensing and response. King, Samantha J; Asokan, Sreeja B; Haynes, Elizabeth M; Zimmerman, Seth P; Rotty, Jeremy D; Alb Jr, James G; Tagliatela, Alicia; Blake, Devon R; Lebedeva, Irina P; Marston, Daniel; Johnson, Heath E; Parsons, Maddy; Sharpless, Norman E; Kuhlman, Brian; Haugh, Jason M; Bear, James E Journal of cell science. 27173494 2016 Jun 15;
The Association Between Genetic Polymorphism rs703842 in CYP27B1 and Multiple Sclerosis: A Meta-Analysis. Jiang, Tao; Li, Lizhuo; Wang, Ying; Zhao, Chuntao; Yang, Jundong; Ma, Dexuan; Guan, Yanlei; Zhao, Dan; Bao, Yijun; Wang, Yunjie; Yang, Jingyun Medicine. 27175669 2016 May;
Activation of the pluripotency factor OCT4 in smooth muscle cells is atheroprotective. Cherepanova, Olga A; Gomez, Delphine; Shankman, Laura S; Swiatlowska, Pamela; Williams, Jason; Sarmento, Olga F; Alencar, Gabriel F; Hess, Daniel L; Bevard, Melissa H; Greene, Elizabeth S; Murgai, Meera; Turner, Stephen D; Geng, Yong-Jian; Bekiranov, Stefan; Connelly, Jessica J; Tomilin, Alexey; Owens, Gary K Nature medicine. 27183216 2016 06;
Diabetic kidney disease. Thomas, Merlin C; Brownlee, Michael; Susztak, Katalin; Sharma, Kumar; Jandeleit-Dahm, Karin A M; Zoungas, Sophia; Rossing, Peter; Groop, Per-Henrik; Cooper, Mark E Nature reviews. Disease primers. 27188921 2015 07 30;
All Things in Moderation: Prevention of Intestinal Adenomas by DNA Hypomethylation. Lee, Kwang-Ho; Laird, Peter W Cancer prevention research (Philadelphia, Pa.). 27190044 2016 Jul;
Coregulation of tandem duplicate genes slows evolution of subfunctionalization in mammals. Lan, Xun; Pritchard, Jonathan K Science (New York, N.Y.). 27199432 2016 May 20;
CRISPR/Cas9 for Human Genome Engineering and Disease Research. Xiong, Xin; Chen, Meng; Lim, Wendell A; Zhao, Dehua; Qi, Lei S Annual review of genomics and human genetics. 27216776 2016 Aug 31;
The next generation of therapeutics for chronic kidney disease. Breyer, Matthew D; Susztak, Katalin Nature reviews. Drug discovery. 27230798 2016 08;
A Comprehensive, CRISPR-based Functional Analysis of Essential Genes in Bacteria. Peters, Jason M; Colavin, Alexandre; Shi, Handuo; Czarny, Tomasz L; Larson, Matthew H; Wong, Spencer; Hawkins, John S; Lu, Candy H S; Koo, Byoung-Mo; Marta, Elizabeth; Shiver, Anthony L; Whitehead, Evan H; Weissman, Jonathan S; Brown, Eric D; Qi, Lei S; Huang, Kerwyn Casey; Gross, Carol A Cell. 27238023 2016 Jun 2;
Pediatric Obesity-Related Asthma: The Role of Metabolic Dysregulation. Vijayakanthi, Nandini; Greally, John M; Rastogi, Deepa Pediatrics. 27244776 2016 May;
Paf15 expression correlates with rectal cancer prognosis, cell proliferation and radiation response. Yan, Rong; Zhu, Kun; Dang, Chengxue; Lan, Ke; Wang, Haonan; Yuan, Dawei; Chen, Wei; Meltzer, Stephen J; Li, Kang Oncotarget. 27246972 2016 Jun 21;
Chromatin Domains: The Unit of Chromosome Organization. Dixon, Jesse R; Gorkin, David U; Ren, Bing Molecular cell. 27259200 2016 Jun 2;
Genetic variants in Alzheimer disease - molecular and brain network approaches. Gaiteri, Chris; Mostafavi, Sara; Honey, Christopher J; De Jager, Philip L; Bennett, David A Nature reviews. Neurology. 27282653 2016 Jul;
Breast cancers from black women exhibit higher numbers of immunosuppressive macrophages with proliferative activity and of crown-like structures associated with lower survival compared to non-black Latinas and Caucasians. Koru-Sengul, Tulay; Santander, Ana M; Miao, Feng; Sanchez, Lidia G; Jorda, Merce; Glück, Stefan; Ince, Tan A; Nadji, Mehrad; Chen, Zhibin; Penichet, Manuel L; Cleary, Margot P; Torroella-Kouri, Marta Breast cancer research and treatment. 27283835 2016 Jul;
Using genomic annotations increases statistical power to detect eGenes. Duong, Dat; Zou, Jennifer; Hormozdiari, Farhad; Sul, Jae Hoon; Ernst, Jason; Han, Buhm; Eskin, Eleazar Bioinformatics (Oxford, England). 27307612 2016 Jun 15;
Whole Genome Sequencing Identifies a Novel Factor Required for Secretory Granule Maturation in Tetrahymena thermophila. Kontur, Cassandra; Kumar, Santosh; Lan, Xun; Pritchard, Jonathan K; Turkewitz, Aaron P G3 (Bethesda, Md.). 27317773 2016 Aug 09;
An evaluation of processing methods for HumanMethylation450 BeadChip data. Liu, Jie; Siegmund, Kimberly D BMC genomics. 27334613 2016 06 22;
Reference-free deconvolution of DNA methylation data and mediation by cell composition effects. Houseman, E Andres; Kile, Molly L; Christiani, David C; Ince, Tan A; Kelsey, Karl T; Marsit, Carmen J BMC bioinformatics. 27358049 2016;
Ligand-binding domains of nuclear receptors facilitate tight control of split CRISPR activity. Nguyen, Duy P; Miyaoka, Yuichiro; Gilbert, Luke A; Mayerl, Steven J; Lee, Brian H; Weissman, Jonathan S; Conklin, Bruce R; Wells, James A Nature communications. 27363581 2016 Jul 01;
Go in! Go out! Inducible control of nuclear localization. Di Ventura, Barbara; Kuhlman, Brian Current opinion in chemical biology. 27372352 2016 Jun 30;
Long-term clinical outcomes of laparoscopy-assisted distal gastrectomy versus open distal gastrectomy for early gastric cancer: A comprehensive systematic review and meta-analysis of randomized control trials. Lu, Wei; Gao, Jian; Yang, Jingyun; Zhang, Yijian; Lv, Wenjie; Mu, Jiasheng; Dong, Ping; Liu, Yingbin Medicine. 27399073 2016 Jul;
Uncovering the Role of the Methylome in Dementia and Neurodegeneration. Klein, Hans-Ulrich; De Jager, Philip L Trends in molecular medicine. 27423266 2016 08;
LOVTRAP: an optogenetic system for photoinduced protein dissociation. Wang, Hui; Vilela, Marco; Winkler, Andreas; Tarnawski, Miroslaw; Schlichting, Ilme; Yumerefendi, Hayretin; Kuhlman, Brian; Liu, Rihe; Danuser, Gaudenz; Hahn, Klaus M Nature methods. 27427858 2016 Sep;
Highly Multiplexed RNA Aptamer Selection using a Microplate-based Microcolumn Device. Reinholt, Sarah J; Ozer, Abdullah; Lis, John T; Craighead, Harold G Scientific reports. 27432610 2016 Jul 19;
Hypomethylation coordinates antagonistically with hypermethylation in cancer development: a case study of leukemia. Kushwaha, Garima; Dozmorov, Mikhail; Wren, Jonathan D; Qiu, Jing; Shi, Huidong; Xu, Dong Human genomics. 27461342 2016 Jul 25;
Incident parkinsonism in older adults without Parkinson disease. Buchman, Aron S; Leurgans, Sue E; Yu, Lei; Wilson, Robert S; Lim, Andrew S; James, Bryan D; Shulman, Joshua M; Bennett, David A Neurology 27488597 2016 Sep 06
Mechanisms of Nucleosome Dynamics In Vivo. Henikoff, Steven Cold Spring Harbor perspectives in medicine. 27503998 2016 Sep 01;
Insights into neuroepigenetics through human histone deacetylase PET imaging. Wey, Hsiao-Ying; Gilbert, Tonya M; Zürcher, Nicole R; She, Angela; Bhanot, Anisha; Taillon, Brendan D; Schroeder, Fredrick A; Wang, Changing; Haggarty, Stephen J; Hooker, Jacob M Science translational medicine. 27510902 2016 08 10;
An epigenetic clock analysis of race/ethnicity, sex, and coronary heart disease. Horvath, Steve; Gurven, Michael; Levine, Morgan E; Trumble, Benjamin C; Kaplan, Hillard; Allayee, Hooman; Ritz, Beate R; Chen, Brian; Lu, Ake T; Rickabaugh, Tammy M; Jamieson, Beth D; Sun, Dianjianyi; Li, Shengxu; Chen, Wei; Quintana-Murci, Lluis; Fagny, Maud; Kobor, Michael S; Tsao, Philip S; Reiner, Alexander P; Edlefsen, Kerstin L; Absher, Devin; Assimes, Themistocles L Genome biology. 27511193 2016 Aug 11;
Inhibition of DNA Methyltransferases Blocks Mutant Huntingtin-Induced Neurotoxicity. Pan, Yanchun; Daito, Takuji; Sasaki, Yo; Chung, Yong Hee; Xing, Xiaoyun; Pondugula, Santhi; Swamidass, S Joshua; Wang, Ting; Kim, Albert H; Yano, Hiroko Scientific reports. 27516062 2016 Aug 12;
Increased DNA methylation near TREM2 is consistently seen in the superior temporal gyrus in Alzheimer's disease brain. Smith, Adam R; Smith, Rebecca G; Condliffe, Daniel; Hannon, Eilis; Schalkwyk, Leonard; Mill, Jonathan; Lunnon, Katie Neurobiology of aging. 27522519 2016 Nov;
Targeted Epigenetic Remodeling of Endogenous Loci by CRISPR/Cas9-Based Transcriptional Activators Directly Converts Fibroblasts to Neuronal Cells. Black, Joshua B; Adler, Andrew F; Wang, Hong-Gang; D'Ippolito, Anthony M; Hutchinson, Hunter A; Reddy, Timothy E; Pitt, Geoffrey S; Leong, Kam W; Gersbach, Charles A Cell stem cell. 27524438 2016 Sep 1;
Charon Mediates Immune Deficiency-Driven PARP-1-Dependent Immune Responses in Drosophila. Ji, Yingbiao; Thomas, Colin; Tulin, Nikita; Lodhi, Niraj; Boamah, Ernest; Kolenko, Vladimir; Tulin, Alexei V Journal of immunology (Baltimore, Md. : 1950). 27527593 2016 Sep 15;
Waking up dormant tumor suppressor genes with zinc fingers, TALEs and the CRISPR/dCas9 system. Garcia-Bloj, Benjamin; Moses, Colette; Sgro, Agustin; Plani-Lam, Janice; Arooj, Mahira; Duffy, Ciara; Thiruvengadam, Shreyas; Sorolla, Anabel; Rashwan, Rabab; Mancera, Ricardo L; Leisewitz, Andrea; Swift-Scanlan, Theresa; Corvalan, Alejandro H; Blancafort, Pilar Oncotarget. 27528034 2016 Sep 13;
Tuning the Binding Affinities and Reversion Kinetics of a Light Inducible Dimer Allows Control of Transmembrane Protein Localization. Zimmerman, Seth P; Hallett, Ryan A; Bourke, Ashley M; Bear, James E; Kennedy, Matthew J; Kuhlman, Brian Biochemistry. 27529180 2016 Sep 20;
BatchQC: interactive software for evaluating sample and batch effects in genomic data. Manimaran, Solaiappan; Selby, Heather Marie; Okrah, Kwame; Ruberman, Claire; Leek, Jeffrey T; Quackenbush, John; Haibe-Kains, Benjamin; Bravo, Hector Corrada; Johnson, W Evan Bioinformatics (Oxford, England). 27540268 2016 Dec 15;
Female mice lacking Xist RNA show partial dosage compensation and survive to term. Yang, Lin; Kirby, James E; Sunwoo, Hongjae; Lee, Jeannie T Genes & development. 27542829 2016 Aug 01;
Direct interrogation of the role of H3K9 in metazoan heterochromatin function. Penke, Taylor J R; McKay, Daniel J; Strahl, Brian D; Matera, A Gregory; Duronio, Robert J Genes & development. 27566777 2016 Aug 15;
An integrated genetic-epigenetic analysis of schizophrenia: evidence for co-localization of genetic associations and differential DNA methylation. Hannon, Eilis; Dempster, Emma; Viana, Joana; Burrage, Joe; Smith, Adam R; Macdonald, Ruby; St Clair, David; Mustard, Colette; Breen, Gerome; Therman, Sebastian; Kaprio, Jaakko; Toulopoulou, Timothea; Hulshoff Pol, Hilleke E; Bohlken, Marc M; Kahn, Rene S; Nenadic, Igor; Hultman, Christina M; Murray, Robin M; Collier, David A; Bass, Nick; Gurling, Hugh; McQuillin, Andrew; Schalkwyk, Leonard; Mill, Jonathan Genome biology. 27572077 2016 Aug 30;
Genome-wide mapping and analysis of chromosome architecture. Schmitt, Anthony D; Hu, Ming; Ren, Bing Nature reviews. Molecular cell biology. 27580841 2016 12;
Engineering and Application of LOV2-Based Photoswitches. Zimmerman, S P; Kuhlman, B; Yumerefendi, H Methods in enzymology. 27586333 2016;
Secondhand Tobacco Smoke Exposure Associations With DNA Methylation of the Aryl Hydrocarbon Receptor Repressor. Reynolds, Lindsay M; Magid, Hoda S; Chi, Gloria C; Lohman, Kurt; Barr, R Graham; Kaufman, Joel D; Hoeschele, Ina; Blaha, Michael J; Navas-Acien, Ana; Liu, Yongmei Nicotine & tobacco research : official journal of the Society for Research on Nicotine and Tobacco. 27613907 2017 Apr 01;
Epigenetic Signatures of Cigarette Smoking. Joehanes, Roby; Just, Allan C; Marioni, Riccardo E; Pilling, Luke C; Reynolds, Lindsay M; Mandaviya, Pooja R; Guan, Weihua; Xu, Tao; Elks, Cathy E; Aslibekyan, Stella; Moreno-Macias, Hortensia; Smith, Jennifer A; Brody, Jennifer A; Dhingra, Radhika; Yousefi, Paul; Pankow, James S; Kunze, Sonja; Shah, Sonia H; McRae, Allan F; Lohman, Kurt; Sha, Jin; Absher, Devin M; Ferrucci, Luigi; Zhao, Wei; Demerath, Ellen W; Bressler, Jan; Grove, Megan L; Huan, Tianxiao; Liu, Chunyu; Mendelson, Michael M; Yao, Chen; Kiel, Douglas P; Peters, Annette; Wang-Sattler, Rui; Visscher, Peter M; Wray, Naomi R; Starr, John M; Ding, Jingzhong; Rodriguez, Carlos J; Wareham, Nicholas J; Irvin, Marguerite R; Zhi, Degui; Barrdahl, Myrto; Vineis, Paolo; Ambatipudi, Srikant; Uitterlinden, André G; Hofman, Albert; Schwartz, Joel; Colicino, Elena; Hou, Lifang; Vokonas, Pantel S; Hernandez, Dena G; Singleton, Andrew B; Bandinelli, Stefania; Turner, Stephen T; Ware, Erin B; Smith, Alicia K; Klengel, Torsten; Binder, Elisabeth B; Psaty, Bruce M; Taylor, Kent D; Gharib, Sina A; Swenson, Brenton R; Liang, Liming; DeMeo, Dawn L; O'Connor, George T; Herceg, Zdenko; Ressler, Kerry J; Conneely, Karen N; Sotoodehnia, Nona; Kardia, Sharon L R; Melzer, David; Baccarelli, Andrea A; van Meurs, Joyce B J; Romieu, Isabelle; Arnett, Donna K; Ong, Ken K; Liu, Yongmei; Waldenberger, Melanie; Deary, Ian J; Fornage, Myriam; Levy, Daniel; London, Stephanie J Circulation. Cardiovascular genetics. 27651444 2016 Oct;
Cognitive decline following incident and preexisting diabetes mellitus in a population sample. Rajan, Kumar B; Arvanitakis, Zoe; Lynch, Elizabeth B; McAninch, Elizabeth A; Wilson, Robert S; Weuve, Jennifer; Barnes, Lisa L; Bianco, Antonio C; Evans, Denis A Neurology 27655734 2016 Oct 18
Compact and highly active next-generation libraries for CRISPR-mediated gene repression and activation. Horlbeck, Max A; Gilbert, Luke A; Villalta, Jacqueline E; Adamson, Britt; Pak, Ryan A; Chen, Yuwen; Fields, Alexander P; Park, Chong Yon; Corn, Jacob E; Kampmann, Martin; Weissman, Jonathan S eLife. 27661255 2016 Sep 23;
Rescue of Early bace-1 and Global DNA Demethylation by S-Adenosylmethionine Reduces Amyloid Pathology and Improves Cognition in an Alzheimer's Model. Do Carmo, Sonia; Hanzel, Cecilia E; Jacobs, Marie L; Machnes, Ziv; Iulita, M Florencia; Yang, Jingyun; Yu, Lei; Ducatenzeiler, Adriana; Danik, Marc; Breuillaud, Lionel S; Bennett, David A; Szyf, Moshe; Cuello, A Claudio Scientific reports. 27681803 2016 Sep 29;
Association of genetic variants in the receptor for advanced glycation end products gene with diabetic retinopathy: A meta-analysis. Yu, Weihong; Yang, Jingyun; Sui, Wenda; Qu, Bin; Huang, Ping; Chen, Youxin Medicine. 27684793 2016 Sep;
Identification of a cancer stem cell-specific function for the histone deacetylases, HDAC1 and HDAC7, in breast and ovarian cancer. Witt, A E; Lee, C-W; Lee, T I; Azzam, D J; Wang, B; Caslini, C; Petrocca, F; Grosso, J; Jones, M; Cohick, E B; Gropper, A B; Wahlestedt, C; Richardson, A L; Shiekhattar, R; Young, R A; Ince, T A Oncogene. 27694895 2017 Mar 23;
Genome-scale high-resolution mapping of activating and repressive nucleotides in regulatory regions. Ernst, Jason; Melnikov, Alexandre; Zhang, Xiaolan; Wang, Li; Rogov, Peter; Mikkelsen, Tarjei S; Kellis, Manolis Nature biotechnology. 27701403 2016 Nov;
SOX2, OCT3/4 and NANOG expression and cellular plasticity in rare human somatic cells requires CD73. Pan, Deng; Roy, Somdutta; Gascard, Philippe; Zhao, Jianxin; Chen-Tanyolac, Chira; Tlsty, Thea D Cellular signalling. 27705752 2016 Dec;
Detection of human adaptation during the past 2000 years. Field, Yair; Boyle, Evan A; Telis, Natalie; Gao, Ziyue; Gaulton, Kyle J; Golan, David; Yengo, Loic; Rocheleau, Ghislain; Froguel, Philippe; McCarthy, Mark I; Pritchard, Jonathan K Science (New York, N.Y.). 27738015 ;
Epigenomic and transcriptional control of insulin resistance. Rosen, E D Journal of internal medicine. 27739225 2016 Nov;
Molecular classification of Crohn's disease reveals two clinically relevant subtypes. Weiser, Matthew; Simon, Jeremy M; Kochar, Bharati; Tovar, Adelaide; Israel, Jennifer W; Robinson, Adam; Gipson, Gregory R; Schaner, Matthew S; Herfarth, Hans H; Sartor, R Balfour; McGovern, Dermot P B; Rahbar, Reza; Sadiq, Timothy S; Koruda, Mark J; Furey, Terrence S; Sheikh, Shehzad Z Gut. 27742763 2018 Jan;
The nasal methylome and childhood atopic asthma. Yang, Ivana V; Pedersen, Brent S; Liu, Andrew H; O'Connor, George T; Pillai, Dinesh; Kattan, Meyer; Misiak, Rana Tawil; Gruchalla, Rebecca; Szefler, Stanley J; Khurana Hershey, Gurjit K; Kercsmar, Carolyn; Richards, Adam; Stevens, Allen D; Kolakowski, Christena A; Makhija, Melanie; Sorkness, Christine A; Krouse, Rebecca Z; Visness, Cynthia; Davidson, Elizabeth J; Hennessy, Corinne E; Martin, Richard J; Togias, Alkis; Busse, William W; Schwartz, David A The Journal of allergy and clinical immunology. 27745942 2016 Oct 13;
The long noncoding RNA Tug1 connects metabolic changes with kidney disease in podocytes. Li, Szu Yuan; Susztak, Katalin The Journal of clinical investigation. 27760046 2016 Nov 01;
Chromosome conformation elucidates regulatory relationships in developing human brain. Won, Hyejung; de la Torre-Ubieta, Luis; Stein, Jason L; Parikshak, Neelroop N; Huang, Jerry; Opland, Carli K; Gandal, Michael J; Sutton, Gavin J; Hormozdiari, Farhad; Lu, Daning; Lee, Changhoon; Eskin, Eleazar; Voineagu, Irina; Ernst, Jason; Geschwind, Da Nature. 27760116 2016 Oct 19;
Complex transcriptional modulation with orthogonal and inducible dCas9 regulators. Gao, Yuchen; Xiong, Xin; Wong, Spencer; Charles, Emeric J; Lim, Wendell A; Qi, Lei S Nature methods. 27776111 2016 Dec;
Nuclear but not mitochondrial-encoded oxidative phosphorylation genes are altered in aging, mild cognitive impairment, and Alzheimer's disease. Mastroeni, Diego; Khdour, Omar M; Delvaux, Elaine; Nolz, Jennifer; Olsen, Gary; Berchtold, Nicole; Cotman, Carl; Hecht, Sidney M; Coleman, Paul D Alzheimer's & dementia : the journal of the Alzheimer's Association 27793643 2017 May
Loss-of-function genetic tools for animal models: cross-species and cross-platform differences. Housden, Benjamin E; Muhar, Matthias; Gemberling, Matthew; Gersbach, Charles A; Stainier, Didier Y R; Seydoux, Geraldine; Mohr, Stephanie E; Zuber, Johannes; Perrimon, Norbert Nature reviews. Genetics. 27795562 2017 01;
Differential transcriptome expression in human nucleus accumbens as a function of loneliness. Canli, T; Wen, R; Wang, X; Mikhailik, A; Yu, L; Fleischman, D; Wilson, R S; Bennett, D A Molecular psychiatry. 27801889 2017 07;
Genetic engineering: Chemical control for CRISPR editing. Hilton, Isaac B; Gersbach, Charles A Nature chemical biology. 27820804 2017 Jan;
A DNA methylation biomarker of alcohol consumption. Liu, C; Marioni, R E; Hedman, Å K; Pfeiffer, L; Tsai, P-C; Reynolds, L M; Just, A C; Duan, Q; Boer, C G; Tanaka, T; Elks, C E; Aslibekyan, S; Brody, J A; Kühnel, B; Herder, C; Almli, L M; Zhi, D; Wang, Y; Huan, T; Yao, C; Mendelson, M M; Joehanes, R; Liang, L; Love, S-A; Guan, W; Shah, S; McRae, A F; Kretschmer, A; Prokisch, H; Strauch, K; Peters, A; Visscher, P M; Wray, N R; Guo, X; Wiggins, K L; Smith, A K; Binder, E B; Ressler, K J; Irvin, M R; Absher, D M; Hernandez, D; Ferrucci, L; Bandinelli, S; Lohman, K; Ding, J; Trevisi, L; Gustafsson, S; Sandling, J H; Stolk, L; Uitterlinden, A G; Yet, I; Castillo-Fernandez, J E; Spector, T D; Schwartz, J D; Vokonas, P; Lind, L; Li, Y; Fornage, M; Arnett, D K; Wareham, N J; Sotoodehnia, N; Ong, K K; van Meurs, J B J; Conneely, K N; Baccarelli, A A; Deary, I J; Bell, J T; North, K E; Liu, Y; Waldenberger, M; London, S J; Ingelsson, E; Levy, D Molecular psychiatry. 27843151 2016 Nov 15;
A Compendium of Chromatin Contact Maps Reveals Spatially Active Regions in the Human Genome. Schmitt, Anthony D; Hu, Ming; Jung, Inkyung; Xu, Zheng; Qiu, Yunjiang; Tan, Catherine L; Li, Yun; Lin, Shin; Lin, Yiing; Barr, Cathy L; Ren, Bing Cell reports. 27851967 2016 Nov 15;
Epigenomic Deconvolution of Breast Tumors Reveals Metabolic Coupling between Constituent Cell Types. Onuchic, Vitor; Hartmaier, Ryan J; Boone, David N; Samuels, Michael L; Patel, Ronak Y; White, Wendy M; Garovic, Vesna D; Oesterreich, Steffi; Roth, Matt E; Lee, Adrian V; Milosavljevic, Aleksandar Cell reports. 27851969 2016 11 15;
Soft X-Ray Tomography Reveals Gradual Chromatin Compaction and Reorganization during Neurogenesis In Vivo. Le Gros, Mark A; Clowney, E Josephine; Magklara, Angeliki; Yen, Angela; Markenscoff-Papadimitriou, Eirene; Colquitt, Bradley; Myllys, Markko; Kellis, Manolis; Lomvardas, Stavros; Larabell, Carolyn A Cell reports. 27851973 2016 Nov 15;
New insights into the immunopathogenesis of systemic lupus erythematosus. Tsokos, George C; Lo, Mindy S; Costa Reis, Patricia; Sullivan, Kathleen E Nature reviews. Rheumatology 27872476 2016 11 22
Circadian alterations during early stages of Alzheimer's disease are associated with aberrant cycles of DNA methylation in BMAL1. Cronin, Peter; McCarthy, Michael J; Lim, Andrew S P; Salmon, David P; Galasko, Douglas; Masliah, Eliezer; De Jager, Philip L; Bennett, David A; Desplats, Paula Alzheimer's & dementia : the journal of the Alzheimer's Association. 27883893 2017 Jun;
Long-term outdoor air pollution and DNA methylation in circulating monocytes: results from the Multi-Ethnic Study of Atherosclerosis (MESA). Chi, Gloria C; Liu, Yongmei; MacDonald, James W; Barr, R Graham; Donohue, Kathleen M; Hensley, Mark D; Hou, Lifang; McCall, Charles E; Reynolds, Lindsay M; Siscovick, David S; Kaufman, Joel D Environmental health : a global access science source. 27903268 2016 12 01;
LOVTRAP: A Versatile Method to Control Protein Function with Light. Wang, Hui; Hahn, Klaus M Current protocols in cell biology. 27906450 ;
Notch Pathway Is Activated via Genetic and Epigenetic Alterations and Is a Therapeutic Target in Clear Cell Renal Cancer. Bhagat, Tushar D; Zou, Yiyu; Huang, Shizheng; Park, Jihwan; Palmer, Matthew B; Hu, Caroline; Li, Weijuan; Shenoy, Niraj; Giricz, Orsolya; Choudhary, Gaurav; Yu, Yiting; Ko, Yi-An; Izquierdo, María C; Park, Ae Seo Deok; Vallumsetla, Nishanth; Laurence, Remi; Lopez, Robert; Suzuki, Masako; Pullman, James; Kaner, Justin; Gartrell, Benjamin; Hakimi, A Ari; Greally, John M; Patel, Bharvin; Benhadji, Karim; Pradhan, Kith; Verma, Amit; Susztak, Katalin The Journal of biological chemistry. 27909050 2017 01 20;
Trans-acting epigenetic effects of chromosomal aneuploidies: lessons from Down syndrome and mouse models. Do, Catherine; Xing, Zhuo; Yu, Y Eugene; Tycko, Benjamin Epigenomics. 27911079 2017 Feb;
Absence of miR-146a in Podocytes Increases Risk of Diabetic Glomerulopathy via Up-regulation of ErbB4 and Notch-1. Lee, Ha Won; Khan, Samia Q; Khaliqdina, Shehryar; Altintas, Mehmet M; Grahammer, Florian; Zhao, Jimmy L; Koh, Kwi Hye; Tardi, Nicholas J; Faridi, Mohd Hafeez; Geraghty, Terese; Cimbaluk, David J; Susztak, Katalin; Moita, Luis F; Baltimore, David; Tharaux, Pierre-Louis; Huber, Tobias B; Kretzler, Matthias; Bitzer, Markus; Reiser, Jochen; Gupta, Vineet The Journal of biological chemistry 27913625 2017 Jan 13
Expression of HDAC2 but Not HDAC1 Transcript Is Reduced in Dorsolateral Prefrontal Cortex of Patients with Schizophrenia. Schroeder, Frederick A; Gilbert, Tonya M; Feng, Ningping; Taillon, Brendan D; Volkow, Nora D; Innis, Robert B; Hooker, Jacob M; Lipska, Barbara K ACS chemical neuroscience. 27959513 2017 03 15;
CRISPRi-based genome-scale identification of functional long noncoding RNA loci in human cells. Liu, S John; Horlbeck, Max A; Cho, Seung Woo; Birk, Harjus S; Malatesta, Martina; He, Daniel; Attenello, Frank J; Villalta, Jacqueline E; Cho, Min Y; Chen, Yuwen; Mandegar, Mohammad A; Olvera, Michael P; Gilbert, Luke A; Conklin, Bruce R; Chang, Howard Y; Weissman, Jonathan S; Lim, Daniel A Science (New York, N.Y.). 27980086 2017 Jan 06;
''Gap hunting'' to characterize clustered probe signals in Illumina methylation array data. Andrews, Shan V; Ladd-Acosta, Christine; Feinberg, Andrew P; Hansen, Kasper D; Fallin, M Daniele Epigenetics & chromatin. 27980682 2016;
Perturb-Seq: Dissecting Molecular Circuits with Scalable Single-Cell RNA Profiling of Pooled Genetic Screens. Dixit, Atray; Parnas, Oren; Li, Biyu; Chen, Jenny; Fulco, Charles P; Jerby-Arnon, Livnat; Marjanovic, Nemanja D; Dionne, Danielle; Burks, Tyler; Raychowdhury, Raktima; Adamson, Britt; Norman, Thomas M; Lander, Eric S; Weissman, Jonathan S; Friedman, Nir; Regev, Aviv Cell. 27984732 2016 Dec 15;
A Multiplexed Single-Cell CRISPR Screening Platform Enables Systematic Dissection of the Unfolded Protein Response. Adamson, Britt; Norman, Thomas M; Jost, Marco; Cho, Min Y; Nuñez, James K; Chen, Yuwen; Villalta, Jacqueline E; Gilbert, Luke A; Horlbeck, Max A; Hein, Marco Y; Pak, Ryan A; Gray, Andrew N; Gross, Carol A; Dixit, Atray; Parnas, Oren; Regev, Aviv; Weissman, Jonathan S Cell. 27984733 2016 Dec 15;
Developing Treatments for Chronic Kidney Disease in the 21st Century. Breyer, Matthew D; Susztak, Katalin Seminars in nephrology. 27987541 2016 Nov;
DeFCoM: analysis and modeling of transcription factor binding sites using a motif-centric genomic footprinter. Quach, Bryan; Furey, Terrence S Bioinformatics (Oxford, England). 27993786 2017 Apr 01;
Schizophrenia-associated methylomic variation: molecular signatures of disease and polygenic risk burden across multiple brain regions. Viana, Joana; Hannon, Eilis; Dempster, Emma; Pidsley, Ruth; Macdonald, Ruby; Knox, Olivia; Spiers, Helen; Troakes, Claire; Al-Saraj, Safa; Turecki, Gustavo; Schalkwyk, Leonard C; Mill, Jonathan Human molecular genetics. 28011714 2017 01 01;
The novel fusion transcript NR5A2-KLHL29FT is generated by an insertion at the KLHL29 locus. Sun, Zhenguo; Ke, Xiquan; Salzberg, Steven L; Kim, Daehwan; Antonescu, Valentin; Cheng, Yulan; Huang, Binbin; Song, Jee Hoon; Abraham, John M; Ibrahim, Sariat; Tian, Hui; Meltzer, Stephen J Cancer. 28081303 2017 05 01;
Whole-Genome DNA Methylation Profiling Identifies Epigenetic Signatures of Uterine Carcinosarcoma. Li, Jing; Xing, Xiaoyun; Li, Daofeng; Zhang, Bo; Mutch, David G; Hagemann, Ian S; Wang, Ting Neoplasia (New York, N.Y.). 28088687 2017 Feb;
Epigenetic Research in Neuropsychiatric Disorders: the ''Tissue Issue''. Bakulski, Kelly M; Halladay, Alycia; Hu, Valerie W; Mill, Jonathan; Fallin, M Daniele Current behavioral neuroscience reports. 28093577 2016 Sep;
CRISPR-Based Epigenome Editing of Cytokine Receptors for the Promotion of Cell Survival and Tissue Deposition in Inflammatory Environments. Farhang, Niloofar; Brunger, Jonathan M; Stover, Joshua D; Thakore, Pratiksha I; Lawrence, Brandon; Guilak, Farshid; Gersbach, Charles A; Setton, Lori A; Bowles, Robert D Tissue engineering. Part A. 28095751 2017 Jan 17;
Cooperative Binding of Transcription Factors Orchestrates Reprogramming. Chronis, Constantinos; Fiziev, Petko; Papp, Bernadett; Butz, Stefan; Bonora, Giancarlo; Sabri, Shan; Ernst, Jason; Plath, Kathrin Cell. 28111071 2017 Jan 26;
Layer-specific chromatin accessibility landscapes reveal regulatory networks in adult mouse visual cortex. Gray, Lucas T; Yao, Zizhen; Nguyen, Thuc Nghi; Kim, Tae Kyung; Zeng, Hongkui; Tasic, Bosiljka eLife. 28112643 2017 Jan 23;
sNASP and ASF1A function through both competitive and compatible modes of histone binding. Bowman, Andrew; Koide, Akiko; Goodman, Jay S; Colling, Meaghan E; Zinne, Daria; Koide, Shohei; Ladurner, Andreas G Nucleic acids research. 28123037 2017 Jan 25;
Genome-Wide Association of Copy Number Polymorphisms and Kidney Function. Li, Man; Carey, Jacob; Cristiano, Stephen; Susztak, Katalin; Coresh, Josef; Boerwinkle, Eric; Kao, Wen Hong L; Beaty, Terri H; Köttgen, Anna; Scharpf, Robert B PloS one. 28135296 2017;
Transcriptional heterogeneity in the lactase gene within cell-type is linked to the epigenome. Oh, Edward; Jeremian, Richie; Oh, Gabriel; Groot, Daniel; Susic, Miki; Lee, KwangHo; Foy, Kelly; Laird, Peter W; Petronis, Arturas; Labrie, Viviane Scientific reports. 28139744 2017 Jan 31;
A high-throughput small molecule screen identifies synergism between DNA methylation and Aurora kinase pathways for X reactivation. Lessing, Derek; Dial, Thomas O; Wei, Chunyao; Payer, Bernhard; Carrette, Lieselot L G; Kesner, Barry; Szanto, Attila; Jadhav, Ajit; Maloney, David J; Simeonov, Anton; Theriault, Jimmy; Hasaka, Thomas; Bedalov, Antonio; Bartolomei, Marisa S; Lee, Jeannie T Proceedings of the National Academy of Sciences of the United States of America. 28182563 2016 Dec 13;
Transgenic expression of human APOL1 risk variants in podocytes induces kidney disease in mice. Beckerman, Pazit; Bi-Karchin, Jing; Park, Ae Seo Deok; Qiu, Chengxiang; Dummer, Patrick D; Soomro, Irfana; Boustany-Kari, Carine M; Pullen, Steven S; Miner, Jeffrey H; Hu, Chien-An A; Rohacs, Tibor; Inoue, Kazunori; Ishibe, Shuta; Saleem, Moin A; Palmer, Matthew B; Cuervo, Ana Maria; Kopp, Jeffrey B; Susztak, Katalin Nature medicine. 28218918 2017 Apr;
Monobodies and other synthetic binding proteins for expanding protein science. Sha, Fern; Salzman, Gabriel; Gupta, Ankit; Koide, Shohei Protein science : a publication of the Protein Society. 28249355 2017 May;
The Nasal Methylome: A Key to Understanding Allergic Asthma. Yang, Ivana V; Richards, Adam; Davidson, Elizabeth J; Stevens, Allen D; Kolakowski, Christena A; Martin, Richard J; Schwartz, David A American journal of respiratory and critical care medicine. 28294656 2017 03 15;
Combinatorial CRISPR-Cas9 screens for de novo mapping of genetic interactions. Shen, John Paul; Zhao, Dongxin; Sasik, Roman; Luebeck, Jens; Birmingham, Amanda; Bojorquez-Gomez, Ana; Licon, Katherine; Klepper, Kristin; Pekin, Daniel; Beckett, Alex N; Sanchez, Kyle Salinas; Thomas, Alex; Kuo, Chih-Chung; Du, Dan; Roguev, Assen; Lewis, Nathan E; Chang, Aaron N; Kreisberg, Jason F; Krogan, Nevan; Qi, Lei; Ideker, Trey; Mali, Prashant Nature methods. 28319113 2017 Jun;
Susceptibility to neurofibrillary tangles: role of the PTPRD locus and limited pleiotropy with other neuropathologies. Chibnik, L B; White, C C; Mukherjee, S; Raj, T; Yu, L; Larson, E B; Montine, T J; Keene, C D; Sonnen, J; Schneider, J A; Crane, P K; Shulman, J M; Bennett, D A; De Jager, P L Molecular psychiatry. 28322283 2017 Mar 21;
Epigenomic annotation of noncoding mutations identifies mutated pathways in primary liver cancer. Lowdon, Rebecca F; Wang, Ting PloS one. 28333948 2017;
Visualization of the Genomic Loci That Are Bound by Specific Multiprotein Complexes by Bimolecular Fluorescence Complementation Analysis on Drosophila Polytene Chromosomes. Deng, Huai; Kerppola, Tom K Methods in enzymology. 28336073 2017;
Histone gene replacement reveals a post-transcriptional role for H3K36 in maintaining metazoan transcriptome fidelity. Meers, Michael P; Henriques, Telmo; Lavender, Christopher A; McKay, Daniel J; Strahl, Brian D; Duronio, Robert J; Adelman, Karen; Matera, A Gregory eLife. 28346137 2017 03 27;
Functional cis-regulatory modules encoded by mouse-specific endogenous retrovirus. Sundaram, Vasavi; Choudhary, Mayank N K; Pehrsson, Erica; Xing, Xiaoyun; Fiore, Christopher; Pandey, Manishi; Maricque, Brett; Udawatta, Methma; Ngo, Duc; Chen, Yujie; Paguntalan, Asia; Ray, Tammy; Hughes, Ava; Cohen, Barak A; Wang, Ting Nature communications. 28348391 2017 Mar 28;
Small-Magnitude Effect Sizes in Epigenetic End Points are Important in Children's Environmental Health Studies: The Children's Environmental Health and Disease Prevention Research Center's Epigenetics Working Group. Breton, Carrie V; Marsit, Carmen J; Faustman, Elaine; Nadeau, Kari; Goodrich, Jaclyn M; Dolinoy, Dana C; Herbstman, Julie; Holland, Nina; LaSalle, Janine M; Schmidt, Rebecca; Yousefi, Paul; Perera, Frederica; Joubert, Bonnie R; Wiemels, Joseph; Taylor, Michele; Yang, Ivana V; Chen, Rui; Hew, Kinjal M; Freeland, Deborah M Hussey; Miller, Rachel; Murphy, Susan K Environmental health perspectives. 28362264 2017 Apr;
Precision Medicine Approaches to Diabetic Kidney Disease: Tissue as an Issue. Gluck, Caroline; Ko, Yi-An; Susztak, Katalin Current diabetes reports. 28364354 2017 05;
Population Epigenetics. Greally, John M Current opinion in systems biology. 28367533 2017 Feb;
CRISPR-Cas9 epigenome editing enables high-throughput screening for functional regulatory elements in the human genome. Klann, Tyler S; Black, Joshua B; Chellappan, Malathi; Safi, Alexias; Song, Lingyun; Hilton, Isaac B; Crawford, Gregory E; Reddy, Timothy E; Gersbach, Charles A Nature biotechnology. 28369033 2017 Jun;
Kidney triglyceride accumulation in the fasted mouse is dependent upon serum free fatty acids. Scerbo, Diego; Son, Ni-Huiping; Sirwi, Alaa; Zeng, Lixia; Sas, Kelli M; Cifarelli, Vincenza; Schoiswohl, Gabriele; Huggins, Lesley-Ann; Gumaste, Namrata; Hu, Yunying; Pennathur, Subramaniam; Abumrad, Nada A; Kershaw, Erin E; Hussain, M Mahmood; Susztak, K Journal of lipid research. 28404638 2017 Jun;
Multiplexed Dynamic Imaging of Genomic Loci by Combined CRISPR Imaging and DNA Sequential FISH. Takei, Yodai; Shah, Sheel; Harvey, Sho; Qi, Lei S; Cai, Long Biophysical journal. 28427715 2017 May 09;
Bidirectional approaches for optogenetic regulation of gene expression in mammalian cells using Arabidopsis cryptochrome 2. Pathak, Gopal P; Spiltoir, Jessica I; Höglund, Camilla; Polstein, Lauren R; Heine-Koskinen, Sari; Gersbach, Charles A; Rossi, Jari; Tucker, Chandra L Nucleic acids research. 28431041 2017 Nov 16;
Systematic Epigenomic Analysis Reveals Chromatin States Associated with Melanoma Progression. Fiziev, Petko; Akdemir, Kadir C; Miller, John P; Keung, Emily Z; Samant, Neha S; Sharma, Sneha; Natale, Christopher A; Terranova, Christopher J; Maitituoheti, Mayinuer; Amin, Samirkumar B; Martinez-Ledesma, Emmanuel; Dhamdhere, Mayura; Axelrad, Jacob B; S Cell reports. 28445736 2017 Apr 25;
Activity of distinct growth factor receptor network components in breast tumors uncovers two biologically relevant subtypes. Rahman, Mumtahena; MacNeil, Shelley M; Jenkins, David F; Shrestha, Gajendra; Wyatt, Sydney R; McQuerry, Jasmine A; Piccolo, Stephen R; Heiser, Laura M; Gray, Joe W; Johnson, W Evan; Bild, Andrea H Genome medicine. 28446242 2017 04 26;
ETV2/ER71 regulates hematopoietic regeneration by promoting hematopoietic stem cell proliferation. Xu, Can-Xin; Lee, Tae-Jin; Sakurai, Nagisa; Krchma, Karen; Liu, Fang; Li, Daofeng; Wang, Ting; Choi, Kyunghee The Journal of experimental medicine. 28461595 2017 May 01;
Genetic interaction mapping in mammalian cells using CRISPR interference. Du, Dan; Roguev, Assen; Gordon, David E; Chen, Meng; Chen, Si-Han; Shales, Michael; Shen, John Paul; Ideker, Trey; Mali, Prashant; Qi, Lei S; Krogan, Nevan J Nature methods. 28481362 2017 Jun;
DIRECTION: a machine learning framework for predicting and characterizing DNA methylation and hydroxymethylation in mammalian genomes. Pavlovic, Milos; Ray, Pradipta; Pavlovic, Kristina; Kotamarti, Aaron; Chen, Min; Zhang, Michael Q Bioinformatics (Oxford, England). 28505334 2017 Oct 01;
Genetic architecture of epigenetic and neuronal ageing rates in human brain regions. Lu, Ake T; Hannon, Eilis; Levine, Morgan E; Crimmins, Eileen M; Lunnon, Katie; Mill, Jonathan; Geschwind, Daniel H; Horvath, Steve Nature communications. 28516910 2017 May 18;
Neuroprotective effects respond to cerebral ischemia without susceptibility to HB-tumorigenesis in VHL heterozygous knockout mice. Wang, Ying; Yang, Jingyun; Du, Guhong; Ma, Dexuan; Zhou, Liangfu Molecular carcinogenesis. 28574654 2017 Oct;
Genetic-Variation-Driven Gene-Expression Changes Highlight Genes with Important Functions for Kidney Disease. Ko, Yi-An; Yi, Huiguang; Qiu, Chengxiang; Huang, Shizheng; Park, Jihwan; Ledo, Nora; Köttgen, Anna; Li, Hongzhe; Rader, Daniel J; Pack, Michael A; Brown, Christopher D; Susztak, Katalin American journal of human genetics. 28575649 2017 Jun 01;
SERPINB2 is regulated by dynamic interactions with pause-release proteins and enhancer RNAs. Shii, Lihua; Song, Li; Maurer, Kelly; Zhang, Zhe; Sullivan, Kathleen E Molecular immunology. 28578223 2017 Aug;
Uncovering the transcriptomic and epigenomic landscape of nicotinic receptor genes in non-neuronal tissues. Zhang, Bo; Madden, Pamela; Gu, Junchen; Xing, Xiaoyun; Sankar, Savita; Flynn, Jennifer; Kroll, Kristen; Wang, Ting BMC genomics. 28583088 2017 Jun 05;
DNMT and HDAC inhibitors induce cryptic transcription start sites encoded in long terminal repeats. Brocks, David; Schmidt, Christopher R; Daskalakis, Michael; Jang, Hyo Sik; Shah, Nakul M; Li, Daofeng; Li, Jing; Zhang, Bo; Hou, Yiran; Laudato, Sara; Lipka, Daniel B; Schott, Johanna; Bierhoff, Holger; Assenov, Yassen; Helf, Monika; Ressnerova, Alzbeta; Nature genetics. 28604729 2017 Jul;
EpiCompare: An online tool to define and explore genomic regions with tissue or cell type-specific epigenomic features. He, Yu; Wang, Ting Bioinformatics (Oxford, England). 28605501 2017 Jun 09;
Ranking and characterization of established BMI and lipid associated loci as candidates for gene-environment interactions. Shungin, Dmitry; Deng, Wei Q; Varga, Tibor V; Luan, Jian'an; Mihailov, Evelin; Metspalu, Andres; GIANT Consortium; Morris, Andrew P; Forouhi, Nita G; Lindgren, Cecilia; Magnusson, Patrik K E; Pedersen, Nancy L; Hallmans, Göran; Chu, Audrey Y; Justice, Anne E; Graff, Mariaelisa; Winkler, Thomas W; Rose, Lynda M; Langenberg, Claudia; Cupples, L Adrienne; Ridker, Paul M; Wareham, Nicholas J; Ong, Ken K; Loos, Ruth J F; Chasman, Daniel I; Ingelsson, Erik; Kilpeläinen, Tuomas O; Scott, Robert A; Mägi, Reedik; Paré, Guillaume; Franks, Paul W PLoS genetics 28614350 2017 Jun
DNA methyltransferase 3b regulates articular cartilage homeostasis by altering metabolism. Shen, Jie; Wang, Cuicui; Li, Daofeng; Xu, Taotao; Myers, Jason; Ashton, John M; Wang, Ting; Zuscik, Michael J; McAlinden, Audrey; O'Keefe, Regis J JCI insight. 28614801 2017 Jun 15;
Genetic-epigenetic interactions in cis: a major focus in the post-GWAS era. Do, Catherine; Shearer, Alyssa; Suzuki, Masako; Terry, Mary Beth; Gelernter, Joel; Greally, John M; Tycko, Benjamin Genome biology. 28629478 2017 06 19;
Mammalian Synthetic Biology: Engineering Biological Systems. Black, Joshua B; Perez-Pinera, Pablo; Gersbach, Charles A Annual review of biomedical engineering. 28633563 2017 06 21;
Repurposing CRISPR System for Transcriptional Activation. Chen, Meng; Qi, Lei Stanley Advances in experimental medicine and biology. 28639197 2017;
Transcriptomic profiles of aging in naïve and memory CD4+ cells from mice. Taylor, Jackson; Reynolds, Lindsay; Hou, Li; Lohman, Kurt; Cui, Wei; Kritchevsky, Stephen; McCall, Charles; Liu, Yongmei Immunity & ageing : I & A. 28642803 2017;
Genetic and epigenetic control of gene expression by CRISPR-Cas systems. Lo, Albert; Qi, Lei F1000Research. 28649363 2017;
Dissecting the role of non-coding RNAs in the accumulation of amyloid and tau neuropathologies in Alzheimer's disease. Patrick, Ellis; Rajagopal, Sathyapriya; Wong, Hon-Kit Andus; McCabe, Cristin; Xu, Jishu; Tang, Anna; Imboywa, Selina H; Schneider, Julie A; Pochet, Nathalie; Krichevsky, Anna M; Chibnik, Lori B; Bennett, David A; De Jager, Philip L Molecular neurodegeneration. 28668092 2017 07 01;
The environment, epigenome, and asthma. Yang, Ivana V; Lozupone, Catherine A; Schwartz, David A The Journal of allergy and clinical immunology. 28673400 2017 Jul;
Neighborhood characteristics influence DNA methylation of genes involved in stress response and inflammation: The Multi-Ethnic Study of Atherosclerosis. Smith, Jennifer A; Zhao, Wei; Wang, Xu; Ratliff, Scott M; Mukherjee, Bhramar; Kardia, Sharon L R; Liu, Yongmei; Roux, Ava V Diez; Needham, Belinda L Epigenetics. 28678593 2017 08;
High-Throughput Colorimetric Assay for Identifying PARP-1 Inhibitors Using a Large Small-Molecule Collection. Kotova, Elena; Tulin, Alexei V Methods in molecular biology (Clifton, N.J.). 28695517 2017;
ATR-101 inhibits cholesterol efflux and cortisol secretion by ATP-binding cassette transporters, causing cytotoxic cholesterol accumulation in adrenocortical carcinoma cells. Burns, Veronica Elizabeth; Kerppola, Tom Klaus British journal of pharmacology. 28710789 2017 Oct;
Increasing the level of peroxisome proliferator-activated receptor ? coactivator-1? in podocytes results in collapsing glomerulopathy. Li, Szu-Yuan; Park, Jihwan; Qiu, Chengxiang; Han, Seung Hyeok; Palmer, Matthew B; Arany, Zoltan; Susztak, Katalin JCI insight. 28724797 2017 Jul 20;
Benign and tumor parenchyma metabolomic profiles affect compensatory renal growth in renal cell carcinoma surgical patients. Rosenzweig, Barak; Rubinstein, Nimrod D; Reznik, Ed; Shingarev, Roman; Juluru, Krishna; Akin, Oguz; Hsieh, James J; Jaimes, Edgar A; Russo, Paul; Susztak, Katalin; Coleman, Jonathan A; Hakimi, A Ari PloS one. 28727768 2017;
Whole exome sequencing identified genetic variations in Chinese hemangioblastoma patients. Ma, Dexuan; Yang, Jingyun; Wang, Ying; Huang, Xiang; Du, Guhong; Zhou, Liangfu American journal of medical genetics. Part A. 28742274 2017 Oct;
A High Fat Diet During Pregnancy and Lactation Induces Cardiac and Renal Abnormalities in GLUT4 +/- Male Mice. Kruse, Michael; Fiallo, Ariana; Tao, Jianling; Susztak, Katalin; Amann, Kerstin; Katz, Ellen B; Charron, Maureen J Kidney & blood pressure research. 28750406 2017;
PGC-1? Protects from Notch-Induced Kidney Fibrosis Development. Han, Seung Hyeok; Wu, Mei-Yan; Nam, Bo Young; Park, Jung Tak; Yoo, Tae-Hyun; Kang, Shin-Wook; Park, Jihwan; Chinga, Frank; Li, Szu-Yuan; Susztak, Katalin Journal of the American Society of Nephrology : JASN. 28751525 2017 Nov;
Cells lay their own tracks - optogenetic Cdc42 activation stimulates fibronectin deposition supporting directed migration. Zimmerman, Seth P; Asokan, Sreeja B; Kuhlman, Brian; Bear, James E Journal of cell science. 28754687 2017 Sep 15;
Correcting nucleotide-specific biases in high-throughput sequencing data. Wang, Jeremy R; Quach, Bryan; Furey, Terrence S BMC bioinformatics. 28764645 2017 Aug 01;
The Three-Dimensional Organization of Mammalian Genomes. Yu, Miao; Ren, Bing Annual review of cell and developmental biology. 28783961 2017 Oct 06;
Transcriptome-Wide Analysis Identifies Novel Associations With Blood Pressure. Zeller, Tanja; Schurmann, Claudia; Schramm, Katharina; Müller, Christian; Kwon, Soonil; Wild, Philipp S; Teumer, Alexander; Herrington, David; Schillert, Arne; Iacoviello, Licia; Kratzer, Adelheid; Jagodzinski, Annika; Karakas, Mahir; Ding, Jingzhong; Neumann, Johannes T; Kuulasmaa, Kari; Gieger, Christian; Kacprowski, Tim; Schnabel, Renate B; Roden, Michael; Wahl, Simone; Rotter, Jerome I; Ojeda, Francisco; Carstensen-Kirberg, Maren; Tregouet, David-Alexandre; Dörr, Marcus; Meitinger, Thomas; Lackner, Karl J; Wolf, Petra; Felix, Stephan B; Landmesser, Ulf; Costanzo, Simona; Ziegler, Andreas; Liu, Yongmei; Völker, Uwe; Palmas, Walter; Prokisch, Holger; Guo, Xiuqing; Herder, Christian; Blankenberg, Stefan; Homuth, Georg Hypertension (Dallas, Tex. : 1979). 28784648 2017 10;
Emerging Infections and Pertinent Infections Related to Travel for Patients with Primary Immunodeficiencies. Sullivan, Kathleen E; Bassiri, Hamid; Bousfiha, Ahmed A; Costa-Carvalho, Beatriz T; Freeman, Alexandra F; Hagin, David; Lau, Yu L; Lionakis, Michail S; Moreira, Ileana; Pinto, Jorge A; de Moraes-Pinto, M Isabel; Rawat, Amit; Reda, Shereen M; Reyes, Saul Oswaldo Lugo; Seppänen, Mikko; Tang, Mimi L K Journal of clinical immunology. 28786026 2017 Oct;
Neuronal-expressed microRNA-targeted pseudogenes compete with coding genes in the human brain. Barbash, S; Simchovitz, A; Buchman, A S; Bennett, D A; Shifman, S; Soreq, H Translational psychiatry. 28786976 2017 Aug 08;
An Engineered Optogenetic Switch for Spatiotemporal Control of Gene Expression, Cell Differentiation, and Tissue Morphogenesis. Polstein, Lauren R; Juhas, Mark; Hanna, Gabi; Bursac, Nenad; Gersbach, Charles A ACS synthetic biology. 28793186 2017 Nov 17;
Electrophoretic stretching and imaging of single native chromatin fibers in nanoslits. Yeh, Jia-Wei; Szeto, Kylan Biomicrofluidics. 28794818 2017 Jul;
APOL1 and Cardiovascular Disease: A Story in Evolution. Bajaj, Archna; Susztak, Katalin; Damrauer, Scott M Arteriosclerosis, thrombosis, and vascular biology 28835482 2017 Sep
SmartScope2: Simultaneous Imaging and Reconstruction of Neuronal Morphology. Long, Brian; Zhou, Zhi; Cetin, Ali; Ting, Jonathan; Gwinn, Ryder; Tasic, Bosiljka; Daigle, Tanya; Lein, Ed; Zeng, Hongkui; Saggau, Peter; Hawrylycz, Michael; Peng, Hanchuan Scientific reports. 28839271 2017 08 24;
Denoising genome-wide histone ChIP-seq with convolutional neural networks. Koh, Pang Wei; Pierson, Emma; Kundaje, Anshul Bioinformatics (Oxford, England). 28881977 2017 Jul 15;
MicroRNAs Induce a Permissive Chromatin Environment that Enables Neuronal Subtype-Specific Reprogramming of Adult Human Fibroblasts. Abernathy, Daniel G; Kim, Woo Kyung; McCoy, Matthew J; Lake, Allison M; Ouwenga, Rebecca; Lee, Seong Won; Xing, Xiaoyun; Li, Daofeng; Lee, Hyung Joo; Heuckeroth, Robert O; Dougherty, Joseph D; Wang, Ting; Yoo, Andrew S Cell stem cell. 28886366 2017 Sep 07;
Genome Engineering for Personalized Arthritis Therapeutics. Adkar, Shaunak S; Brunger, Jonathan M; Willard, Vincent P; Wu, Chia-Lung; Gersbach, Charles A; Guilak, Farshid Trends in molecular medicine. 28887050 2017 Oct;
Tissue-specific DNA methylation is conserved across human, mouse, and rat, and driven by primary sequence conservation. Zhou, Jia; Sears, Renee L; Xing, Xiaoyun; Zhang, Bo; Li, Daofeng; Rockweiler, Nicole B; Jang, Hyo Sik; Choudhary, Mayank N K; Lee, Hyung Joo; Lowdon, Rebecca F; Arand, Jason; Tabers, Brianne; Gu, C Charles; Cicero, Theodore J; Wang, Ting BMC genomics. 28899353 2017 Sep 12;
In Utero Exposure to a High-Fat Diet Programs Hepatic Hypermethylation and Gene Dysregulation and Development of Metabolic Syndrome in Male Mice. Seki, Yoshinori; Suzuki, Masako; Guo, Xingyi; Glenn, Alan Scott; Vuguin, Patricia M; Fiallo, Ariana; Du, Quan; Ko, Yi-An; Yu, Yiting; Susztak, Katalin; Zheng, Deyou; Greally, John M; Katz, Ellen B; Charron, Maureen J Endocrinology 28911167 2017 Sep 01
Differentially conserved transcriptomic response to adversity related to self-rated health in the multi-ethnic study of atherosclerosis. Riestra, Pia; Gebreab, Samson Y; Liu, Yongmei; Diez Roux, Ana V; Khan, Rumana R; Gaye, Amadou; Xu, Ruihua; Davis, S K Experimental biology and medicine (Maywood, N.J.). 28927291 2017 Dec;
Cooperative interactions enable singular olfactory receptor expression in mouse olfactory neurons. Monahan, Kevin; Schieren, Ira; Cheung, Jonah; Mumbey-Wafula, Alice; Monuki, Edwin S; Lomvardas, Stavros eLife. 28933695 2017 Sep 21;
A Single-Chain Photoswitchable CRISPR-Cas9 Architecture for Light-Inducible Gene Editing and Transcription. Zhou, Xin X; Zou, Xinzhi; Chung, Hokyung K; Gao, Yuchen; Liu, Yanxia; Qi, Lei S; Lin, Michael Z ACS chemical biology. 28938067 2018 Feb 16;
Epigenetic restriction of extraembryonic lineages mirrors the somatic transition to cancer. Smith, Zachary D; Shi, Jiantao; Gu, Hongcang; Donaghey, Julie; Clement, Kendell; Cacchiarelli, Davide; Gnirke, Andreas; Michor, Franziska; Meissner, Alexander Nature. 28959968 2017 09 28;
Human Kidney Tubule-Specific Gene Expression Based Dissection of Chronic Kidney Disease Traits. Beckerman, Pazit; Qiu, Chengxiang; Park, Jihwan; Ledo, Nora; Ko, Yi-An; Park, Ae-Seo Deok; Han, Sang-Youb; Choi, Peter; Palmer, Matthew; Susztak, Katalin EBioMedicine. 28970079 2017 Oct;
Detection of Sources in Non-Negative Blind Source Separation by Minimum Description Length Criterion. Lin, Chia-Hsiang; Chi, Chong-Yung; Chen, Lulu; Miller, David J; Wang, Yue IEEE transactions on neural networks and learning systems 28981430 2018 Sep
The REMOTE-control system: a system for reversible and tunable control of endogenous gene expression in mice. Lee, Kwang-Ho; Oghamian, Shirley; Park, Jin-A; Kang, Liang; Laird, Peter W Nucleic acids research. 28981717 2017 Dec 01;
Combined CRISPRi/a-Based Chemical Genetic Screens Reveal that Rigosertib Is a Microtubule-Destabilizing Agent. Jost, Marco; Chen, Yuwen; Gilbert, Luke A; Horlbeck, Max A; Krenning, Lenno; Menchon, Grégory; Rai, Ankit; Cho, Min Y; Stern, Jacob J; Prota, Andrea E; Kampmann, Martin; Akhmanova, Anna; Steinmetz, Michel O; Tanenbaum, Marvin E; Weissman, Jonathan S Molecular cell. 28985505 2017 Oct 05;
Cohort Profile: Pregnancy And Childhood Epigenetics (PACE) Consortium. Felix, Janine F; Joubert, Bonnie R; Baccarelli, Andrea A; Sharp, Gemma C; Almqvist, Catarina; Annesi-Maesano, Isabella; Arshad, Hasan; Baïz, Nour; Bakermans-Kranenburg, Marian J; Bakulski, Kelly M; Binder, Elisabeth B; Bouchard, Luigi; Breton, Carrie V; Brunekreef, Bert; Brunst, Kelly J; Burchard, Esteban G; Bustamante, Mariona; Chatzi, Leda; Cheng Munthe-Kaas, Monica; Corpeleijn, Eva; Czamara, Darina; Dabelea, Dana; Davey Smith, George; De Boever, Patrick; Duijts, Liesbeth; Dwyer, Terence; Eng, Celeste; Eskenazi, Brenda; Everson, Todd M; Falahi, Fahimeh; Fallin, M Daniele; Farchi, Sara; Fernandez, Mariana F; Gao, Lu; Gaunt, Tom R; Ghantous, Akram; Gillman, Matthew W; Gonseth, Semira; Grote, Veit; Gruzieva, Olena; Håberg, Siri E; Herceg, Zdenko; Hivert, Marie-France; Holland, Nina; Holloway, John W; Hoyo, Cathrine; Hu, Donglei; Huang, Rae-Chi; Huen, Karen; Järvelin, Marjo-Riitta; Jima, Dereje D; Just, Allan C; Karagas, Margaret R; Karlsson, Robert; Karmaus, Wilfried; Kechris, Katerina J; Kere, Juha; Kogevinas, Manolis; Koletzko, Berthold; Koppelman, Gerard H; Küpers, Leanne K; Ladd-Acosta, Christine; Lahti, Jari; Lambrechts, Nathalie; Langie, Sabine A S; Lie, Rolv T; Liu, Andrew H; Magnus, Maria C; Magnus, Per; Maguire, Rachel L; Marsit, Carmen J; McArdle, Wendy; Melén, Erik; Melton, Phillip; Murphy, Susan K; Nawrot, Tim S; Nisticò, Lorenza; Nohr, Ellen A; Nordlund, Björn; Nystad, Wenche; Oh, Sam S; Oken, Emily; Page, Christian M; Perron, Patrice; Pershagen, Göran; Pizzi, Costanza; Plusquin, Michelle; Raikkonen, Katri; Reese, Sarah E; Reischl, Eva; Richiardi, Lorenzo; Ring, Susan; Roy, Ritu P; Rzehak, Peter; Schoeters, Greet; Schwartz, David A; Sebert, Sylvain; Snieder, Harold; Sørensen, Thorkild I A; Starling, Anne P; Sunyer, Jordi; Taylor, Jack A; Tiemeier, Henning; Ullemar, Vilhelmina; Vafeiadi, Marina; Van Ijzendoorn, Marinus H; Vonk, Judith M; Vriens, Annette; Vrijheid, Martine; Wang, Pei; Wiemels, Joseph L; Wilcox, Allen J; Wright, Rosalind J; Xu, Cheng-Jian; Xu, Zongli; Yang, Ivana V; Yousefi, Paul; Zhang, Hongmei; Zhang, Weiming; Zhao, Shanshan; Agha, Golareh; Relton, Caroline L; Jaddoe, Vincent W V; London, Stephanie J International journal of epidemiology. 29025028 2018 02 01;
Cross-tissue integration of genetic and epigenetic data offers insight into autism spectrum disorder. Andrews, Shan V; Ellis, Shannon E; Bakulski, Kelly M; Sheppard, Brooke; Croen, Lisa A; Hertz-Picciotto, Irva; Newschaffer, Craig J; Feinberg, Andrew P; Arking, Dan E; Ladd-Acosta, Christine; Fallin, M Daniele Nature communications. 29066808 2017 10 24;
Age and the association of dementia-related pathology with trajectories of cognitive decline. Jansen, Willemijn J; Wilson, Robert S; Visser, Pieter Jelle; Nag, Sukriti; Schneider, Julie A; James, Bryan D; Leurgans, Sue E; Capuano, Ana W; Bennett, David A; Boyle, Patricia A Neurobiology of aging. 29078129 2018 01;
Association of Bone Metabolic Markers With Diabetic Retinopathy and Diabetic Macular Edema in Elderly Chinese Individuals With Type 2 Diabetes Mellitus. Zhang, Xiao; Yang, Jingyun; Zhong, Yong; Xu, Lingling; Wang, Ou; Huang, Ping; Li, Chunying; Qu, Bin; Wang, Jing; Zheng, Caixia; Niu, Meng; Yu, Weihong The American journal of the medical sciences. 29078839 2017 Oct;
Inducible and multiplex gene regulation using CRISPR-Cpf1-based transcription factors. Tak, Y Esther; Kleinstiver, Benjamin P; Nuñez, James K; Hsu, Jonathan Y; Horng, Joy E; Gong, Jingyi; Weissman, Jonathan S; Joung, J Keith Nature methods. 29083402 2017 Dec;
Association Between Brain Gene Expression, DNA Methylation, and Alteration of Ex Vivo Magnetic Resonance Imaging Transverse Relaxation in Late-Life Cognitive Decline. Yu, Lei; Dawe, Robert J; Boyle, Patricia A; Gaiteri, Chris; Yang, Jingyun; Buchman, Aron S; Schneider, Julie A; Arfanakis, Konstantinos; De Jager, Philip L; Bennett, David A JAMA neurology. 29084334 2017 Dec 01;
Combinatorial genetics in liver repopulation and carcinogenesis with a in vivo CRISPR activation platform. Wangensteen, Kirk J; Wang, Yue J; Dou, Zhixun; Wang, Amber W; Mosleh-Shirazi, Elham; Horlbeck, Max A; Gilbert, Luke A; Weissman, Jonathan S; Berger, Shelley L; Kaestner, Klaus H Hepatology (Baltimore, Md.). 29091290 2018 08;
Epigenome-wide association studies identify DNA methylation associated with kidney function. Chu, Audrey Y; Tin, Adrienne; Schlosser, Pascal; Ko, Yi-An; Qiu, Chengxiang; Yao, Chen; Joehanes, Roby; Grams, Morgan E; Liang, Liming; Gluck, Caroline A; Liu, Chunyu; Coresh, Josef; Hwang, Shih-Jen; Levy, Daniel; Boerwinkle, Eric; Pankow, James S; Yang, Qiong; Fornage, Myriam; Fox, Caroline S; Susztak, Katalin; Köttgen, Anna Nature communications. 29097680 2017 Nov 03;
Genome-wide association study identifies a novel locus for cannabis dependence. Agrawal, A; Chou, Y-L; Carey, C E; Baranger, D A A; Zhang, B; Sherva, R; Wetherill, L; Kapoor, M; Wang, J-C; Bertelsen, S; Anokhin, A P; Hesselbrock, V; Kramer, J; Lynskey, M T; Meyers, J L; Nurnberger, J I; Rice, J P; Tischfield, J; Bierut, L J; Degenhardt, L; Farrer, L A; Gelernter, J; Hariri, A R; Heath, A C; Kranzler, H R; Madden, P A F; Martin, N G; Montgomery, G W; Porjesz, B; Wang, T; Whitfield, J B; Edenberg, H J; Foroud, T; Goate, A M; Bogdan, R; Nelson, E C Molecular psychiatry. 29112194 2017 Nov 07;
Chromatin-state discovery and genome annotation with ChromHMM. Ernst, Jason; Kellis, Manolis Nature protocols. 29120462 2017 Dec;
Functional Redundancy of Variant and Canonical Histone H3 Lysine 9 Modification in Drosophila. Penke, Taylor J R; McKay, Daniel J; Strahl, Brian D; Matera, A Gregory; Duronio, Robert J Genetics. 29133298 2018 Jan;
Corrigendum: High-throughput discovery of novel developmental phenotypes. Dickinson, Mary E; Flenniken, Ann M; Ji, Xiao; Teboul, Lydia; Wong, Michael D; White, Jacqueline K; Meehan, Terrence F; Weninger, Wolfgang J; Westerberg, Henrik; Adissu, Hibret; Baker, Candice N; Bower, Lynette; Brown, James M; Caddle, L Brianna; Chiani, Francesco; Clary, Dave; Cleak, James; Daly, Mark J; Denegre, James M; Doe, Brendan; Dolan, Mary E; Edie Helmut Fuchs, Sarah M; Gailus-Durner, Valerie; Galli, Antonella; Gambadoro, Alessia; Gallegos, Juan; Guo, Shiying; Horner, Neil R; Hsu, Chih-Wei; Johnson, Sara J; Kalaga, Sowmya; Keith, Lance C; Lanoue, Louise; Lawson, Thomas N; Lek, Monkol; Mark, Manuel; Marschall, Susan; Mason, Jeremy; McElwee, Melissa L; Nutter, Susan Newbigging Lauryl M J; Peterson, Kevin A; Ramirez-Solis, Ramiro; Rowland, Douglas J; Ryder, Edward; Samocha, Kaitlin E; Seavitt, John R; Selloum, Mohammed; Szoke-Kovacs, Zsombor; Tamura, Masaru; Trainor, Amanda G; Tudose, Ilinca; Wakana, Shigeharu; Warren, Jonathan; Wendling, Olivia; West, David B; Wong, Leeyean; Yoshiki, Atsushi; International Mouse Phenotyping Consortium; Wurst, Wolfgang; MacArthur, Daniel G; Tocchini-Valentini, Glauco P; Gao, Xiang; Flicek, Paul; Bradley, Allan; Skarnes, William C; Justice, Monica J; Parkinson, Helen E; Moore, Mark; Wells, Sara; Braun, Robert E; Svenson, Karen L; de Angelis, Martin Hrabe; Herault, Yann; Mohun, Tim; Mallon, Ann-Marie; Henkelman, R Mark; Brown, Steve D M; Adams, David J; Lloyd, K C Kent; McKerlie, Colin; Beaudet, Arthur L; Murray, Maja Bu?an Stephen A Nature. 29144450 2017 Nov 16;
Tobacco exposure-related alterations in DNA methylation and gene expression in human monocytes: the Multi-Ethnic Study of Atherosclerosis (MESA). Reynolds, Lindsay M; Lohman, Kurt; Pittman, Gary S; Barr, R Graham; Chi, Gloria C; Kaufman, Joel; Wan, Ma; Bell, Douglas A; Blaha, Michael J; Rodriguez, Carlos J; Liu, Yongmei Epigenetics. 29166816 2017;
Landscape of the regulatory elements for lysine 2-hydroxyisobutyrylation pathway. Huang, He; Luo, Zhouqing; Qi, Shankang; Huang, Jing; Xu, Peng; Wang, Xiuxuan; Gao, Li; Li, Fangyi; Wang, Jian; Zhao, Wenhui; Gu, Wei; Chen, Zhucheng; Dai, Lunzhi; Dai, Junbiao; Zhao, Yingming Cell research. 29192674 2018 Jan;
Transposable Element Mediated Innovation in Gene Regulatory Landscapes of Cells: Re-Visiting the ''Gene-Battery'' Model. Sundaram, Vasavi; Wang, Ting BioEssays : news and reviews in molecular, cellular and developmental biology. 29206283 2018 Jan;
Comprehensive Whole DNA Methylome Analysis by Integrating MeDIP-seq and MRE-seq. Xing, Xiaoyun; Zhang, Bo; Li, Daofeng; Wang, Ting Methods in molecular biology (Clifton, N.J.). 29224147 2018;
SMG-1 inhibition by miR-192/-215 causes epithelial-mesenchymal transition in gastric carcinogenesis via activation of Wnt signaling. Zhang, Xiaojing; Peng, Yin; Huang, Yong; Yang, Mengting; Yan, Ruibin; Zhao, Yanqiu; Cheng, Yulan; Liu, Xi; Deng, Shiqi; Feng, Xianling; Lin, Huijuan; Yu, Huimin; Chen, Si; Zhao, Zhenfu; Li, Shanni; Li, Kuan; Wang, Liang; Wei, Yanjie; He, Zhendan; Fan, Xinmin; Meltzer, Stephen J; Li, Song; Jin, Zhe Cancer medicine. 29239144 2018 01;
Sophisticated lessons from simple organisms: appreciating the value of curiosity-driven research. Duronio, Robert J; O'Farrell, Patrick H; Sluder, Greenfield; Su, Tin Tin Disease models & mechanisms. 29259023 2017 12 19;
Control of microtubule dynamics using an optogenetic microtubule plus end-F-actin cross-linker. Adikes, Rebecca C; Hallett, Ryan A; Saway, Brian F; Kuhlman, Brian; Slep, Kevin C The Journal of cell biology. 29259096 2018 Feb 05;
CRISPR Approaches to Small Molecule Target Identification. Jost, Marco; Weissman, Jonathan S ACS chemical biology. 29261286 2018 Feb 16;
Engineering cell sensing and responses using a GPCR-coupled CRISPR-Cas system. Kipniss, Nathan H; Dingal, P C Dave P; Abbott, Timothy R; Gao, Yuchen; Wang, Haifeng; Dominguez, Antonia A; Labanieh, Louai; Qi, Lei S Nature communications. 29263378 2017 12 20;
A mixed modality approach towards Xi reactivation for Rett syndrome and other X-linked disorders. Carrette, Lieselot L G; Wang, Chen-Yu; Wei, Chunyao; Press, William; Ma, Weiyuan; Kelleher 3rd, Raymond J; Lee, Jeannie T Proceedings of the National Academy of Sciences of the United States of America. 29282321 2018 Jan 23;
Loneliness 5 years ante-mortem is associated with disease-related differential gene expression in postmortem dorsolateral prefrontal cortex. Canli, Turhan; Yu, Lei; Yu, Xiaoqing; Zhao, Hongyu; Fleischman, Debra; Wilson, Robert S; De Jager, Philip L; Bennett, David A Translational psychiatry 29317593 2018 Jan 10
Methylene-tetrahydrofolate reductase contributes to allergic airway disease. Eyring, Kenneth R; Pedersen, Brent S; Maclean, Kenneth N; Stabler, Sally P; Yang, Ivana V; Schwartz, David A PloS one. 29329322 2018;
Role of epigenetics in the development of childhood asthma. Davidson, Elizabeth J; Yang, Ivana V Current opinion in allergy and clinical immunology. 29389731 2018 04;
A Novel Substrate Radiotracer for Molecular Imaging of SIRT2 Expression and Activity with Positron Emission Tomography. Bonomi, Robin E; Laws, Maxwell; Popov, Vadim; Kamal, Swatabdi; Potukutchi, Shreya; Shavrin, Aleksandr; Lu, Xin; Turkman, Nashaat; Liu, Ren-Shyan; Mangner, Thomas; Gelovani, Juri G Molecular imaging and biology. 29423902 2018 08;
Genome-wide tracking of dCas9-methyltransferase footprints. Galonska, Christina; Charlton, Jocelyn; Mattei, Alexandra L; Donaghey, Julie; Clement, Kendell; Gu, Hongcang; Mohammad, Arman W; Stamenova, Elena K; Cacchiarelli, Davide; Klages, Sven; Timmermann, Bernd; Cantz, Tobias; Schöler, Hans R; Gnirke, Andreas; Ziller, Michael J; Meissner, Alexander Nature communications. 29426832 2018 02 09;
Hallmarks of cancer: The CRISPR generation. Moses, Colette; Garcia-Bloj, Benjamin; Harvey, Alan R; Blancafort, Pilar European journal of cancer (Oxford, England : 1990). 29433054 2018 04;
Zika Virus Alters DNA Methylation of Neural Genes in an Organoid Model of the Developing Human Brain. Janssens, Sylvie; Schotsaert, Michael; Karnik, Rahul; Balasubramaniam, Vinod; Dejosez, Marion; Meissner, Alexander; García-Sastre, Adolfo; Zwaka, Thomas P mSystems. 29435496 2018 Jan-Feb;
Shared molecular neuropathology across major psychiatric disorders parallels polygenic overlap. Gandal, Michael J; Haney, Jillian R; Parikshak, Neelroop N; Leppa, Virpi; Ramaswami, Gokul; Hartl, Chris; Schork, Andrew J; Appadurai, Vivek; Buil, Alfonso; Werge, Thomas M; Liu, Chunyu; White, Kevin P; CommonMind Consortium; PsychENCODE Consortium; iPSYCH-BROAD Working Group; Horvath, Steve; Geschwind, Daniel H Science (New York, N.Y.). 29439242 2018 02 09;
Light-Dependent Cytoplasmic Recruitment Enhances the Dynamic Range of a Nuclear Import Photoswitch. Yumerefendi, Hayretin; Wang, Hui; Dickinson, Daniel J; Lerner, Andrew M; Malkus, Per; Goldstein, Bob; Hahn, Klaus; Kuhlman, Brian Chembiochem : a European journal of chemical biology. 29446199 ;
Transcription start site profiling uncovers divergent transcription and enhancer-associated RNAs in Drosophila melanogaster. Meers, Michael P; Adelman, Karen; Duronio, Robert J; Strahl, Brian D; McKay, Daniel J; Matera, A Gregory BMC genomics. 29466941 2018 02 21;
Positional effects revealed in Illumina methylation array and the impact on analysis. Jiao, Chuan; Zhang, Chunling; Dai, Rujia; Xia, Yan; Wang, Kangli; Giase, Gina; Chen, Chao; Liu, Chunyu Epigenomics. 29469594 2018 05;
Remodeling the Specificity of an Endosomal CORVET Tether Underlies Formation of Regulated Secretory Vesicles in the Ciliate Tetrahymena thermophila. Sparvoli, Daniela; Richardson, Elisabeth; Osakada, Hiroko; Lan, Xun; Iwamoto, Masaaki; Bowman, Grant R; Kontur, Cassandra; Bourland, William A; Lynn, Denis H; Pritchard, Jonathan K; Haraguchi, Tokuko; Dacks, Joel B; Turkewitz, Aaron P Current biology : CB. 29478853 2018 03 05;
CRISPR-based methods for high-throughput annotation of regulatory DNA. Klann, Tyler S; Black, Joshua B; Gersbach, Charles A Current opinion in biotechnology. 29500989 2018 Feb 28;
The NIEHS TaRGET II Consortium and environmental epigenomics. Wang, Ting; Pehrsson, Erica C; Purushotham, Deepak; Li, Daofeng; Zhuo, Xiaoyu; Zhang, Bo; Lawson, Heather A; Province, Michael A; Krapp, Christopher; Lan, Yemin; Coarfa, Cristian; Katz, Tiffany A; Tang, Wan Yee; Wang, Zhibin; Biswal, Shyam; Rajagopalan, Sanjay; Colacino, Justin A; Tsai, Zing Tsung-Yeh; Sartor, Maureen A; Neier, Kari; Dolinoy, Dana C; Pinto, Jayant; Hamanaka, Robert B; Mutlu, Gokhan M; Patisaul, Heather B; Aylor, David L; Crawford, Gregory E; Wiltshire, Tim; Chadwick, Lisa H; Duncan, Christopher G; Garton, Amanda E; McAllister, Kimberly A; TaRGET II Consortium; Bartolomei, Marisa S; Walker, Cheryl L; Tyson, Frederick L Nature biotechnology. 29509741 2018 Mar 06;
Zinc Fingers, TALEs, and CRISPR Systems: A Comparison of Tools for Epigenome Editing. Waryah, Charlene Babra; Moses, Colette; Arooj, Mahira; Blancafort, Pilar Methods in molecular biology (Clifton, N.J.). 29524128 2018;
Screening Regulatory Element Function with CRISPR/Cas9-based Epigenome Editing. Klann, Tyler S; Crawford, Gregory E; Reddy, Timothy E; Gersbach, Charles A Methods in molecular biology (Clifton, N.J.). 29524151 2018;
Global delay in nascent strand DNA methylation. Charlton, Jocelyn; Downing, Timothy L; Smith, Zachary D; Gu, Hongcang; Clement, Kendell; Pop, Ramona; Akopian, Veronika; Klages, Sven; Santos, David P; Tsankov, Alexander M; Timmermann, Bernd; Ziller, Michael J; Kiskinis, Evangelos; Gnirke, Andreas; Meissner, Alexander Nature structural & molecular biology. 29531288 2018 Mar 12;
Elevated DNA methylation across a 48-kb region spanning the HOXA gene cluster is associated with Alzheimer's disease neuropathology. Smith, Rebecca G; Hannon, Eilis; De Jager, Philip L; Chibnik, Lori; Lott, Simon J; Condliffe, Daniel; Smith, Adam R; Haroutunian, Vahram; Troakes, Claire; Al-Sarraj, Safa; Bennett, David A; Powell, John; Lovestone, Simon; Schalkwyk, Leonard; Mill, Jonathan; Lunnon, Katie Alzheimer's & dementia : the journal of the Alzheimer's Association. 29550519 2018 Dec;
Dissecting the Functional Consequences of De Novo DNA Methylation Dynamics in Human Motor Neuron Differentiation and Physiology. Ziller, Michael J; Ortega, Juan A; Quinlan, Katharina A; Santos, David P; Gu, Hongcang; Martin, Eric J; Galonska, Christina; Pop, Ramona; Maidl, Susanne; Di Pardo, Alba; Huang, Mei; Meltzer, Herbert Y; Gnirke, Andreas; Heckman, C J; Meissner, Alexander; Kiskinis, Evangelos Cell stem cell. 29551301 2018 04 05;
Pulling the genome in opposite directions to dissect gene networks. Gersbach, Charles A; Barrangou, Rodolphe Genome biology. 29580291 2018 Mar 26;
The Role of Peroxisome Proliferator-Activated Receptor ? Coactivator 1? (PGC-1?) in Kidney Disease. Li, Szu-Yuan; Susztak, Katalin Seminars in nephrology. 29602395 2018 03;
Introduction: Systems Biology of Kidney Disease. Sharma, Kumar; Susztak, Katalin; Pennathur, Subramaniam Seminars in nephrology. 29602402 2018 03;
Single-cell transcriptomics of the mouse kidney reveals potential cellular targets of kidney disease. Park, Jihwan; Shrestha, Rojesh; Qiu, Chengxiang; Kondo, Ayano; Huang, Shizheng; Werth, Max; Li, Mingyao; Barasch, Jonathan; Suszták, Katalin Science (New York, N.Y.). 29622724 2018 05 18;
PREDICTD PaRallel Epigenomics Data Imputation with Cloud-based Tensor Decomposition. Durham, Timothy J; Libbrecht, Maxwell W; Howbert, J Jeffry; Bilmes, Jeff; Noble, William Stafford Nature communications 29643364 2018 04 11
Cancer-Germline Antigen Expression Discriminates Clinical Outcome to CTLA-4 Blockade. Shukla, Sachet A; Bachireddy, Pavan; Schilling, Bastian; Galonska, Christina; Zhan, Qian; Bango, Clyde; Langer, Rupert; Lee, Patrick C; Gusenleitner, Daniel; Keskin, Derin B; Babadi, Mehrtash; Mohammad, Arman; Gnirke, Andreas; Clement, Kendell; Cartun, Zachary J; Van Allen, Eliezer M; Miao, Diana; Huang, Ying; Snyder, Alexandra; Merghoub, Taha; Wolchok, Jedd D; Garraway, Levi A; Meissner, Alexander; Weber, Jeffrey S; Hacohen, Nir; Neuberg, Donna; Potts, Patrick R; Murphy, George F; Lian, Christine G; Schadendorf, Dirk; Hodi, F Stephen; Wu, Catherine J Cell. 29656892 2018 04 19;
An epigenetic biomarker of aging for lifespan and healthspan. Levine, Morgan E; Lu, Ake T; Quach, Austin; Chen, Brian H; Assimes, Themistocles L; Bandinelli, Stefania; Hou, Lifang; Baccarelli, Andrea A; Stewart, James D; Li, Yun; Whitsel, Eric A; Wilson, James G; Reiner, Alex P; Aviv, Abraham; Lohman, Kurt; Liu, Yongmei; Ferrucci, Luigi; Horvath, Steve Aging. 29676998 2018 04 18;
RNA-guided transcriptional silencing in vivo with S. aureus CRISPR-Cas9 repressors. Thakore, Pratiksha I; Kwon, Jennifer B; Nelson, Christopher E; Rouse, Douglas C; Gemberling, Matthew P; Oliver, Matthew L; Gersbach, Charles A Nature communications. 29700298 2018 Apr 26;
Identification of Smoking-Associated Differentially Methylated Regions Using Reduced Representation Bisulfite Sequencing and Cell type-Specific Enhancer Activation and Gene Expression. Wan, Ma; Bennett, Brian D; Pittman, Gary S; Campbell, Michelle R; Reynolds, Lindsay M; Porter, Devin K; Crowl, Christopher L; Wang, Xuting; Su, Dan; Englert, Neal A; Thompson, Isabel J; Liu, Yongmei; Bell, Douglas A Environmental health perspectives. 29706059 2018 04 27;
Cytosine methylation predicts renal function decline in American Indians. Qiu, Chengxiang; Hanson, Robert L; Fufaa, Gudeta; Kobes, Sayuko; Gluck, Caroline; Huang, Jing; Chen, Yong; Raj, Dominic; Nelson, Robert G; Knowler, William C; Susztak, Katalin Kidney international. 29709239 2018 06;
Promoter of lncRNA Gene PVT1 Is a Tumor-Suppressor DNA Boundary Element. Cho, Seung Woo; Xu, Jin; Sun, Ruping; Mumbach, Maxwell R; Carter, Ava C; Chen, Y Grace; Yost, Kathryn E; Kim, Jeewon; He, Jing; Nevins, Stephanie A; Chin, Suet-Feung; Caldas, Carlos; Liu, S John; Horlbeck, Max A; Lim, Daniel A; Weissman, Jonathan S; Curtis, Christina; Chang, Howard Y Cell. 29731168 2018 05 31;
Genomic integration of ERR?-HNF1? regulates renal bioenergetics and prevents chronic kidney disease. Zhao, Juanjuan; Lupino, Katherine; Wilkins, Benjamin J; Qiu, Chengxiang; Liu, Jian; Omura, Yasuhiro; Allred, Amanda L; McDonald, Caitlin; Susztak, Katalin; Barish, Grant D; Pei, Liming Proceedings of the National Academy of Sciences of the United States of America. 29735694 2018 05 22;
Direct Reprogramming of Mouse Fibroblasts into Functional Skeletal Muscle Progenitors. Bar-Nur, Ori; Gerli, Mattia F M; Di Stefano, Bruno; Almada, Albert E; Galvin, Amy; Coffey, Amy; Huebner, Aaron J; Feige, Peter; Verheul, Cassandra; Cheung, Priscilla; Payzin-Dogru, Duygu; Paisant, Sylvain; Anselmo, Anthony; Sadreyev, Ruslan I; Ott, Harald C; Tajbakhsh, Shahragim; Rudnicki, Michael A; Wagers, Amy J; Hochedlinger, Konrad Stem cell reports. 29742392 2018 05 08;
Next-generation antibodies for post-translational modifications. Hattori, Takamitsu; Koide, Shohei Current opinion in structural biology. 29753204 2018 08;
Soluble inflammatory mediators induce transcriptional re-organization that is independent of dna methylation changes in cultured human chorionic villous trophoblasts. Jiang, Kaiyu; Wong, Laiping; Chen, Yanmin; Xing, Xiaoyun; Li, Daofeng; Wang, Ting; Jarvis, James N Journal of reproductive immunology. 29800761 2018 Aug;
Synthetic transcription factors for cell fate reprogramming. Black, Joshua B; Gersbach, Charles A Current opinion in genetics & development. 29803990 2018 10;
Editing the Epigenome: Reshaping the Genomic Landscape. Holtzman, Liad; Gersbach, Charles A Annual review of genomics and human genetics. 29852072 2018 08 31;
Atomistic molecular dynamics simulations of bioactive engrailed 1 interference peptides (EN1-iPeps). Gandhi, Neha S; Blancafort, Pilar; Mancera, Ricardo L Oncotarget. 29854286 2018 Apr 27;
Religious Orders Study and Rush Memory and Aging Project. Bennett, David A; Buchman, Aron S; Boyle, Patricia A; Barnes, Lisa L; Wilson, Robert S; Schneider, Julie A Journal of Alzheimer's disease : JAD. 29865057 2018;
Tau Activates Transposable Elements in Alzheimer's Disease. Guo, Caiwei; Jeong, Hyun-Hwan; Hsieh, Yi-Chen; Klein, Hans-Ulrich; Bennett, David A; De Jager, Philip L; Liu, Zhandong; Shulman, Joshua M Cell reports. 29874575 2018 06 05;
APOL1: The Balance Imposed by Infection, Selection, and Kidney Disease. Beckerman, Pazit; Susztak, Katalin Trends in molecular medicine. 29886044 2018 08;
A modular dCas9-SunTag DNMT3A epigenome editing system overcomes pervasive off-target activity of direct fusion dCas9-DNMT3A constructs. Pflueger, Christian; Tan, Dennis; Swain, Tessa; Nguyen, Trung; Pflueger, Jahnvi; Nefzger, Christian; Polo, Jose M; Ford, Ethan; Lister, Ryan Genome research. 29907613 2018 08;
Microscopes and Mass Spectrometers. Shields, Bradley; Shalin, Sara C; Tackett, Alan J Journal of proteomics & bioinformatics. 29910559 2016;
Class I Histone Deacetylase Inhibition by Tianeptinaline Modulates Neuroplasticity and Enhances Memory. Zhao, Wen-Ning; Ghosh, Balaram; Tyler, Marshall; Lalonde, Jasmin; Joseph, Nadine F; Kosaric, Nina; Fass, Daniel M; Tsai, Li-Huei; Mazitschek, Ralph; Haggarty, Stephen J ACS chemical neuroscience. 29932631 2018 09 19;
Gene expression and DNA methylation are extensively coordinated with MRI-based brain microstructural characteristics. Gaiteri, Chris; Dawe, Robert; Mostafavi, Sara; Blizinsky, Katherine D; Tasaki, Shinya; Komashko, Vitalina; Yu, Lei; Wang, Yanling; Schneider, Julie A; Arfanakis, Konstantinos; De Jager, Philip L; Bennett, David A Brain imaging and behavior. 29934819 2019 Aug;
A decade in psychiatric GWAS research. Horwitz, Tanya; Lam, Katie; Chen, Yu; Xia, Yan; Liu, Chunyu Molecular psychiatry. 29942042 2019 03;
A CRISPR-dCas Toolbox for Genetic Engineering and Synthetic Biology. Xu, Xiaoshu; Qi, Lei S Journal of molecular biology. 29958882 2019 01 04;
Katalin Susztak. Trends in molecular medicine 29980480 2018 Aug
BrainEXP: a database featuring with spatiotemporal expression variations and co-expression organizations in human brains. Jiao, Chuan; Yan, Pengpeng; Xia, Cuihua; Shen, Zhaoming; Tan, Zexi; Tan, Yanyan; Wang, Kangli; Jiang, Yi; Huang, Lingling; Dai, Rujia; Wei, Yu; Xia, Yan; Meng, Qingtuan; Ouyang, Yanmei; Yi, Liu; Duan, Fangyuan; Dai, Jiacheng; Zhao, Shunan; Liu, Chunyu; Chen, Chao Bioinformatics (Oxford, England). 29985970 2019 01 01;
Case-control meta-analysis of blood DNA methylation and autism spectrum disorder. Andrews, Shan V; Sheppard, Brooke; Windham, Gayle C; Schieve, Laura A; Schendel, Diana E; Croen, Lisa A; Chopra, Pankaj; Alisch, Reid S; Newschaffer, Craig J; Warren, Stephen T; Feinberg, Andrew P; Fallin, M Daniele; Ladd-Acosta, Christine Molecular autism. 29988321 2018;
Alternative empirical Bayes models for adjusting for batch effects in genomic studies. Zhang, Yuqing; Jenkins, David F; Manimaran, Solaiappan; Johnson, W Evan BMC bioinformatics. 30001694 2018 07 13;
Inhibition of the miR-192/215-Rab11-FIP2 axis suppresses human gastric cancer progression. Zhang, Xiaojing; Peng, Yin; Huang, Yong; Deng, Shiqi; Feng, Xianling; Hou, Gangqiang; Lin, Huijuan; Wang, Jian; Yan, Ruibin; Zhao, Yanqiu; Fan, Xinmin; Meltzer, Stephen J; Li, Song; Jin, Zhe Cell death & disease. 30006518 2018 07 13;
A Suite of Transgenic Driver and Reporter Mouse Lines with Enhanced Brain-Cell-Type Targeting and Functionality. Daigle, Tanya L; Madisen, Linda; Hage, Travis A; Valley, Matthew T; Knoblich, Ulf; Larsen, Rylan S; Takeno, Marc M; Huang, Lawrence; Gu, Hong; Larsen, Rachael; Mills, Maya; Bosma-Moody, Alice; Siverts, La' Akea; Walker, Miranda; Graybuck, Lucas T; Yao, Zizhen; Fong, Olivia; Nguyen, Thuc Nghi; Garren, Emma; Lenz, Garreck H; Chavarha, Mariya; Pendergraft, Julie; Harrington, James; Hirokawa, Karla E; Harris, Julie A; Nicovich, Philip R; McGraw, Medea J; Ollerenshaw, Douglas R; Smith, Kimberly A; Baker, Christopher A; Ting, Jonathan T; Sunkin, Susan M; Lecoq, Jérôme; Lin, Michael Z; Boyden, Edward S; Murphy, Gabe J; da Costa, Nuno M; Waters, Jack; Li, Lu; Tasic, Bosiljka; Zeng, Hongkui Cell. 30007418 2018 07 12;
Facile target validation in an animal model with intracellularly expressed monobodies. Gupta, Ankit; Xu, Jing; Lee, Shirley; Tsai, Steven T; Zhou, Bo; Kurosawa, Kohei; Werner, Michael S; Koide, Akiko; Ruthenburg, Alexander J; Dou, Yali; Koide, Shohei Nature chemical biology. 30013062 2018 Sep;
Pre-established Chromatin Interactions Mediate the Genomic Response to Glucocorticoids. D'Ippolito, Anthony M; McDowell, Ian C; Barrera, Alejandro; Hong, Linda K; Leichter, Sarah M; Bartelt, Luke C; Vockley, Christopher M; Majoros, William H; Safi, Alexias; Song, Lingyun; Gersbach, Charles A; Crawford, Gregory E; Reddy, Timothy E Cell systems. 30031775 2018 08 22;
Mapping the Genetic Landscape of Human Cells. Horlbeck, Max A; Xu, Albert; Wang, Min; Bennett, Neal K; Park, Chong Y; Bogdanoff, Derek; Adamson, Britt; Chow, Eric D; Kampmann, Martin; Peterson, Tim R; Nakamura, Ken; Fischbach, Michael A; Weissman, Jonathan S; Gilbert, Luke A Cell. 30033366 2018 Aug 09;
Tsix-Mecp2 female mouse model for Rett syndrome reveals that low-level MECP2 expression extends life and improves neuromotor function. Carrette, Lieselot L G; Blum, Roy; Ma, Weiyuan; Kelleher 3rd, Raymond J; Lee, Jeannie T Proceedings of the National Academy of Sciences of the United States of America. 30038001 2018 08 07;
Molecular Imaging of Sirtuin1 Expression-Activity in Rat Brain Using Positron-Emission Tomography-Magnetic-Resonance Imaging with [18F]-2-Fluorobenzoylaminohexanoicanilide. Bonomi, Robin; Popov, Vadim; Laws, Maxwell T; Gelovani, David; Majhi, Anjoy; Shavrin, Aleksandr; Lu, Xin; Muzik, Otto; Turkman, Nashaat; Liu, Renshyan; Mangner, Thomas; Gelovani, Juri G Journal of medicinal chemistry. 30052441 2018 08 23;
Reproductive period and epigenetic modifications of the oxidative phosphorylation pathway in the human prefrontal cortex. Bove, Riley M; Patrick, Ellis; Aubin, Cristin McCabe; Srivastava, Gyan; Schneider, Julie A; Bennett, David A; De Jager, Philip L; Chibnik, Lori B PloS one. 30052629 2018;
An Animal Model for Genetic Analysis of Multi-Gene Families: Cloning and Transgenesis of Large Tandemly Repeated Histone Gene Clusters. Meers, Michael P; Leatham-Jensen, Mary; Penke, Taylor J R; McKay, Daniel J; Duronio, Robert J; Matera, A Gregory Methods in molecular biology (Clifton, N.J.). 30073535 2018;
Tumor penetrating peptides inhibiting MYC as a potent targeted therapeutic strategy for triple-negative breast cancers. Wang, Edina; Sorolla, Anabel; Cunningham, Paula T; Bogdawa, Heique M; Beck, Samuel; Golden, Emily; Dewhurst, Robert E; Florez, Laura; Cruickshank, Mark N; Hoffmann, Katrin; Hopkins, Richard M; Kim, Jonghwan; Woo, Andrew J; Watt, Paul M; Blancafort, Pilar Oncogene. 30076412 2019 01;
A multi-omic atlas of the human frontal cortex for aging and Alzheimer's disease research. De Jager, Philip L; Ma, Yiyi; McCabe, Cristin; Xu, Jishu; Vardarajan, Badri N; Felsky, Daniel; Klein, Hans-Ulrich; White, Charles C; Peters, Mette A; Lodgson, Ben; Nejad, Parham; Tang, Anna; Mangravite, Lara M; Yu, Lei; Gaiteri, Chris; Mostafavi, Sara; Schneider, Julie A; Bennett, David A Scientific data. 30084846 2018 08 07;
Genetic architecture of gene expression traits across diverse populations. Mogil, Lauren S; Andaleon, Angela; Badalamenti, Alexa; Dickinson, Scott P; Guo, Xiuqing; Rotter, Jerome I; Johnson, W Craig; Im, Hae Kyung; Liu, Yongmei; Wheeler, Heather E PLoS genetics 30096133 2018 Aug
ChromTime: modeling spatio-temporal dynamics of chromatin marks. Fiziev, Petko; Ernst, Jason Genome biology. 30097049 2018 08 10;
Glucocorticoid receptor recruits to enhancers and drives activation by motif-directed binding. McDowell, Ian C; Barrera, Alejandro; D'Ippolito, Anthony M; Vockley, Christopher M; Hong, Linda K; Leichter, Sarah M; Bartelt, Luke C; Majoros, William H; Song, Lingyun; Safi, Alexias; Koçak, D Dewran; Gersbach, Charles A; Hartemink, Alexander J; Crawford, Gregory E; Engelhardt, Barbara E; Reddy, Timothy E Genome research. 30097539 2018 09;
Allele-specific epigenome maps reveal sequence-dependent stochastic switching at regulatory loci. Onuchic, Vitor; Lurie, Eugene; Carrero, Ivenise; Pawliczek, Piotr; Patel, Ronak Y; Rozowsky, Joel; Galeev, Timur; Huang, Zhuoyi; Altshuler, Robert C; Zhang, Zhizhuo; Harris, R Alan; Coarfa, Cristian; Ashmore, Lillian; Bertol, Jessica W; Fakhouri, Walid D; Yu, Fuli; Kellis, Manolis; Gerstein, Mark; Milosavljevic, Aleksandar Science (New York, N.Y.). 30139913 2018 Aug 23;
Multi-omic Directed Networks Describe Features of Gene Regulation in Aged Brains and Expand the Set of Genes Driving Cognitive Decline. Tasaki, Shinya; Gaiteri, Chris; Mostafavi, Sara; Yu, Lei; Wang, Yanling; De Jager, Philip L; Bennett, David A Frontiers in genetics. 30140277 2018;
A high-throughput screen of real-time ATP levels in individual cells reveals mechanisms of energy failure. Mendelsohn, Bryce A; Bennett, Neal K; Darch, Maxwell A; Yu, Katharine; Nguyen, Mai K; Pucciarelli, Daniela; Nelson, Maxine; Horlbeck, Max A; Gilbert, Luke A; Hyun, William; Kampmann, Martin; Nakamura, Jean L; Nakamura, Ken PLoS biology. 30148842 2018 Aug;
Transposable element dysregulation in systemic lupus erythematosus and regulation by histone conformation and Hsp90. Kelly, Maurer; Lihua, Shi; Zhe, Zhang; Li, Song; Yoselin, Paucar; Michelle, Petri; Sullivan Kathleen, E Clinical immunology (Orlando, Fla.). 30149120 2018 12;
Seasonal plasticity of cognition and related biological measures in adults with and without Alzheimer disease: Analysis of multiple cohorts. Lim, Andrew S P; Gaiteri, Chris; Yu, Lei; Sohail, Shahmir; Swardfager, Walter; Tasaki, Shinya; Schneider, Julie A; Paquet, Claire; Stuss, Donald T; Masellis, Mario; Black, Sandra E; Hugon, Jacques; Buchman, Aron S; Barnes, Lisa L; Bennett, David A; De Jager, Philip L PLoS medicine 30180184 2018 Sep
Genome-wide DNA methylation profiling of primary colorectal laterally spreading tumors identifies disease-specific epimutations on common pathways. Zhu, Liangliang; Yan, Feihu; Wang, Zhen; Dong, Haiyan; Bian, Chengling; Wang, Ting; Yu, Enda; Li, Jing International journal of cancer. 30183087 2018 Nov 15;
Proteomics and melanoma: a current perspective. Shields, Bradley D; Tackett, Alan J; Shalin, Sara C Global dermatology. 30214824 2016 Aug;
Jagged1/Notch2 controls kidney fibrosis via Tfam-mediated metabolic reprogramming. Huang, Shizheng; Park, Jihwan; Qiu, Chengxiang; Chung, Ki Wung; Li, Szu-Yuan; Sirin, Yasemin; Han, Seung Hyeok; Taylor, Verdon; Zimber-Strobl, Ursula; Susztak, Katalin PLoS biology. 30226866 2018 09;
Epigenetics and Epigenomics: Implications for Diabetes and Obesity. Rosen, Evan D; Kaestner, Klaus H; Natarajan, Rama; Patti, Mary-Elizabeth; Sallari, Richard; Sander, Maike; Susztak, Katalin Diabetes. 30237160 2018 10;
Deconstructing and targeting the genomic architecture of human neurodegeneration. De Jager, Philip L; Yang, Hyun-Sik; Bennett, David A Nature neuroscience 30258235 2018 Oct
Mathematical modeling identifies potential gene structure determinants of co-transcriptional control of alternative pre-mRNA splicing. Davis-Turak, Jeremy; Johnson, Tracy L; Hoffmann, Alexander Nucleic acids research. 30272246 2018 11 16;
Renal compartment-specific genetic variation analyses identify new pathways in chronic kidney disease. Qiu, Chengxiang; Huang, Shizheng; Park, Jihwan; Park, YoSon; Ko, Yi-An; Seasock, Matthew J; Bryer, Joshua S; Xu, Xiang-Xi; Song, Wen-Chao; Palmer, Matthew; Hill, Jon; Guarnieri, Paolo; Hawkins, Julie; Boustany-Kari, Carine M; Pullen, Steven S; Brown, Christopher D; Susztak, Katalin Nature medicine. 30275566 2018 11;
Colonic epithelial miR-31 associates with the development of Crohn's phenotypes. Keith, Benjamin P; Barrow, Jasmine B; Toyonaga, Takahiko; Kazgan, Nevzat; O'Connor, Michelle Hoffner; Shah, Neil D; Schaner, Matthew S; Wolber, Elisabeth A; Trad, Omar K; Gipson, Greg R; Pitman, Wendy A; Kanke, Matthew; Saxena, Shruti J; Chaumont, Nicole; Sadiq, Timothy S; Koruda, Mark J; Cotney, Paul A; Allbritton, Nancy; Trembath, Dimitri G; Sylvester, Francisco; Furey, Terrence S; Sethupathy, Praveen; Sheikh, Shehzad Z JCI insight. 30282822 2018 10 04;
The 3D Genome Browser: a web-based browser for visualizing 3D genome organization and long-range chromatin interactions. Wang, Yanli; Song, Fan; Zhang, Bo; Zhang, Lijun; Xu, Jie; Kuang, Da; Li, Daofeng; Choudhary, Mayank N K; Li, Yun; Hu, Ming; Hardison, Ross; Wang, Ting; Yue, Feng Genome biology. 30286773 2018 10 04;
CRISPhieRmix: a hierarchical mixture model for CRISPR pooled screens. Daley, Timothy P; Lin, Zhixiang; Lin, Xueqiu; Liu, Yanxia; Wong, Wing Hung; Qi, Lei S Genome biology. 30296940 2018 10 08;
Long-Term In Vitro Expansion of Epithelial Stem Cells Enabled by Pharmacological Inhibition of PAK1-ROCK-Myosin II and TGF-? Signaling. Zhang, Chengkang; Lee, Hyung Joo; Shrivastava, Anura; Wang, Ruipeng; McQuiston, Travis J; Challberg, Sharon S; Pollok, Brian A; Wang, Ting Cell reports. 30332641 2018 Oct 16;
Comparative genomic analysis of embryonic, lineage-converted and stem cell-derived motor neurons. Ichida, Justin K; Staats, Kim A; Davis-Dusenbery, Brandi N; Clement, Kendell; Galloway, Kate E; Babos, Kimberly N; Shi, Yingxiao; Son, Esther Y; Kiskinis, Evangelos; Atwater, Nicholas; Gu, Hongcang; Gnirke, Andreas; Meissner, Alexander; Eggan, Kevin Development (Cambridge, England). 30337375 2018 11 21;
Fate mapping during regeneration: Cells that undergo compensatory proliferation in damaged Drosophila eye imaginal discs differentiate into multiple retinal accessory cell types. Meserve, Joy H; Duronio, Robert J Developmental biology. 30347187 2018 12 15;
The Molecular and Neuropathological Consequences of Genetic Risk for Alzheimer's Dementia. Tasaki, Shinya; Gaiteri, Chris; Mostafavi, Sara; De Jager, Philip L; Bennett, David A Frontiers in neuroscience. 30349450 2018;
Enhancer RNA and NF?B-dependent P300 regulation of ADAMDEC1. Shi, Lihua; Li, Song; Maurer, Kelly; Zhang, Zhe; Petri, Michelle; Sullivan, Kathleen E Molecular immunology. 30352365 2018 11;
Step-Wise Chondrogenesis of Human Induced Pluripotent Stem Cells and Purification Via a Reporter Allele Generated by CRISPR-Cas9 Genome Editing. Adkar, Shaunak S; Wu, Chia-Lung; Willard, Vincent P; Dicks, Amanda; Ettyreddy, Adarsh; Steward, Nancy; Bhutani, Nidhi; Gersbach, Charles A; Guilak, Farshid Stem cells (Dayton, Ohio). 30378731 2019 Jan;
A non-randomized procedure for large-scale heterogeneous multiple discrete testing based on randomized tests. Dai, Xiaoyu; Lin, Nan; Li, Daofeng; Wang, Ting Biometrics. 30387496 2018 Nov 02;
Characterization of a Mouse Model of Börjeson-Forssman-Lehmann Syndrome. Cheng, Cheng; Deng, Pan-Yue; Ikeuchi, Yoshiho; Yuede, Carla; Li, Daofeng; Rensing, Nicholas; Huang, Ju; Baldridge, Dustin; Maloney, Susan E; Dougherty, Joseph D; Constantino, John; Jahani-Asl, Arezu; Wong, Michael; Wozniak, David F; Wang, Ting; Klyachko, Vitaly A; Bonni, Azad Cell reports. 30403997 2018 Nov 06;
Engineering Improved Photoswitches for the Control of Nucleocytoplasmic Distribution. Lerner, Andrew M; Yumerefendi, Hayretin; Goudy, Odessa J; Strahl, Brian D; Kuhlman, Brian ACS synthetic biology. 30441907 2018 Nov 29;
Targets and genomic constraints of ectopic Dnmt3b expression. Zhang, Yingying; Charlton, Jocelyn; Karnik, Rahul; Beerman, Isabel; Smith, Zachary D; Gu, Hongcang; Boyle, Patrick; Mi, Xiaoli; Clement, Kendell; Pop, Ramona; Gnirke, Andreas; Rossi, Derrick J; Meissner, Alexander eLife. 30468428 2018 11 23;
A high-fat diet alters genome-wide DNA methylation and gene expression in SM/J mice. Keleher, Madeline Rose; Zaidi, Rabab; Hicks, Lauren; Shah, Shyam; Xing, Xiaoyun; Li, Daofeng; Wang, Ting; Cheverud, James M BMC genomics. 30526554 2018 Dec 07;
The transcription factor POU3F2 regulates a gene coexpression network in brain tissue from patients with psychiatric disorders. Chen, Chao; Meng, Qingtuan; Xia, Yan; Ding, Chaodong; Wang, Le; Dai, Rujia; Cheng, Lijun; Gunaratne, Preethi; Gibbs, Richard A; Min, Shishi; Coarfa, Cristian; Reid, Jeffrey G; Zhang, Chunling; Jiao, Chuan; Jiang, Yi; Giase, Gina; Thomas, Amber; Fitzgerald, Dominic; Brunetti, Tonya; Shieh, Annie; Xia, Cuihua; Wang, Yongjun; Wang, Yunpeng; Badner, Judith A; Gershon, Elliot S; White, Kevin P; Liu, Chunyu Science translational medicine. 30545964 2018 12 19;
The DGCR5 long noncoding RNA may regulate expression of several schizophrenia-related genes. Meng, Qingtuan; Wang, Kangli; Brunetti, Tonya; Xia, Yan; Jiao, Chuan; Dai, Rujia; Fitzgerald, Dominic; Thomas, Amber; Jay, Lindsey; Eckart, Heather; Grennan, Kay; Imamura-Kawasawa, Yuka; Li, Mingfeng; Sestan, Nenad; White, Kevin P; Chen, Chao; Liu, Chunyu Science translational medicine. 30545965 2018 12 19;
Epigenome-wide study uncovers large-scale changes in histone acetylation driven by tau pathology in aging and Alzheimer's human brains. Klein, Hans-Ulrich; McCabe, Cristin; Gjoneska, Elizabeta; Sullivan, Sarah E; Kaskow, Belinda J; Tang, Anna; Smith, Robert V; Xu, Jishu; Pfenning, Andreas R; Bernstein, Bradley E; Meissner, Alexander; Schneider, Julie A; Mostafavi, Sara; Tsai, Li-Huei; Young-Pearse, Tracy L; Bennett, David A; De Jager, Philip L Nature neuroscience 30559478 2019 Jan
Trans-ethnic association study of blood pressure determinants in over 750,000 individuals. Giri, Ayush; Hellwege, Jacklyn N; Keaton, Jacob M; Park, Jihwan; Qiu, Chengxiang; Warren, Helen R; Torstenson, Eric S; Kovesdy, Csaba P; Sun, Yan V; Wilson, Otis D; Robinson-Cohen, Cassianne; Roumie, Christianne L; Chung, Cecilia P; Birdwell, Kelly A; Damrauer, Scott M; DuVall, Scott L; Klarin, Derek; Cho, Kelly; Wang, Yu; Evangelou, Evangelos; Cabrera, Claudia P; Wain, Louise V; Shrestha, Rojesh; Mautz, Brian S; Akwo, Elvis A; Sargurupremraj, Muralidharan; Debette, Stéphanie; Boehnke, Michael; Scott, Laura J; Luan, Jian'an; Zhao, Jing-Hua; Willems, Sara M; Thériault, Sébastien; Shah, Nabi; Oldmeadow, Christopher; Almgren, Peter; Li-Gao, Ruifang; Verweij, Niek; Boutin, Thibaud S; Mangino, Massimo; Ntalla, Ioanna; Feofanova, Elena; Surendran, Praveen; Cook, James P; Karthikeyan, Savita; Lahrouchi, Najim; Liu, Chunyu; Sepúlveda, Nuno; Richardson, Tom G; Kraja, Aldi; Amouyel, Philippe; Farrall, Martin; Poulter, Neil R; Understanding Society Scientific Group; International Consortium for Blood Pressure; Blood Pressure-International Consortium of Exome Chip Studies; Laakso, Markku; Zeggini, Eleftheria; Sever, Peter; Scott, Robert A; Langenberg, Claudia; Wareham, Nicholas J; Conen, David; Palmer, Colin Neil Alexander; Attia, John; Chasman, Daniel I; Ridker, Paul M; Melander, Olle; Mook-Kanamori, Dennis Owen; Harst, Pim van der; Cucca, Francesco; Schlessinger, David; Hayward, Caroline; Spector, Tim D; Jarvelin, Marjo-Riitta; Hennig, Branwen J; Timpson, Nicholas J; Wei, Wei-Qi; Smith, Joshua C; Xu, Yaomin; Matheny, Michael E; Siew, Edward E; Lindgren, Cecilia; Herzig, Karl-Heinz; Dedoussis, George; Denny, Joshua C; Psaty, Bruce M; Howson, Joanna M M; Munroe, Patricia B; Newton-Cheh, Christopher; Caulfield, Mark J; Elliott, Paul; Gaziano, J Michael; Concato, John; Wilson, Peter W F; Tsao, Philip S; Velez Edwards, Digna R; Susztak, Katalin; Million Veteran Program; O'Donnell, Christopher J; Hung, Adriana M; Edwards, Todd L Nature genetics. 30578418 2019 01;
Associations of Fenofibrate Therapy With Incidence and Progression of CKD in Patients With Type 2 Diabetes. Frazier, Rebecca; Mehta, Rupal; Cai, Xuan; Lee, Jungwha; Napoli, Sara; Craven, Timothy; Tuazon, Jennifer; Safdi, Adam; Scialla, Julia; Susztak, Katalin; Isakova, Tamara Kidney international reports. 30596172 2019 Jan;
Allele-specific RNA imaging shows that allelic imbalances can arise in tissues through transcriptional bursting. Symmons, Orsolya; Chang, Marcello; Mellis, Ian A; Kalish, Jennifer M; Park, Jihwan; Suszták, Katalin; Bartolomei, Marisa S; Raj, Arjun PLoS genetics. 30625149 2019 01;
Activating PTEN Tumor Suppressor Expression with the CRISPR/dCas9 System. Moses, Colette; Nugent, Fiona; Waryah, Charlene Babra; Garcia-Bloj, Benjamin; Harvey, Alan R; Blancafort, Pilar Molecular therapy. Nucleic acids. 30654190 2019 Mar 01;
DNA methylation variability in Alzheimer's disease. Huo, Zhiguang; Zhu, Yun; Yu, Lei; Yang, Jingyun; De Jager, Philip; Bennett, David A; Zhao, Jinying Neurobiology of aging 30660039 2019 Apr
Xist RNA antagonizes the SWI/SNF chromatin remodeler BRG1 on the inactive X chromosome. Jégu, Teddy; Blum, Roy; Cochrane, Jesse C; Yang, Lin; Wang, Chen-Yu; Gilles, Maud-Emmanuelle; Colognori, David; Szanto, Attila; Marr, Sharon K; Kingston, Robert E; Lee, Jeannie T Nature structural & molecular biology. 30664740 2019 Feb;
Bulk tissue cell type deconvolution with multi-subject single-cell expression reference. Wang, Xuran; Park, Jihwan; Susztak, Katalin; Zhang, Nancy R; Li, Mingyao Nature communications. 30670690 2019 01 22;
Genetic risk variants for brain disorders are enriched in cortical H3K27ac domains. Hannon, Eilis; Marzi, Sarah J; Schalkwyk, Leonard S; Mill, Jonathan Molecular brain. 30691483 2019 01 28;
Lysine 27 of replication-independent histone H3.3 is required for Polycomb target gene silencing but not for gene activation. Leatham-Jensen, Mary; Uyehara, Christopher M; Strahl, Brian D; Matera, A Gregory; Duronio, Robert J; McKay, Daniel J PLoS genetics. 30699116 2019 01;
Enhancer Histone Acetylation Modulates Transcriptional Bursting Dynamics of Neuronal Activity-Inducible Genes. Chen, Liang-Fu; Lin, Yen Ting; Gallegos, David A; Hazlett, Mariah F; Gómez-Schiavon, Mariana; Yang, Marty G; Kalmeta, Breanna; Zhou, Allen S; Holtzman, Liad; Gersbach, Charles A; Grandl, Jörg; Buchler, Nicolas E; West, Anne E Cell reports. 30699347 2019 01 29;
Ascorbic acid-induced TET activation mitigates adverse hydroxymethylcytosine loss in renal cell carcinoma. Shenoy, Niraj; Bhagat, Tushar D; Cheville, John; Lohse, Christine; Bhattacharyya, Sanchari; Tischer, Alexander; Machha, Venkata; Gordon-Mitchell, Shanisha; Choudhary, Gaurav; Wong, Li-Fan; Gross, LouAnn; Ressigue, Emily; Leibovich, Bradley; Boorjian, Stephen A; Steidl, Ulrich; Wu, Xiaosheng; Pradhan, Kith; Gartrell, Benjamin; Agarwal, Beamon; Pagliaro, Lance; Suzuki, Masako; Greally, John M; Rakheja, Dinesh; Thompson, R Houston; Susztak, Katalin; Witzig, Thomas; Zou, Yiyu; Verma, Amit The Journal of clinical investigation. 30702441 2019 Mar 04;
Long-Range Chromatin Interactions in the Kidney. Guan, Yuting; Liu, Hongbo; Susztak, Katalin Journal of the American Society of Nephrology : JASN. 30760498 2019 Feb 13;
Prioritizing Parkinson's disease genes using population-scale transcriptomic data. Li, Yang I; Wong, Garrett; Humphrey, Jack; Raj, Towfique Nature communications 30824768 2019 Mar 01
Epigenetic marks of prenatal air pollution exposure found in multiple tissues relevant for child health. Ladd-Acosta, Christine; Feinberg, Jason I; Brown, Shannon C; Lurmann, Frederick W; Croen, Lisa A; Hertz-Picciotto, Irva; Newschaffer, Craig J; Feinberg, Andrew P; Fallin, M Daniele; Volk, Heather E Environment international. 30826615 2019 05;
Molecular imaging HDACs class IIa expression-activity and pharmacologic inhibition in intracerebral glioma models in rats using PET/CT/(MRI) with [18F]TFAHA. Laws, Maxwell T; Bonomi, Robin E; Kamal, Swatabdi; Gelovani, David J; Llaniguez, Jeremy; Potukutchi, Shreya; Lu, Xin; Mangner, Thomas; Gelovani, Juri G Scientific reports. 30837601 2019 Mar 05;
The kidney transcriptome, from single cells to whole organs and back. Huang, Shizheng; Sheng, Xin; Susztak, Katalin Current opinion in nephrology and hypertension. 30844884 2019 May;
DNMT1 in Six2 Progenitor Cells Is Essential for Transposable Element Silencing and Kidney Development. Li, Szu-Yuan; Park, Jihwan; Guan, Yuting; Chung, Kiwung; Shrestha, Rojesh; Palmer, Matthew B; Susztak, Katalin Journal of the American Society of Nephrology : JASN. 30850438 2019 Apr;
Cellular response to small molecules that selectively stall protein synthesis by the ribosome. Liaud, Nadège; Horlbeck, Max A; Gilbert, Luke A; Gjoni, Ketrin; Weissman, Jonathan S; Cate, Jamie H D PLoS genetics. 30875366 2019 03;
Measuring the reproducibility and quality of Hi-C data. Yard?mc?, Galip Gürkan; Ozadam, Hakan; Sauria, Michael E G; Ursu, Oana; Yan, Koon-Kiu; Yang, Tao; Chakraborty, Abhijit; Kaul, Arya; Lajoie, Bryan R; Song, Fan; Zhan, Ye; Ay, Ferhat; Gerstein, Mark; Kundaje, Anshul; Li, Qunhua; Taylor, James; Yue, Feng; Dekker, Job; Noble, William S Genome biology. 30890172 2019 03 19;
Transposable elements drive widespread expression of oncogenes in human cancers. Jang, Hyo Sik; Shah, Nakul M; Du, Alan Y; Dailey, Zea Z; Pehrsson, Erica C; Godoy, Paula M; Zhang, David; Li, Daofeng; Xing, Xiaoyun; Kim, Sungsu; O'Donnell, David; Gordon, Jeffrey I; Wang, Ting Nature genetics. 30926969 2019 04;
Novel methods for integration and visualization of genomics and genetics data in Alzheimer's disease. Bihlmeyer, Nathan A; Merrill, Emily; Lambert, Yann; Srivastava, Gyan P; Clark, Timothy W; Hyman, Bradley T; Das, Sudeshna Alzheimer's & dementia : the journal of the Alzheimer's Association. 30935898 2019 Jun;
A Peripheral Blood DNA Methylation Signature of Hepatic Fat Reveals a Potential Causal Pathway for Nonalcoholic Fatty Liver Disease. Ma, Jiantao; Nano, Jana; Ding, Jingzhong; Zheng, Yinan; Hennein, Rachel; Liu, Chunyu; Speliotes, Elizabeth K; Huan, Tianxiao; Song, Ci; Mendelson, Michael M; Joehanes, Roby; Long, Michelle T; Liang, Liming; Smith, Jennifer A; Reynolds, Lindsay M; Ghanbari, Mohsen; Muka, Taulant; van Meurs, Joyce B J; Alferink, Louise J M; Franco, Oscar H; Dehghan, Abbas; Ratliff, Scott; Zhao, Wei; Bielak, Lawrence; Kardia, Sharon L R; Peyser, Patricia A; Ning, Hongyan; VanWagner, Lisa B; Lloyd-Jones, Donald M; Carr, John Jeffrey; Greenland, Philip; Lichtenstein, Alice H; Hu, Frank B; Liu, Yongmei; Hou, Lifang; Darwish Murad, Sarwa; Levy, Daniel Diabetes. 30936141 2019 May;
Expression of socially sensitive genes: The multi-ethnic study of atherosclerosis. Brown, Kristen M; Diez-Roux, Ana V; Smith, Jennifer A; Needham, Belinda L; Mukherjee, Bhramar; Ware, Erin B; Liu, Yongmei; Cole, Steven W; Seeman, Teresa E; Kardia, Sharon L R PloS one. 30973896 2019;
Sex-differential DNA methylation and associated regulation networks in human brain implicated in the sex-biased risks of psychiatric disorders. Xia, Yan; Dai, Rujia; Wang, Kangli; Jiao, Chuan; Zhang, Chunling; Xu, Yuchen; Li, Honglei; Jing, Xi; Chen, Yu; Jiang, Yi; Kopp, Richard F; Giase, Gina; Chen, Chao; Liu, Chunyu Molecular psychiatry. 30976086 2019 Apr 11;
In vivo Application of the REMOTE-control System for the Manipulation of Endogenous Gene Expression. Vander Schaaf, Nicole A; Oghamian, Shirley; Park, Jin-A; Kang, Liang; Laird, Peter W; Lee, Kwang-Ho Journal of visualized experiments : JoVE. 30985765 2019 Mar 29;
Increasing the specificity of CRISPR systems with engineered RNA secondary structures. Kocak, D Dewran; Josephs, Eric A; Bhandarkar, Vidit; Adkar, Shaunak S; Kwon, Jennifer B; Gersbach, Charles A Nature biotechnology. 30988504 2019 06;
A signature of circulating inflammatory proteins and development of end-stage renal disease in diabetes. Niewczas, Monika A; Pavkov, Meda E; Skupien, Jan; Smiles, Adam; Md Dom, Zaipul I; Wilson, Jonathan M; Park, Jihwan; Nair, Viji; Schlafly, Andrew; Saulnier, Pierre-Jean; Satake, Eiichiro; Simeone, Christopher A; Shah, Hetal; Qiu, Chengxiang; Looker, Helen C; Fiorina, Paolo; Ware, Carl F; Sun, Jennifer K; Doria, Alessandro; Kretzler, Matthias; Susztak, Katalin; Duffin, Kevin L; Nelson, Robert G; Krolewski, Andrzej S Nature medicine. 31011203 2019 05;
DNA methylation signatures as biomarkers of prior environmental exposures. Ladd-Acosta, Christine; Fallin, M Daniele Current epidemiology reports. 31032172 2019 Mar;
Going from acute to chronic kidney injury with FoxO3. Gu, Xiangchen; Raman, Archana; Susztak, Katalin The Journal of clinical investigation. 31063992 2019 05 06;
Next-generation characterization of the Cancer Cell Line Encyclopedia. Ghandi, Mahmoud; Huang, Franklin W; Jané-Valbuena, Judit; Kryukov, Gregory V; Lo, Christopher C; McDonald 3rd, E Robert; Barretina, Jordi; Gelfand, Ellen T; Bielski, Craig M; Li, Haoxin; Hu, Kevin; Andreev-Drakhlin, Alexander Y; Kim, Jaegil; Hess, Julian M; Haas, Brian J; Aguet, François; Weir, Barbara A; Rothberg, Michael V; Paolella, Brenton R; Lawrence, Michael S; Akbani, Rehan; Lu, Yiling; Tiv, Hong L; Gokhale, Prafulla C; de Weck, Antoine; Mansour, Ali Amin; Oh, Coyin; Shih, Juliann; Hadi, Kevin; Rosen, Yanay; Bistline, Jonathan; Venkatesan, Kavitha; Reddy, Anupama; Sonkin, Dmitriy; Liu, Manway; Lehar, Joseph; Korn, Joshua M; Porter, Dale A; Jones, Michael D; Golji, Javad; Caponigro, Giordano; Taylor, Jordan E; Dunning, Caitlin M; Creech, Amanda L; Warren, Allison C; McFarland, James M; Zamanighomi, Mahdi; Kauffmann, Audrey; Stransky, Nicolas; Imielinski, Marcin; Maruvka, Yosef E; Cherniack, Andrew D; Tsherniak, Aviad; Vazquez, Francisca; Jaffe, Jacob D; Lane, Andrew A; Weinstock, David M; Johannessen, Cory M; Morrissey, Michael P; Stegmeier, Frank; Schlegel, Robert; Hahn, William C; Getz, Gad; Mills, Gordon B; Boehm, Jesse S; Golub, Todd R; Garraway, Levi A; Sellers, William R Nature. 31068700 2019 May;
Molecular recording of mammalian embryogenesis. Chan, Michelle M; Smith, Zachary D; Grosswendt, Stefanie; Kretzmer, Helene; Norman, Thomas M; Adamson, Britt; Jost, Marco; Quinn, Jeffrey J; Yang, Dian; Jones, Matthew G; Khodaverdian, Alex; Yosef, Nir; Meissner, Alexander; Weissman, Jonathan S Nature. 31086336 2019 06;
Retargeting of macroH2A following mitosis to cytogenetic-scale heterochromatic domains. Sato, Hanae; Wu, Bin; Delahaye, Fabien; Singer, Robert H; Greally, John M The Journal of cell biology. 31110057 2019 Jun 03;
Epigenetic dysregulation of enhancers in neurons is associated with Alzheimer's disease pathology and cognitive symptoms. Li, Peipei; Marshall, Lee; Oh, Gabriel; Jakubowski, Jennifer L; Groot, Daniel; He, Yu; Wang, Ting; Petronis, Arturas; Labrie, Viviane Nature communications. 31113950 2019 05 21;
Epigenome-wide association analysis of daytime sleepiness in the Multi-Ethnic Study of Atherosclerosis reveals African-American-specific associations. Barfield, Richard; Wang, Heming; Liu, Yongmei; Brody, Jennifer A; Swenson, Brenton; Li, Ruitong; Bartz, Traci M; Sotoodehnia, Nona; Chen, Yii-der I; Cade, Brian E; Chen, Han; Patel, Sanjay R; Zhu, Xiaofeng; Gharib, Sina A; Johnson, W Craig; Rotter, Jerome I; Saxena, Richa; Purcell, Shaun; Lin, Xihong; Redline, Susan; Sofer, Tamar Sleep. 31139831 2019 08 01;
CpG-related SNPs in the MS4A region have a dose-dependent effect on risk of late-onset Alzheimer disease. Ma, Yiyi; Jun, Gyungah R; Chung, Jaeyoon; Zhang, Xiaoling; Kunkle, Brian W; Naj, Adam C; White, Charles C; Bennett, David A; De Jager, Philip L; Alzheimer?s Disease Genetics Consortium; Mayeux, Richard; Haines, Jonathan L; Pericak-Vance, Margaret A; Schellenberg, Gerard D; Farrer, Lindsay A; Lunetta, Kathryn L Aging cell. 31144443 2019 Aug;
The next generation of CRISPR-Cas technologies and applications. Pickar-Oliver, Adrian; Gersbach, Charles A Nature reviews. Molecular cell biology. 31147612 2019 08;
Ablation of adipocyte creatine transport impairs thermogenesis and causes diet-induced obesity. Kazak, Lawrence; Rahbani, Janane F; Samborska, Bozena; Lu, Gina Z; Jedrychowski, Mark P; Lajoie, Mathieu; Zhang, Song; Ramsay, LeeAnn C; Dou, Florence Y; Tenen, Danielle; Chouchani, Edward T; Dzeja, Petras; Watson, Ian R; Tsai, Linus; Rosen, Evan D; Spiegelman, Bruce M Nature metabolism. 31161155 2019;
Kidney cytosine methylation changes improve renal function decline estimation in patients with diabetic kidney disease. Gluck, Caroline; Qiu, Chengxiang; Han, Sang Youb; Palmer, Matthew; Park, Jihwan; Ko, Yi-An; Guan, Yuting; Sheng, Xin; Hanson, Robert L; Huang, Jing; Chen, Yong; Park, Ae Seo Deok; Izquierdo, Maria Concepcion; Mantzaris, Ioannis; Verma, Amit; Pullman, James; Li, Hongzhe; Susztak, Katalin Nature communications. 31165727 2019 06 05;
WashU Epigenome Browser update 2019. Li, Daofeng; Hsu, Silas; Purushotham, Deepak; Sears, Renee L; Wang, Ting Nucleic acids research. 31165883 2019 Jul 02;
Functional methylome analysis of human diabetic kidney disease. Park, Jihwan; Guan, Yuting; Sheng, Xin; Gluck, Caroline; Seasock, Matthew J; Hakimi, A. Ari; Qiu, Chengxiang; Pullman, James; Verma, Amit; Li, Hongzhe; Palmer, Matthew; Susztak, Katalin JCI insight. 31167971 2019 06 06;
The association between apolipoprotein E and gallstone disease: an updated meta-analysis. Li, Lizhuo; Qiao, Xin; Wang, Xia; Liu, Di; Xue, Qingmu; Han, Lu; Dai, Fei; Ma, Guomin; Yang, Zhipeng; Zhang, Tao; Yang, Shuo; Cai, Shikang; Gao, Mingyue; Yang, Jingyun BMC medical genetics. 31200656 2019 Jun 14;
NUCLIZE for quantifying epigenome: generating histone modification data at single-nucleosome resolution using genuine nucleosome positions. Zheng, Daoshan; Trynda, Justyna; Sun, Zhifu; Li, Zhaoyu BMC genomics. 31266464 2019 Jul 02;
Neuroepigenetic signatures of age and sex in the living human brain. Gilbert, Tonya M; Zürcher, Nicole R; Catanese, Mary C; Tseng, Chieh-En J; Di Biase, Maria A; Lyall, Amanda E; Hightower, Baileigh G; Parmar, Anjali J; Bhanot, Anisha; Wu, Christine J; Hibert, Matthew L; Kim, Minhae; Mahmood, Umar; Stufflebeam, Steven M; Schroeder, Frederick A; Wang, Changning; Roffman, Joshua L; Holt, Daphne J; Greve, Douglas N; Pasternak, Ofer; Kubicki, Marek; Wey, Hsiao-Ying; Hooker, Jacob M Nature communications. 31270332 2019 07 03;
Systematic discovery of conservation states for single-nucleotide annotation of the human genome. Arneson, Adriana; Ernst, Jason Communications biology. 31286065 2019;
Exploring genetic interaction manifolds constructed from rich single-cell phenotypes. Norman, Thomas M; Horlbeck, Max A; Replogle, Joseph M; Ge, Alex Y; Xu, Albert; Jost, Marco; Gilbert, Luke A; Weissman, Jonathan S Science (New York, N.Y.). 31395745 2019 08 23;
cindr, the Drosophila Homolog of the CD2AP Alzheimer's Disease Risk Gene, Is Required for Synaptic Transmission and Proteostasis. Ojelade, Shamsideen A; Lee, Tom V; Giagtzoglou, Nikolaos; Yu, Lei; Ugur, Berrak; Li, Yarong; Duraine, Lita; Zuo, Zhongyuan; Petyuk, Vlad; De Jager, Philip L; Bennett, David A; Arenkiel, Benjamin R; Bellen, Hugo J; Shulman, Joshua M Cell reports. 31412248 2019 Aug 13;
Using Transcriptomic Hidden Variables to Infer Context-Specific Genotype Effects in the Brain. Ng, Bernard; Casazza, William; Patrick, Ellis; Tasaki, Shinya; Novakovsky, Gherman; Felsky, Daniel; Ma, Yiyi; Bennett, David A; Gaiteri, Chris; De Jager, Philip L; Mostafavi, Sara American journal of human genetics 31447098 2019 Sep 05
Mitochondrial Damage and Activation of the STING Pathway Lead to Renal Inflammation and Fibrosis. Chung, Ki Wung; Dhillon, Poonam; Huang, Shizheng; Sheng, Xin; Shrestha, Rojesh; Qiu, Chengxiang; Kaufman, Brett A; Park, Jihwan; Pei, Liming; Baur, Joseph; Palmer, Matthew; Susztak, Katalin Cell metabolism. 31474566 2019 Oct 01;
Epigenetic signatures of methylated DNA cytosine in Alzheimer's disease. Fetahu, Irfete S; Ma, Dingailu; Rabidou, Kimberlie; Argueta, Christian; Smith, Michael; Liu, Hang; Wu, Feizhen; Shi, Yujiang G Science advances. 31489368 2019 Aug;
Understanding the kidney one cell at a time. Park, Jihwan; Liu, Chang Linda; Kim, Junhyong; Susztak, Katalin Kidney international. 31492507 2019 Oct;
A compendium of promoter-centered long-range chromatin interactions in the human genome. Jung, Inkyung; Schmitt, Anthony; Diao, Yarui; Lee, Andrew J; Liu, Tristin; Yang, Dongchan; Tan, Catherine; Eom, Junghyun; Chan, Marilynn; Chee, Sora; Chiang, Zachary; Kim, Changyoun; Masliah, Eliezer; Barr, Cathy L; Li, Bin; Kuan, Samantha; Kim, Dongsup; Ren, Bing Nature genetics. 31501517 2019 Oct;
Targeted transcriptional modulation with type I CRISPR-Cas systems in human cells. Pickar-Oliver, Adrian; Black, Joshua B; Lewis, Mae M; Mutchnick, Kevin J; Klann, Tyler S; Gilcrest, Kylie A; Sitton, Madeleine J; Nelson, Christopher E; Barrera, Alejandro; Bartelt, Luke C; Reddy, Timothy E; Beisel, Chase L; Barrangou, Rodolphe; Gersbach, Charles A Nature biotechnology. 31548729 2019 Sep 23;
Recapitulation and Reversal of Schizophrenia-Related Phenotypes in Setd1a-Deficient Mice. Mukai, Jun; Cannavò, Enrico; Crabtree, Gregg W; Sun, Ziyi; Diamantopoulou, Anastasia; Thakur, Pratibha; Chang, Chia-Yuan; Cai, Yifei; Lomvardas, Stavros; Takata, Atsushi; Xu, Bin; Gogos, Joseph A Neuron 31606247 2019 11 06
Bayesian shrinkage estimation of high dimensional causal mediation effects in omics studies. Song, Yanyi; Zhou, Xiang; Zhang, Min; Zhao, Wei; Liu, Yongmei; Kardia, Sharon L R; Roux, Ana V Diez; Needham, Belinda L; Smith, Jennifer A; Mukherjee, Bhramar Biometrics. 31733066 2019 Nov 16;
An integrative approach for fine-mapping chromatin interactions. Jaroszewicz, Artur; Ernst, Jason Bioinformatics (Oxford, England). 31742318 2020 03 01;
The epigenomic landscape of transposable elements across normal human development and anatomy. Pehrsson, Erica C; Choudhary, Mayank N K; Sundaram, Vasavi; Wang, Ting Nature communications. 31822674 2019 Dec 10;
Leveraging allelic imbalance to refine fine-mapping for eQTL studies. Zou, Jennifer; Hormozdiari, Farhad; Jew, Brandon; Castel, Stephane E; Lappalainen, Tuuli; Ernst, Jason; Sul, Jae Hoon; Eskin, Eleazar PLoS genetics. 31834882 2019 12;
Systematic underestimation of the epigenetic clock and age acceleration in older subjects. El Khoury, Louis Y; Gorrie-Stone, Tyler; Smart, Melissa; Hughes, Amanda; Bao, Yanchun; Andrayas, Alexandria; Burrage, Joe; Hannon, Eilis; Kumari, Meena; Mill, Jonathan; Schalkwyk, Leonard C Genome biology 31847916 2019 12 17
Loss of ELK1 has differential effects on age-dependent organ fibrosis. Cairns, Jennifer T; Habgood, Anthony; Edwards-Pritchard, Rochelle C; Joseph, Chitra; John, Alison E; Wilkinson, Chloe; Stewart, Iain D; Leslie, Jack; Blaxall, Burns C; Susztak, Katalin; Alberti, Siegfried; Nordheim, Alfred; Oakley, Fiona; Jenkins, Gisli; Tatler, Amanda L The international journal of biochemistry & cell biology 31877385 2020 03
IL-1 Transcriptional Responses to Lipopolysaccharides Are Regulated by a Complex of RNA Binding Proteins. Shi, Lihua; Song, Li; Maurer, Kelly; Dou, Ying; Patel, Vishesh R; Su, Chun; Leonard, Michelle E; Lu, Sumei; Hodge, Kenyaita M; Torres, Annabel; Chesi, Alessandra; Grant, Struan F A; Wells, Andrew D; Zhang, Zhe; Petri, Michelle A; Sullivan, Kathleen E Journal of immunology (Baltimore, Md. : 1950). 31953354 2020 Mar 01;
Co-opted transposons help perpetuate conserved higher-order chromosomal structures. Choudhary, Mayank Nk; Friedman, Ryan Z; Wang, Julia T; Jang, Hyo Sik; Zhuo, Xiaoyu; Wang, Ting Genome biology. 31973766 2020 01 24;
Psychosis-associated DNA methylomic variation in Alzheimer's disease cortex. Pishva, Ehsan; Creese, Byron; Smith, Adam R; Viechtbauer, Wolfgang; Proitsi, Petroula; van den Hove, Daniel L A; Ballard, Clive; Mill, Jonathan; Lunnon, Katie Neurobiology of aging. 32007278 2020 05;
Brain microRNAs associated with late-life depressive symptoms are also associated with cognitive trajectory and dementia. Wingo, Thomas S; Yang, Jingjing; Fan, Wen; Min Canon, Se; Gerasimov, Ekaterina Sergeevna; Lori, Adriana; Logsdon, Benjamin; Yao, Bing; Seyfried, Nicholas T; Lah, James J; Levey, Allan I; Boyle, Patricia A; Schneider, Julia A; De Jager, Philip L; Bennett, David A; Wingo, Aliza P NPJ genomic medicine. 32047652 2020;
Fitness effects of CRISPR/Cas9-targeting of long noncoding RNA genes. Horlbeck, Max A; Liu, S John; Chang, Howard Y; Lim, Daniel A; Weissman, Jonathan S Nature biotechnology 32094656 2020 05
Dnmt3a and Dnmt3b-Decommissioned Fetal Enhancers are Linked to Kidney Disease. Guan, Yuting; Liu, Hongbo; Ma, Ziyuan; Li, Szu-Yuan; Park, Jihwan; Sheng, Xin; Susztak, Katalin Journal of the American Society of Nephrology : JASN. 32127410 2020 04;
Shared Causal Paths underlying Alzheimer's dementia and Type 2 Diabetes. Hu, Zixin; Jiao, Rong; Wang, Panpan; Zhu, Yun; Zhao, Jinying; De Jager, Phil; Bennett, David A; Jin, Li; Xiong, Momiao Scientific reports 32139775 2020 Mar 05
Translation of HDAC6 PET Imaging Using [18F]EKZ-001-cGMP Production and Measurement of HDAC6 Target Occupancy in Nonhuman Primates. Celen, Sofie; Rokka, Johanna; Gilbert, Tonya M; Koole, Michel; Vermeulen, Isabeau; Serdons, Kim; Schroeder, Frederick A; Wagner, Florence F; Bleeser, Tom; Hightower, Baileigh G; Hu, Jiyun; Rahal, Dania; Beyzavi, M Hassan; Vanduffel, Wim; Van Laere, Koen; Kranz, Janice E; Hooker, Jacob M; Bormans, Guy; Cawthorne, Christopher J ACS chemical neuroscience 32159328 2020 04 01
RecV recombinase system for in vivo targeted optogenomic modifications of single cells or cell populations. Yao, Shenqin; Yuan, Peng; Ouellette, Ben; Zhou, Thomas; Mortrud, Marty; Balaram, Pooja; Chatterjee, Soumya; Wang, Yun; Daigle, Tanya L; Tasic, Bosiljka; Kuang, Xiuli; Gong, Hui; Luo, Qingming; Zeng, Shaoqun; Curtright, Andrew; Dhaka, Ajay; Kahan, Anat; Gradinaru, Viviana; Chrapkiewicz, Rados?aw; Schnitzer, Mark; Zeng, Hongkui; Cetin, Ali Nature methods. 32203389 2020 04;
Combinatorial single-cell CRISPR screens by direct guide RNA capture and targeted sequencing. Replogle, Joseph M; Norman, Thomas M; Xu, Albert; Hussmann, Jeffrey A; Chen, Jin; Cogan, J Zachery; Meer, Elliott J; Terry, Jessica M; Riordan, Daniel P; Srinivas, Niranjan; Fiddes, Ian T; Arthur, Joseph G; Alvarado, Luigi J; Pfeiffer, Katherine A; Mikkelsen, Tarjei S; Weissman, Jonathan S; Adamson, Britt Nature biotechnology. 32231336 2020 Mar 30;
Phenome-wide association analysis suggests the APOL1 linked disease spectrum primarily drives kidney-specific pathways. Bajaj, Archna; Ihegword, Andrea; Qiu, Chengxiang; Small, Aeron M; Wei, Wei-Qi; Bastarache, Lisa; Feng, QiPing; Kember, Rachel L; Risman, Marjorie; Bloom, Roy D; Birtwell, David L; Williams, Heather; Shaffer, Christian M; Chen, Jinbo; Center, Regeneron Genetics; Denny, Joshua C; Rader, Daniel J; Stein, C Michael; Damrauer, Scott M; Susztak, Katalin Kidney international. 32247630 2020 May;
Bayesian integrative analysis of epigenomic and transcriptomic data identifies Alzheimer's disease candidate genes and networks. Klein, Hans-Ulrich; Schäfer, Martin; Bennett, David A; Schwender, Holger; De Jager, Philip L PLoS computational biology. 32255787 2020 04;
DRAMS: A tool to detect and re-align mixed-up samples for integrative studies of multi-omics data. Jiang, Yi; Giase, Gina; Grennan, Kay; Shieh, Annie W; Xia, Yan; Han, Lide; Wang, Quan; Wei, Qiang; Chen, Rui; Liu, Sihan; White, Kevin P; Chen, Chao; Li, Bingshan; Liu, Chunyu PLoS computational biology. 32282793 2020 04;
Inference of single-cell phylogenies from lineage tracing data using Cassiopeia. Jones, Matthew G; Khodaverdian, Alex; Quinn, Jeffrey J; Chan, Michelle M; Hussmann, Jeffrey A; Wang, Robert; Xu, Chenling; Weissman, Jonathan S; Yosef, Nir Genome biology. 32290857 2020 04 14;
It Takes Two to Tango: The Role of Dysregulated Metabolism and Inflammation in Kidney Disease Development. Quinn, Ghazal Z; Dhillon, Poonam; Susztak, Katalin Seminars in nephrology. 32303282 2020 03;
Social regulation of inflammation related gene expression in the multi-ethnic study of atherosclerosis. Brown, Kristen M; Diez-Roux, Ana V; Smith, Jennifer A; Needham, Belinda L; Mukherjee, Bhramar; Ware, Erin B; Liu, Yongmei; Cole, Steven W; Seeman, Teresa E; Kardia, Sharon L R Psychoneuroendocrinology. 32387875 2020 07;
ASEP: Gene-based detection of allele-specific expression across individuals in a population by RNA sequencing. Fan, Jiaxin; Hu, Jian; Xue, Chenyi; Zhang, Hanrui; Susztak, Katalin; Reilly, Muredach P; Xiao, Rui; Li, Mingyao PLoS genetics. 32392242 2020 05;
The association between genetic variants in lactotransferrin and dental caries: a meta- and gene-based analysis. Li, Xueyan; Su, Yi; Liu, Di; Yang, Jingyun BMC medical genetics. 32460726 2020 May 27;
Low oxygen saturation during sleep reduces CD1D and RAB20 expressions that are reversed by CPAP therapy. Sofer, Tamar; Li, Ruitong; Joehanes, Roby; Lin, Honghuang; Gower, Adam C; Wang, Heming; Kurniansyah, Nuzulul; Cade, Brian E; Lee, Jiwon; Williams, Stephanie; Mehra, Reena; Patel, Sanjay R; Quan, Stuart F; Liu, Yongmei; Rotter, Jerome I; Rich, Stephen S; Spira, Avrum; Levy, Daniel; Gharib, Sina A; Redline, Susan; Gottlieb, Daniel J EBioMedicine 32512511 2020 Jun
Unravelling the complex genetics of common kidney diseases: from variants to mechanisms. Sullivan, Katie Marie; Susztak, Katalin Nature reviews. Nephrology. 32514149 2020 11;
The interdependence of renal epithelial and endothelial metabolism and cell state. Balzer, Michael S; Susztak, Katalin Science signaling 32518144 2020 06 09
Loss of IL-27Rα Results in Enhanced Tubulointerstitial Fibrosis Associated with Elevated Th17 Responses. Coppock, Gaia M; Aronson, Lillian R; Park, Jihwan; Qiu, Chengxiang; Park, Jeongho; DeLong, Jonathan H; Radaelli, Enrico; Suszták, Katalin; Hunter, Christopher A Journal of immunology (Baltimore, Md. : 1950) 32522836 2020 07 15
Whole Blood DNA Methylation Signatures of Diet Are Associated With Cardiovascular Disease Risk Factors and All-Cause Mortality. Ma, Jiantao; Rebholz, Casey M; Braun, Kim V E; Reynolds, Lindsay M; Aslibekyan, Stella; Xia, Rui; Biligowda, Niranjan G; Huan, Tianxiao; Liu, Chunyu; Mendelson, Michael M; Joehanes, Roby; Hu, Emily A; Vitolins, Mara Z; Wood, Alexis C; Lohman, Kurt; Ochoa-Rosales, Carolina; van Meurs, Joyce; Uitterlinden, Andre; Liu, Yongmei; Elhadad, Mohamed A; Heier, Margit; Waldenberger, Melanie; Peters, Annette; Colicino, Elena; Whitsel, Eric A; Baldassari, Antoine; Gharib, Sina A; Sotoodehnia, Nona; Brody, Jennifer A; Sitlani, Colleen M; Tanaka, Toshiko; Hill, W David; Corley, Janie; Deary, Ian J; Zhang, Yan; Schöttker, Ben; Brenner, Hermann; Walker, Maura E; Ye, Shumao; Nguyen, Steve; Pankow, Jim; Demerath, Ellen W; Zheng, Yinan; Hou, Lifang; Liang, Liming; Lichtenstein, Alice H; Hu, Frank B; Fornage, Myriam; Voortman, Trudy; Levy, Daniel Circulation. Genomic and precision medicine. 32525743 2020 Aug;
Discovery of 318 new risk loci for type 2 diabetes and related vascular outcomes among 1.4 million participants in a multi-ancestry meta-analysis. Vujkovic, Marijana; Keaton, Jacob M; Lynch, Julie A; Miller, Donald R; Zhou, Jin; Tcheandjieu, Catherine; Huffman, Jennifer E; Assimes, Themistocles L; Lorenz, Kimberly; Zhu, Xiang; Hilliard, Austin T; Judy, Renae L; Huang, Jie; Lee, Kyung M; Klarin, Derek; Pyarajan, Saiju; Danesh, John; Melander, Olle; Rasheed, Asif; Mallick, Nadeem H; Hameed, Shahid; Qureshi, Irshad H; Afzal, Muhammad Naeem; Malik, Uzma; Jalal, Anjum; Abbas, Shahid; Sheng, Xin; Gao, Long; Kaestner, Klaus H; Susztak, Katalin; Sun, Yan V; DuVall, Scott L; Cho, Kelly; Lee, Jennifer S; Gaziano, J Michael; Phillips, Lawrence S; Meigs, James B; Reaven, Peter D; Wilson, Peter W; Edwards, Todd L; Rader, Daniel J; Damrauer, Scott M; O'Donnell, Christopher J; Tsao, Philip S; HPAP Consortium; Regeneron Genetics Center; VA Million Veteran Program; Chang, Kyong-Mi; Voight, Benjamin F; Saleheen, Danish Nature genetics. 32541925 2020 07;
Pharmaceutical-Grade Rigosertib Is a Microtubule-Destabilizing Agent. Jost, Marco; Chen, Yuwen; Gilbert, Luke A; Horlbeck, Max A; Krenning, Lenno; Menchon, Grégory; Rai, Ankit; Cho, Min Y; Stern, Jacob J; Prota, Andrea E; Kampmann, Martin; Akhmanova, Anna; Steinmetz, Michel O; Tanenbaum, Marvin E; Weissman, Jonathan S Molecular cell. 32619469 2020 07 02;
Clinical validation of the novel HDAC6 radiotracer [18F]EKZ-001 in the human brain. Koole, Michel; Van Weehaeghe, Donatienne; Serdons, Kim; Herbots, Marissa; Cawthorne, Christopher; Celen, Sofie; Schroeder, Frederick A; Hooker, Jacob M; Bormans, Guy; de Hoon, Jan; Kranz, Janice E; Van Laere, Koen; Gilbert, Tonya M European journal of nuclear medicine and molecular imaging 32638097 2021 Feb
Transcriptional repression of PTEN in neural cells using CRISPR/dCas9 epigenetic editing. Moses, C; Hodgetts, S I; Nugent, F; Ben-Ary, G; Park, K K; Blancafort, P; Harvey, A R Scientific reports 32647121 2020 07 09
Deciphering cellular transcriptional alterations in Alzheimer's disease brains. Wang, Xue; Allen, Mariet; Li, Shaoyu; Quicksall, Zachary S; Patel, Tulsi A; Carnwath, Troy P; Reddy, Joseph S; Carrasquillo, Minerva M; Lincoln, Sarah J; Nguyen, Thuy T; Malphrus, Kimberly G; Dickson, Dennis W; Crook, Julia E; Asmann, Yan W; Ertekin-Taner, Nilüfer Molecular neurodegeneration. 32660529 2020 07 13;
Epigenomic programming in early fetal brain development. Li, Luolan; Maire, Cecile L; Bilenky, Misha; Carles, Annaïck; Heravi-Moussavi, Alireza; Hong, Chibo; Tam, Angela; Kamoh, Baljit; Cho, Stephanie; Cheung, Dorothy; Li, Irene; Wong, Tina; Nagarajan, Raman P; Mungall, Andrew J; Moore, Richard; Wang, Ting; Kleinman, Claudia L; Jabado, Nada; Jones, Steven Jm; Marra, Marco A; Ligon, Keith L; Costello, Joseph F; Hirst, Martin Epigenomics 32677466 2020 06
Association between DNA methylation levels in brain tissue and late-life depression in community-based participants. Hüls, Anke; Robins, Chloe; Conneely, Karen N; De Jager, Philip L; Bennett, David A; Epstein, Michael P; Wingo, Thomas S; Wingo, Aliza P Translational psychiatry. 32733030 2020 07 30;
Cell death and survival pathways in Alzheimer's disease: an integrative hypothesis testing approach utilizing -omic data sets. Brokaw, Danielle L; Piras, Ignazio S; Mastroeni, Diego; Weisenberger, Daniel J; Nolz, Jennifer; Delvaux, Elaine; Serrano, Geidy E; Beach, Thomas G; Huentelman, Matthew J; Coleman, Paul D Neurobiology of aging. 32745806 2020 Nov;
An epigenome-wide association study of Alzheimer's disease blood highlights robust DNA hypermethylation in the HOXB6 gene. Roubroeks, Janou A Y; Smith, Adam R; Smith, Rebecca G; Pishva, Ehsan; Ibrahim, Zina; Sattlecker, Martina; Hannon, Eilis J; K?oszewska, Iwona; Mecocci, Patrizia; Soininen, Hilkka; Tsolaki, Magda; Vellas, Bruno; Wahlund, Lars-Olof; Aarsland, Dag; Proitsi, Petroula; Hodges, Angela; Lovestone, Simon; Newhouse, Stephen J; Dobson, Richard J B; Mill, Jonathan; van den Hove, Daniël L A; Lunnon, Katie Neurobiology of aging. 32745807 2020 Nov;
Podocytopathies. Kopp, Jeffrey B; Anders, Hans-Joachim; Susztak, Katalin; Podestà, Manuel A; Remuzzi, Giuseppe; Hildebrandt, Friedhelm; Romagnani, Paola Nature reviews. Disease primers. 32792490 2020 08 13;
Enhancer RNAs predict enhancer-gene regulatory links and are critical for enhancer function in neuronal systems. Carullo, Nancy V N; Phillips Iii, Robert A; Simon, Rhiana C; Soto, Salomon A Roman; Hinds, Jenna E; Salisbury, Aaron J; Revanna, Jasmin S; Bunner, Kendra D; Ianov, Lara; Sultan, Faraz A; Savell, Katherine E; Gersbach, Charles A; Day, Jeremy J Nucleic acids research. 32810208 2020 09 25;
Integrative analyses prioritize GNL3 as a risk gene for bipolar disorder. Meng, Qingtuan; Wang, Le; Dai, Rujia; Wang, Jiawen; Ren, Zongyao; Liu, Sihan; Xia, Yan; Jiang, Yi; Duan, Fangyuan; Wang, Kangli; Liu, Chunyu; Chen, Chao Molecular psychiatry. 32826963 2020 11;
Integration of postmortem amygdala expression profiling, GWAS, and functional cell culture assays: neuroticism-associated synaptic vesicle glycoprotein 2A (SV2A) gene is regulated by miR-133a and miR-218. Jurkiewicz, Magdalena; Moser, Dirk; Koller, Antonius; Yu, Lei; Chen, Emily I; Bennett, David A; Canli, Turhan Translational psychiatry. 32839459 2020 08 24;
Cross-Species Analyses Identify Dlgap2 as a Regulator of Age-Related Cognitive Decline and Alzheimer's Dementia. Ouellette, Andrew R; Neuner, Sarah M; Dumitrescu, Logan; Anderson, Laura C; Gatti, Daniel M; Mahoney, Emily R; Bubier, Jason A; Churchill, Gary; Peters, Luanne; Huentelman, Matthew J; Herskowitz, Jeremy H; Yang, Hyun-Sik; Smith, Alexandra N; Reitz, Christiane; Kunkle, Brian W; White, Charles C; De Jager, Philip L; Schneider, Julie A; Bennett, David A; Seyfried, Nicholas T; Alzheimer?s Disease Genetics Consortium; Chesler, Elissa J; Hadad, Niran; Hohman, Timothy J; Kaczorowski, Catherine C Cell reports. 32877673 2020 Sep 01;
Stoichiometric analysis of protein complexes by cell fusion and single molecule imaging. Singh, Avtar; Van Slyke, Alexander L; Sirenko, Maria; Song, Alexander; Kammermeier, Paul J; Zipfel, Warren R Scientific reports. 32913201 2020 09 10;
Underlying features of epigenetic aging clocks in vivo and in vitro. Liu, Zuyun; Leung, Diana; Thrush, Kyra; Zhao, Wei; Ratliff, Scott; Tanaka, Toshiko; Schmitz, Lauren L; Smith, Jennifer A; Ferrucci, Luigi; Levine, Morgan E Aging cell. 32930491 2020 Oct;
DeepH&M: Estimating single-CpG hydroxymethylation and methylation levels from enrichment and restriction enzyme sequencing methods. He, Yu; Jang, Hyo Sik; Xing, Xiaoyun; Li, Daofeng; Vasek, Michael J; Dougherty, Joseph D; Wang, Ting Science advances. 32937429 2020 Jul;
The qBED track: a novel genome browser visualization for point processes. Moudgil, Arnav; Li, Daofeng; Hsu, Silas; Purushotham, Deepak; Wang, Ting; Mitra, Robi D Bioinformatics (Oxford, England). 32941613 2020 Sep 17;
Progress of artificial intelligence in diabetic retinopathy screening. Wang, Yue-Lin; Yang, Jing-Yun; Yang, Jing-Yuan; Zhao, Xin-Yu; Chen, You-Xin; Yu, Wei-Hong Diabetes/metabolism research and reviews. 33010796 2020 Oct 03;
An optogenetic switch for the Set2 methyltransferase provides evidence for transcription-dependent and -independent dynamics of H3K36 methylation. Lerner, Andrew M; Hepperla, Austin J; Keele, Gregory R; Meriesh, Hashem A; Yumerefendi, Hayretin; Restrepo, David; Zimmerman, Seth; Bear, James E; Kuhlman, Brian; Davis, Ian J; Strahl, Brian D Genome research. 33020206 2020 Nov;
Quantitative Kinetic Analyses of Histone Turnover Using Imaging and Flow Cytometry. Sato, Hanae; Singer, Robert H; Greally, John M Bio-protocol. 33043098 2020 Sep 05;
Insulin-sensitizing effects of vitamin D repletion mediated by adipocyte vitamin D receptor: Studies in humans and mice. Lontchi-Yimagou, Eric; Kang, Sona; Goyal, Akankasha; Zhang, Kehao; You, Jee Y; Carey, Michelle; Jain, Swati; Bhansali, Shobhit; Kehlenbrink, Sylvia; Guo, Peng; Rosen, Evan D; Kishore, Preeti; Hawkins, Meredith Molecular metabolism. 33045433 2020 Dec;
Cord blood DNA methylome in newborns later diagnosed with autism spectrum disorder reflects early dysregulation of neurodevelopmental and X-linked genes. Mordaunt, Charles E; Jianu, Julia M; Laufer, Benjamin I; Zhu, Yihui; Hwang, Hyeyeon; Dunaway, Keith W; Bakulski, Kelly M; Feinberg, Jason I; Volk, Heather E; Lyall, Kristen; Croen, Lisa A; Newschaffer, Craig J; Ozonoff, Sally; Hertz-Picciotto, Irva; Fallin, M Daniele; Schmidt, Rebecca J; LaSalle, Janine M Genome medicine. 33054850 2020 10 14;
Mismatch-CRISPRi Reveals the Co-varying Expression-Fitness Relationships of Essential Genes in Escherichia coli and Bacillus subtilis. Hawkins, John S; Silvis, Melanie R; Koo, Byoung-Mo; Peters, Jason M; Osadnik, Hendrik; Jost, Marco; Hearne, Cameron C; Weissman, Jonathan S; Todor, Horia; Gross, Carol A Cell systems. 33080209 2020 Nov 18;
Mendelian randomization integrating GWAS and mQTL data identified novel pleiotropic DNA methylation loci for neuropathology of Alzheimer's disease. Liu, Di; Wang, Youxin; Jing, Huiquan; Meng, Qun; Yang, Jingyun Neurobiology of aging. 33120085 2021 Jan;
The transcriptomic signature of the aging podocyte. Mukhi, Dhanunjay; Susztak, Katalin Kidney international. 33126968 2020 11;
Systematic integrated analysis of genetic and epigenetic variation in diabetic kidney disease. Sheng, Xin; Qiu, Chengxiang; Liu, Hongbo; Gluck, Caroline; Hsu, Jesse Y; He, Jiang; Hsu, Chi-Yuan; Sha, Daohang; Weir, Matthew R; Isakova, Tamara; Raj, Dominic; Rincon-Choles, Hernan; Feldman, Harold I; Townsend, Raymond; Li, Hongzhe; Susztak, Katalin Proceedings of the National Academy of Sciences of the United States of America. 33144501 2020 Nov 17;
Epigenome engineering: new technologies for precision medicine. Sgro, Agustin; Blancafort, Pilar Nucleic acids research 33196851 2020 12 16
A map of cis-regulatory elements and 3D genome structures in zebrafish. Yang, Hongbo; Luan, Yu; Liu, Tingting; Lee, Hyung Joo; Fang, Li; Wang, Yanli; Wang, Xiaotao; Zhang, Bo; Jin, Qiushi; Ang, Khai Chung; Xing, Xiaoyun; Wang, Juan; Xu, Jie; Song, Fan; Sriranga, Iyyanki; Khunsriraksakul, Chachrit; Salameh, Tarik; Li, Daofeng; Nature. 33239788 2020 Dec;
Mendelian randomization analysis identified genes pleiotropically associated with the risk and prognosis of COVID-19. Liu, Di; Yang, Jingyun; Feng, Bowen; Lu, Wenjin; Zhao, Chuntao; Li, Lizhuo The Journal of infection 33259846 2021 01
Master Regulators and Cofactors of Human Neuronal Cell Fate Specification Identified by CRISPR Gene Activation Screens. Black, Joshua B; McCutcheon, Sean R; Dube, Shataakshi; Barrera, Alejandro; Klann, Tyler S; Rice, Grayson A; Adkar, Shaunak S; Soderling, Scott H; Reddy, Timothy E; Gersbach, Charles A Cell reports. 33264623 2020 Dec 01;
Identification and characterization of constrained non-exonic bases lacking predictive epigenomic and transcription factor binding annotations. Grujic, Olivera; Phung, Tanya N; Kwon, Soo Bin; Arneson, Adriana; Lee, Yuju; Lohmueller, Kirk E; Ernst, Jason Nature communications. 33268804 2020 12 02;
The Nuclear Receptor ESRRA Protects from Kidney Disease by Coupling Metabolism and Differentiation. Dhillon, Poonam; Park, Jihwan; Hurtado Del Pozo, Carmen; Li, Lingzhi; Doke, Tomohito; Huang, Shizheng; Zhao, Juanjuan; Kang, Hyun Mi; Shrestra, Rojesh; Balzer, Michael S; Chatterjee, Shatakshee; Prado, Patricia; Han, Seung Yub; Liu, Hongbo; Sheng, Xin; Dierickx, Pieterjan; Batmanov, Kirill; Romero, Juan P; Prósper, Felipe; Li, Mingyao; Pei, Liming; Kim, Junhyong; Montserrat, Nuria; Susztak, Katalin Cell metabolism 33301705 2021 Feb 02
Kidney disease genetic risk variants alter lysosomal beta-mannosidase (MANBA) expression and disease severity. Gu, Xiangchen; Yang, Hongliu; Sheng, Xin; Ko, Yi-An; Qiu, Chengxiang; Park, Jihwan; Huang, Shizheng; Kember, Rachel; Judy, Renae L; Park, Joseph; Damrauer, Scott M; Nadkarni, Girish; Loos, Ruth J F; My, Vy Thi Ha; Chaudhary, Kumardeep; Bottinger, Erwin P; Paranjpe, Ishan; Saha, Aparna; Brown, Christopher; Akilesh, Shreeram; Hung, Adriana M; Palmer, Matthew; Baras, Aris; Overton, John D; Reid, Jeffrey; Ritchie, Marylyn; Rader, Daniel J; Susztak, Katalin Science translational medicine 33441424 2021 Jan 13
Renal tubule Cpt1a overexpression protects from kidney fibrosis by restoring mitochondrial homeostasis. Miguel, Verónica; Tituaña, Jessica; Herrero, J Ignacio; Herrero, Laura; Serra, Dolors; Cuevas, Paula; Barbas, Coral; Puyol, Diego Rodríguez; Márquez-Expósito, Laura; Ruiz-Ortega, Marta; Castillo, Carolina; Sheng, Xin; Susztak, Katalin; Ruiz-Canela, Miguel; Salas-Salvadó, Jordi; González, Miguel A Martínez; Ortega, Sagrario; Ramos, Ricardo; Lamas, Santiago The Journal of clinical investigation 33465052 2021 Mar 01
Single-cell lineages reveal the rates, routes, and drivers of metastasis in cancer xenografts. Quinn, Jeffrey J; Jones, Matthew G; Okimoto, Ross A; Nanjo, Shigeki; Chan, Michelle M; Yosef, Nir; Bivona, Trever G; Weissman, Jonathan S Science (New York, N.Y.) 33479121 2021 02 26
Characteristics of Epigenetic Clocks Across Blood and Brain Tissue in Older Women and Men. Grodstein, Francine; Lemos, Bernardo; Yu, Lei; Iatrou, Artemis; De Jager, Philip L; Bennett, David A Frontiers in neuroscience 33488342 2020
FOS licenses early events in stem cell activation driving skeletal muscle regeneration. Almada, Albert E; Horwitz, Naftali; Price, Feodor D; Gonzalez, Alfredo E; Ko, Michelle; Bolukbasi, Ozge Vargel; Messemer, Kathleen A; Chen, Sonia; Sinha, Manisha; Rubin, Lee L; Wagers, Amy J Cell reports 33503437 2021 01 26
Urinary Single-Cell Profiling Captures the Cellular Diversity of the Kidney. Abedini, Amin; Zhu, Yuan O; Chatterjee, Shatakshee; Halasz, Gabor; Devalaraja-Narashimha, Kishor; Shrestha, Rojesh; S. Balzer, Michael; Park, Jihwan; Zhou, Tong; Ma, Ziyuan; Sullivan, Katie Marie; Hu, Hailong; Sheng, Xin; Liu, Hongbo; Wei, Yi; Boustany-Kari, Carine M; Patel, Uptal; Almaani, Salem; Palmer, Matthew; Townsend, Raymond; Blady, Shira; Hogan, Jonathan; TRIDENT Study Investigators,; Morton, Lori; Susztak, Katalin; TRIDENT Study Investigators Journal of the American Society of Nephrology : JASN 33531352 2021 03
Genetic control of the human brain proteome. Robins, Chloe; Liu, Yue; Fan, Wen; Duong, Duc M; Meigs, Jacob; Harerimana, Nadia V; Gerasimov, Ekaterina S; Dammer, Eric B; Cutler, David J; Beach, Thomas G; Reiman, Eric M; De Jager, Philip L; Bennett, David A; Lah, James J; Wingo, Aliza P; Levey, Allan I; Seyfried, Nicholas T; Wingo, Thomas S American journal of human genetics 33571421 2021 03 04
Creatine kinase B controls futile creatine cycling in thermogenic fat. Rahbani, Janane F; Roesler, Anna; Hussain, Mohammed F; Samborska, Bozena; Dykstra, Christien B; Tsai, Linus; Jedrychowski, Mark P; Vergnes, Laurent; Reue, Karen; Spiegelman, Bruce M; Kazak, Lawrence Nature 33597756 2021 02
Increased Alu RNA processing in Alzheimer brains is linked to gene expression changes. Cheng, Yubo; Saville, Luke; Gollen, Babita; Veronesi, Ana Alvarez; Mohajerani, Majid; Joseph, Jeffrey T; Zovoilis, Athanasios EMBO reports 33645898 2021 05 05
AP-1 subunits converge promiscuously at enhancers to potentiate transcription. Seo, Jungkyun; Koçak, D Dewran; Bartelt, Luke C; Williams, Courtney A; Barrera, Alejandro; Gersbach, Charles A; Reddy, Timothy E Genome research 33674350 2021 04
Monitoring Recessions: A Bayesian Sequential Quickest Detection Method. Li, Haixi; Sheng, Xuguang Simon; Yang, Jingyun International journal of forecasting 33716367 2021 Apr-Jun
The oncogene AAMDC links PI3K-AKT-mTOR signaling with metabolic reprograming in estrogen receptor-positive breast cancer. Golden, Emily; Rashwan, Rabab; Woodward, Eleanor A; Sgro, Agustin; Wang, Edina; Sorolla, Anabel; Waryah, Charlene; Tie, Wan Jun; Cuyàs, Elisabet; Ratajska, Magdalena; Kardaś, Iwona; Kozlowski, Piotr; Johnstone, Elizabeth K M; See, Heng B; Duffy, Ciara; Parry, Jeremy; Lagerborg, Kim A; Czapiewski, Piotr; Menendez, Javier A; Gorczyński, Adam; Wasag, Bartosz; Pfleger, Kevin D G; Curtis, Christina; Lee, Bum-Kyu; Kim, Jonghwan; Cursons, Joseph; Pavlos, Nathan J; Biernat, Wojciech; Jain, Mohit; Woo, Andrew J; Redfern, Andrew; Blancafort, Pilar Nature communications 33772001 2021 03 26
Enhancer viruses for combinatorial cell-subclass-specific labeling. Graybuck, Lucas T; Daigle, Tanya L; Sedeño-Cortés, Adriana E; Walker, Miranda; Kalmbach, Brian; Lenz, Garreck H; Morin, Elyse; Nguyen, Thuc Nghi; Garren, Emma; Bendrick, Jacqueline L; Kim, Tae Kyung; Zhou, Thomas; Mortrud, Marty; Yao, Shenqin; Siverts, La' Akea; Larsen, Rachael; Gore, Bryan B; Szelenyi, Eric R; Trader, Cameron; Balaram, Pooja; van Velthoven, Cindy T J; Chiang, Megan; Mich, John K; Dee, Nick; Goldy, Jeff; Cetin, Ali H; Smith, Kimberly; Way, Sharon W; Esposito, Luke; Yao, Zizhen; Gradinaru, Viviana; Sunkin, Susan M; Lein, Ed; Levi, Boaz P; Ting, Jonathan T; Zeng, Hongkui; Tasic, Bosiljka Neuron 33789083 2021 May 05
Functional enhancer elements drive subclass-selective expression from mouse to primate neocortex. Mich, John K; Graybuck, Lucas T; Hess, Erik E; Mahoney, Joseph T; Kojima, Yoshiko; Ding, Yi; Somasundaram, Saroja; Miller, Jeremy A; Kalmbach, Brian E; Radaelli, Cristina; Gore, Bryan B; Weed, Natalie; Omstead, Victoria; Bishaw, Yemeserach; Shapovalova, Nadiya V; Martinez, Refugio A; Fong, Olivia; Yao, Shenqin; Mortrud, Marty; Chong, Peter; Loftus, Luke; Bertagnolli, Darren; Goldy, Jeff; Casper, Tamara; Dee, Nick; Opitz-Araya, Ximena; Cetin, Ali; Smith, Kimberly A; Gwinn, Ryder P; Cobbs, Charles; Ko, Andrew L; Ojemann, Jeffrey G; Keene, C Dirk; Silbergeld, Daniel L; Sunkin, Susan M; Gradinaru, Viviana; Horwitz, Gregory D; Zeng, Hongkui; Tasic, Bosiljka; Lein, Ed S; Ting, Jonathan T; Levi, Boaz P Cell reports 33789096 2021 Mar 30
APOL1 at 10 years: progress and next steps. Freedman, Barry I; Kopp, Jeffrey B; Sampson, Matthew G; Susztak, Katalin Kidney international 33794228 2021 06
Maternal blood metal concentrations and whole blood DNA methylation during pregnancy in the Early Autism Risk Longitudinal Investigation (EARLI). Aung, Max T; M Bakulski, Kelly; Feinberg, Jason I; F Dou, John; D Meeker, John; Mukherjee, Bhramar; Loch-Caruso, Rita; Ladd-Acosta, Christine; Volk, Heather E; Croen, Lisa A; Hertz-Picciotto, Irva; Newschaffer, Craig J; Fallin, M Daniele Epigenetics 33794742 2022 03
The histone modification H3K4me3 is altered at the ANK1 locus in Alzheimer's disease brain. Smith, Adam R; Smith, Rebecca G; Macdonald, Ruby; Marzi, Sarah J; Burrage, Joe; Troakes, Claire; Al-Sarraj, Safa; Mill, Jonathan; Lunnon, Katie Future science OA 33815817 2021 Feb 09
Epigenome-wide analysis of long-term air pollution exposure and DNA methylation in monocytes: results from the Multi-Ethnic Study of Atherosclerosis. C Chi, Gloria; Liu, Yongmei; MacDonald, James W; M Reynolds, Lindsay; Enquobahrie, Daniel A; L Fitzpatrick, Annette; Kerr, Kathleen F; J Budoff, Matthew; Lee, Su-In; Siscovick, David; D Kaufman, Joel Epigenetics 33818294 2022 03
Bayesian estimation of cell type-specific gene expression with prior derived from single-cell data. Wang, Jiebiao; Roeder, Kathryn; Devlin, Bernie Genome research 33837133 2021 10
Brain DNA Methylation Patterns in CLDN5 Associated With Cognitive Decline. Hüls, Anke; Robins, Chloe; Conneely, Karen N; Edgar, Rachel; De Jager, Philip L; Bennett, David A; Wingo, Aliza P; Epstein, Michael P; Wingo, Thomas S Biological psychiatry 33838873 2021 Feb 03
Single cell regulatory landscape of the mouse kidney highlights cellular differentiation programs and disease targets. Miao, Zhen; Balzer, Michael S; Ma, Ziyuan; Liu, Hongbo; Wu, Junnan; Shrestha, Rojesh; Aranyi, Tamas; Kwan, Amy; Kondo, Ayano; Pontoglio, Marco; Kim, Junhyong; Li, Mingyao; Kaestner, Klaus H; Susztak, Katalin Nature communications 33859189 2021 Apr 15
Human placental cytotrophoblast epigenome dynamics over gestation and alterations in placental disease. Zhang, Bo; Kim, M Yvonne; Elliot, GiNell; Zhou, Yan; Zhao, Guangfeng; Li, Daofeng; Lowdon, Rebecca F; Gormley, Matthew; Kapidzic, Mirhan; Robinson, Joshua F; McMaster, Michael T; Hong, Chibo; Mazor, Tali; Hamilton, Emily; Sears, Renee L; Pehrsson, Erica C; Marra, Marco A; Jones, Steven J M; Bilenky, Misha; Hirst, Martin; Wang, Ting; Costello, Joseph F; Fisher, Susan J Developmental cell 33891899 2021 May 03
Identification of cell-type-specific marker genes from co-expression patterns in tissue samples. Qiu, Yixuan; Wang, Jiebiao; Lei, Jing; Roeder, Kathryn Bioinformatics (Oxford, England) 33904573 2021 Apr 27
Transcriptome prediction performance across machine learning models and diverse ancestries. Okoro, Paul C; Schubert, Ryan; Guo, Xiuqing; Johnson, W Craig; Rotter, Jerome I; Hoeschele, Ina; Liu, Yongmei; Im, Hae Kyung; Luke, Amy; Dugas, Lara R; Wheeler, Heather E HGG advances 33937878 2021 Apr 08
Transcriptome-wide association analysis identifies DACH1 as a kidney disease risk gene that contributes to fibrosis. Doke, Tomohito; Huang, Shizheng; Qiu, Chengxiang; Liu, Hongbo; Guan, Yuting; Hu, Hailong; Ma, Ziyuan; Wu, Junnan; Miao, Zhen; Sheng, Xin; Zhou, Jianfu; Cao, Aili; Li, Jianhua; Kaufman, Lewis; Hung, Adriana; Brown, Christopher D; Pestell, Richard; Susztak, Katalin The Journal of clinical investigation 33998598 2021 May 17
Genome-wide analysis identifies a novel LINC-PINT splice variant associated with vascular amyloid pathology in Alzheimer's disease. Reddy, Joseph S; Allen, Mariet; Ho, Charlotte C G; Oatman, Stephanie R; İş, Özkan; Quicksall, Zachary S; Wang, Xue; Jin, Jiangli; Patel, Tulsi A; Carnwath, Troy P; Nguyen, Thuy T; Malphrus, Kimberly G; Lincoln, Sarah J; Carrasquillo, Minerva M; Crook, Julia E; Kanekiyo, Takahisa; Murray, Melissa E; Bu, Guojun; Dickson, Dennis W; Ertekin-Taner, Nilüfer Acta neuropathologica communications 34020725 2021 05 21
Common DNA methylation dynamics in endometriod adenocarcinoma and glioblastoma suggest universal epigenomic alterations in tumorigenesis. Karlow, Jennifer A; Miao, Benpeng; Xing, Xiaoyun; Wang, Ting; Zhang, Bo Communications biology 34021236 2021 May 21
NEBULA is a fast negative binomial mixed model for differential or co-expression analysis of large-scale multi-subject single-cell data. He, Liang; Davila-Velderrain, Jose; Sumida, Tomokazu S; Hafler, David A; Kellis, Manolis; Kulminski, Alexander M Communications biology 34040149 2021 May 26
A meta-analysis of epigenome-wide association studies in Alzheimer's disease highlights novel differentially methylated loci across cortex. Smith, Rebecca G; Pishva, Ehsan; Shireby, Gemma; Smith, Adam R; Roubroeks, Janou A Y; Hannon, Eilis; Wheildon, Gregory; Mastroeni, Diego; Gasparoni, Gilles; Riemenschneider, Matthias; Giese, Armin; Sharp, Andrew J; Schalkwyk, Leonard; Haroutunian, Vahram; Viechtbauer, Wolfgang; van den Hove, Daniel L A; Weedon, Michael; Brokaw, Danielle; Francis, Paul T; Thomas, Alan J; Love, Seth; Morgan, Kevin; Walter, Jörn; Coleman, Paul D; Bennett, David A; De Jager, Philip L; Mill, Jonathan; Lunnon, Katie Nature communications 34112773 2021 06 10
The association of epigenetic clocks in brain tissue with brain pathologies and common aging phenotypes. Grodstein, Francine; Lemos, Bernardo; Yu, Lei; Klein, Hans-Ulrich; Iatrou, Artemis; Buchman, Aron S; Shireby, Gemma L; Mill, Jonathan; Schneider, Julie A; De Jager, Philip L; Bennett, David A Neurobiology of disease 34153464 2021 09
Unbiased Analysis of Temporal Changes in Immune Serum Markers in Acute COVID-19 Infection With Emphasis on Organ Failure, Anti-Viral Treatment, and Demographic Characteristics. Laudanski, Krzysztof; Jihane, Hajj; Antalosky, Brook; Ghani, Danyal; Phan, Uyen; Hernandez, Ruth; Okeke, Tony; Wu, Junnan; Rader, Daniel; Susztak, Katalin Frontiers in immunology 34177897 2021
The Socioeconomic Gradient in Epigenetic Ageing Clocks: Evidence from the Multi-Ethnic Study of Atherosclerosis and the Health and Retirement Study. Schmitz, Lauren L; Zhao, Wei; Ratliff, Scott M; Goodwin, Julia; Miao, Jiacheng; Lu, Qiongshi; Guo, Xiuqing; Taylor, Kent D; Ding, Jingzhong; Liu, Yongmei; Levine, Morgan; Smith, Jennifer A Epigenetics 34227900 2022 Jun
Association of Coding Variants in Hydroxysteroid 17-beta Dehydrogenase 14 (HSD17B14) with Reduced Progression to End Stage Kidney Disease in Type 1 Diabetes. Mychaleckyj, Josyf C; Valo, Erkka; Ichimura, Takaharu; Ahluwalia, Tarunveer S; Dina, Christian; Miller, Rachel G; Shabalin, Ivan G; Gyorgy, Beata; Cao, JingJing; Onengut-Gumuscu, Suna; Satake, Eiichiro; Smiles, Adam M; Haukka, Jani K; Tregouet, David-Alexandre; Costacou, Tina; O'Neil, Kristina; Paterson, Andrew D; Forsblom, Carol; Keenan, Hillary A; Pezzolesi, Marcus G; Pragnell, Marlon; Galecki, Andrzej; Rich, Stephen S; Sandholm, Niina; Klein, Ronald; Klein, Barbara E; Susztak, Katalin; Orchard, Trevor J; Korstanje, Ron; King, George L; Hadjadj, Samy; Rossing, Peter; Bonventre, Joseph V; Groop, Per-Henrik; Warram, James H; Krolewski, Andrzej S Journal of the American Society of Nephrology : JASN 34261756 2021 10
A machine learning approach to brain epigenetic analysis reveals kinases associated with Alzheimer's disease. Huang, Yanting; Sun, Xiaobo; Jiang, Huige; Yu, Shaojun; Robins, Chloe; Armstrong, Matthew J; Li, Ronghua; Mei, Zhen; Shi, Xiaochuan; Gerasimov, Ekaterina Sergeevna; De Jager, Philip L; Bennett, David A; Wingo, Aliza P; Jin, Peng; Wingo, Thomas S; Qin, Zhaohui S Nature communications 34294691 2021 Jul 22
Transgenic mice for in vivo epigenome editing with CRISPR-based systems. Gemberling, Matthew P; Siklenka, Keith; Rodriguez, Erica; Tonn-Eisinger, Katherine R; Barrera, Alejandro; Liu, Fang; Kantor, Ariel; Li, Liqing; Cigliola, Valentina; Hazlett, Mariah F; Williams, Courtney A; Bartelt, Luke C; Madigan, Victoria J; Bodle, Josephine C; Daniels, Heather; Rouse, Douglas C; Hilton, Isaac B; Asokan, Aravind; Ciofani, Maria; Poss, Kenneth D; Reddy, Timothy E; West, Anne E; Gersbach, Charles A Nature methods 34341582 2021 08
Isthmin-1 is an adipokine that promotes glucose uptake and improves glucose tolerance and hepatic steatosis. Jiang, Zewen; Zhao, Meng; Voilquin, Laetitia; Jung, Yunshin; Aikio, Mari A; Sahai, Tanushi; Dou, Florence Y; Roche, Alexander M; Carcamo-Orive, Ivan; Knowles, Joshua W; Wabitsch, Martin; Appel, Eric A; Maikawa, Caitlin L; Camporez, Joao Paulo; Shulman, Gerald I; Tsai, Linus; Rosen, Evan D; Gardner, Christopher D; Spiegelman, Bruce M; Svensson, Katrin J Cell metabolism 34348115 2021 Sep 07
Renal Histologic Analysis Provides Complementary Information to Kidney Function Measurement for Patients with Early Diabetic or Hypertensive Disease. Quinn, Ghazal Z; Abedini, Amin; Liu, Hongbo; Ma, Ziyuan; Cucchiara, Andrew; Havasi, Andrea; Hill, Jon; Palmer, Matthew B; Susztak, Katalin Journal of the American Society of Nephrology : JASN 34348909 2021 Nov
Transcriptome-Wide Association Study of Blood Cell Traits in African Ancestry and Hispanic/Latino Populations. Wen, Jia; Xie, Munan; Rowland, Bryce; Rosen, Jonathan D; Sun, Quan; Chen, Jiawen; Tapia, Amanda L; Qian, Huijun; Kowalski, Madeline H; Shan, Yue; Young, Kristin L; Graff, Marielisa; Argos, Maria; Avery, Christy L; Bien, Stephanie A; Buyske, Steve; Yin, Jie; Choquet, Hélène; Fornage, Myriam; Hodonsky, Chani J; Jorgenson, Eric; Kooperberg, Charles; Loos, Ruth J F; Liu, Yongmei; Moon, Jee-Young; North, Kari E; Rich, Stephen S; Rotter, Jerome I; Smith, Jennifer A; Zhao, Wei; Shang, Lulu; Wang, Tao; Zhou, Xiang; Reiner, Alexander P; Raffield, Laura M; Li, Yun Genes 34356065 2021 Jul 08
Mapping the genetic architecture of human traits to cell types in the kidney identifies mechanisms of disease and potential treatments. Sheng, Xin; Guan, Yuting; Ma, Ziyuan; Wu, Junnan; Liu, Hongbo; Qiu, Chengxiang; Vitale, Steven; Miao, Zhen; Seasock, Matthew J; Palmer, Matthew; Shin, Myung K; Duffin, Kevin L; Pullen, Steven S; Edwards, Todd L; Hellwege, Jacklyn N; Hung, Adriana M; Li, Mingyao; Voight, Benjamin F; Coffman, Thomas M; Brown, Christopher D; Susztak, Katalin Nature genetics 34385711 2021 09
EPIGENOMIC FEATURES RELATED TO MICROGLIA ARE ASSOCIATED WITH ATTENUATED EFFECT OF APOE ε4 ON ALZHEIMER'S DISEASE RISK IN HUMANS. Ma, Yiyi; Yu, Lei; Olah, Marta; Smith, Rebecca; Oatman, Stephanie R; Allen, Mariet; Pishva, Ehsan; Zhang, Bin; Menon, Vilas; Ertekin-Taner, Nilüfer; Lunnon, Katie; Bennett, David A; Klein, Hans-Ulrich; De Jager, Philip L Alzheimer's & dementia : the journal of the Alzheimer's Association 34393677 2020 12
Virus Infection Induces Keap1 Binding to Cytokine Genes, Which Recruits NF-κB p50 and G9a-GLP and Represses Cytokine Transcription. Burns, Veronica Elizabeth; Kerppola, Tom Klaus Journal of immunology (Baltimore, Md. : 1950) 34400522 2021 09 01
Bayesian hierarchical models for high-dimensional mediation analysis with coordinated selection of correlated mediators. Song, Yanyi; Zhou, Xiang; Kang, Jian; Aung, Max T; Zhang, Min; Zhao, Wei; Needham, Belinda L; Kardia, Sharon L R; Liu, Yongmei; Meeker, John D; Smith, Jennifer A; Mukherjee, Bhramar Statistics in medicine 34404112 2021 11 30
A single genetic locus controls both expression of DPEP1/CHMP1A and kidney disease development via ferroptosis. Guan, Yuting; Liang, Xiujie; Ma, Ziyuan; Hu, Hailong; Liu, Hongbo; Miao, Zhen; Linkermann, Andreas; Hellwege, Jacklyn N; Voight, Benjamin F; Susztak, Katalin Nature communications 34426578 2021 08 23
Manipulating the NKG2D Receptor-Ligand Axis Using CRISPR: Novel Technologies for Improved Host Immunity. Alves, Eric; McLeish, Emily; Blancafort, Pilar; Coudert, Jerome D; Gaudieri, Silvana Frontiers in immunology 34456921 2021
Novel DNA methylation loci and genes showing pleiotropic association with Alzheimer's dementia: a network Mendelian randomization analysis. Liu, Di; Wang, Youxin; Jing, Huiquan; Meng, Qun; Yang, Jingyun Epigenetics 34461811 2022 Jun-Jul
Epigenomic features related to microglia are associated with attenuated effect of APOE ε4 on Alzheimer's disease risk in humans. Ma, Yiyi; Yu, Lei; Olah, Marta; Smith, Rebecca; Oatman, Stephanie R; Allen, Mariet; Pishva, Ehsan; Zhang, Bin; Menon, Vilas; Ertekin-Taner, Nilüfer; Lunnon, Katie; Bennett, David A; Klein, Hans-Ulrich; De Jager, Philip L Alzheimer's & dementia : the journal of the Alzheimer's Association 34482628 2021 Sep 05
Rare variants in the endocytic pathway are associated with Alzheimer's disease, its related phenotypes, and functional consequences. Zhan, Lingyu; Li, Jiajin; Jew, Brandon; Sul, Jae Hoon PLoS genetics 34516545 2021 Sep
Signature morpho-electric, transcriptomic, and dendritic properties of human layer 5 neocortical pyramidal neurons. Kalmbach, Brian E; Hodge, Rebecca D; Jorstad, Nikolas L; Owen, Scott; de Frates, Rebecca; Yanny, Anna Marie; Dalley, Rachel; Mallory, Matt; Graybuck, Lucas T; Radaelli, Cristina; Keene, C Dirk; Gwinn, Ryder P; Silbergeld, Daniel L; Cobbs, Charles; Ojemann, Jeffrey G; Ko, Andrew L; Patel, Anoop P; Ellenbogen, Richard G; Bakken, Trygve E; Daigle, Tanya L; Dee, Nick; Lee, Brian R; McGraw, Medea; Nicovich, Philip R; Smith, Kimberly; Sorensen, Staci A; Tasic, Bosiljka; Zeng, Hongkui; Koch, Christof; Lein, Ed S; Ting, Jonathan T Neuron 34534454 2021 09 15
Olfactory Bulb and Amygdala Gene Expression Changes in Subjects Dying with COVID-19. Piras, Ignazio S; Huentelman, Matthew J; Walker, Jessica E; Arce, Richard; Glass, Michael J; Vargas, Daisy; Sue, Lucia I; Intorcia, Anthony J; Nelson, Courtney M; Suszczewicz, Katsuko E; Borja, Claryssa L; Desforges, Marc; Deture, Michael; Dickson, Dennis W; Beach, Thomas G; Serrano, Geidy E medRxiv : the preprint server for health sciences 34545375 2021 Sep 15
Longitudinal urinary biomarkers of immunological activation in covid-19 patients without clinically apparent kidney disease versus acute and chronic failure. Laudanski, Krzysztof; Okeke, Tony; Jihane, Hajj; Siddiq, Kumal; Rader, Daniel J; Wu, Junnan; Susztak, Katalin Scientific reports 34608231 2021 10 04
Comparative cellular analysis of motor cortex in human, marmoset and mouse. Bakken, Trygve E; Jorstad, Nikolas L; Hu, Qiwen; Lake, Blue B; Tian, Wei; Kalmbach, Brian E; Crow, Megan; Hodge, Rebecca D; Krienen, Fenna M; Sorensen, Staci A; Eggermont, Jeroen; Yao, Zizhen; Aevermann, Brian D; Aldridge, Andrew I; Bartlett, Anna; Bertagnolli, Darren; Casper, Tamara; Castanon, Rosa G; Crichton, Kirsten; Daigle, Tanya L; Dalley, Rachel; Dee, Nick; Dembrow, Nikolai; Diep, Dinh; Ding, Song-Lin; Dong, Weixiu; Fang, Rongxin; Fischer, Stephan; Goldman, Melissa; Goldy, Jeff; Graybuck, Lucas T; Herb, Brian R; Hou, Xiaomeng; Kancherla, Jayaram; Kroll, Matthew; Lathia, Kanan; van Lew, Baldur; Li, Yang Eric; Liu, Christine S; Liu, Hanqing; Lucero, Jacinta D; Mahurkar, Anup; McMillen, Delissa; Miller, Jeremy A; Moussa, Marmar; Nery, Joseph R; Nicovich, Philip R; Niu, Sheng-Yong; Orvis, Joshua; Osteen, Julia K; Owen, Scott; Palmer, Carter R; Pham, Thanh; Plongthongkum, Nongluk; Poirion, Olivier; Reed, Nora M; Rimorin, Christine; Rivkin, Angeline; Romanow, William J; Sedeño-Cortés, Adriana E; Siletti, Kimberly; Somasundaram, Saroja; Sulc, Josef; Tieu, Michael; Torkelson, Amy; Tung, Herman; Wang, Xinxin; Xie, Fangming; Yanny, Anna Marie; Zhang, Renee; Ament, Seth A; Behrens, M Margarita; Bravo, Hector Corrada; Chun, Jerold; Dobin, Alexander; Gillis, Jesse; Hertzano, Ronna; Hof, Patrick R; Höllt, Thomas; Horwitz, Gregory D; Keene, C Dirk; Kharchenko, Peter V; Ko, Andrew L; Lelieveldt, Boudewijn P; Luo, Chongyuan; Mukamel, Eran A; Pinto-Duarte, António; Preissl, Sebastian; Regev, Aviv; Ren, Bing; Scheuermann, Richard H; Smith, Kimberly; Spain, William J; White, Owen R; Koch, Christof; Hawrylycz, Michael; Tasic, Bosiljka; Macosko, Evan Z; McCarroll, Steven A; Ting, Jonathan T; Zeng, Hongkui; Zhang, Kun; Feng, Guoping; Ecker, Joseph R; Linnarsson, Sten; Lein, Ed S Nature 34616062 2021 10
Research Priorities for Kidney-Related Research-An Agenda to Advance Kidney Care: A Position Statement From the National Kidney Foundation. National Kidney Foundation Research Roundtable Work Group on behalf of the National Kidney Foundation American journal of kidney diseases : the official journal of the National Kidney Foundation 34627932 2022 Feb
Comprehensive multi-omics integration identifies differentially active enhancers during human brain development with clinical relevance. Yousefi, Soheil; Deng, Ruizhi; Lanko, Kristina; Salsench, Eva Medico; Nikoncuk, Anita; van der Linde, Herma C; Perenthaler, Elena; van Ham, Tjakko J; Mulugeta, Eskeatnaf; Barakat, Tahsin Stefan Genome medicine 34663447 2021 Oct 19
Systems Analysis Reveals Ageing-Related Perturbations in Retinoids and Sex Hormones in Alzheimer's and Parkinson's Diseases. Lam, Simon; Hartmann, Nils; Benfeitas, Rui; Zhang, Cheng; Arif, Muhammad; Turkez, Hasan; Uhlén, Mathias; Englert, Christoph; Knight, Robert; Mardinoglu, Adil Biomedicines 34680427 2021 Sep 24
APOL1 risk variants in individuals of African genetic ancestry drive endothelial cell defects that exacerbate sepsis. Wu, Junnan; Ma, Ziyuan; Raman, Archana; Beckerman, Pazit; Dhillon, Poonam; Mukhi, Dhanunjay; Palmer, Matthew; Chen, Hua Chang; Cohen, Cassiane Robinson; Dunn, Thomas; Reilly, John; Meyer, Nuala; Shahaty, Michael; Arany, Zoltan; Haskó, György; Laudanski, Krzysztof; Hung, Adriana; Susztak, Katalin Immunity 34715018 2021 11 09
Genome-wide association studies identify the role of caspase-9 in kidney disease. Doke, Tomohito; Huang, Shizheng; Qiu, Chengxiang; Sheng, Xin; Seasock, Matthew; Liu, Hongbo; Ma, Ziyuan; Palmer, Matthew; Susztak, Katalin Science advances 34739325 2021 Nov 05
From mapping kidney function to mechanism and prediction. Hirohama, Daigoro; Susztak, Katalin Nature reviews. Nephrology 34819631 2022 02
How Many Cell Types Are in the Kidney and What Do They Do? Balzer, Michael S; Rohacs, Tibor; Susztak, Katalin Annual review of physiology 34843404 2022 02 10
Atlas of RNA editing events affecting protein expression in aged and Alzheimer's disease human brain tissue. Ma, Yiyi; Dammer, Eric B; Felsky, Daniel; Duong, Duc M; Klein, Hans-Ulrich; White, Charles C; Zhou, Maotian; Logsdon, Benjamin A; McCabe, Cristin; Xu, Jishu; Wang, Minghui; Wingo, Thomas S; Lah, James J; Zhang, Bin; Schneider, Julie; Allen, Mariet; Wang, Xue; Ertekin-Taner, Nilüfer; Seyfried, Nicholas T; Levey, Allan I; Bennett, David A; De Jager, Philip L Nature communications 34857756 2021 12 02
Lifestyle and Genetic Factors Modify Parent-of-Origin Effects on the Human Methylome. Zeng, Yanni; Amador, Carmen; Gao, Chenhao; Walker, Rosie M; Morris, Stewart W; Campbell, Archie; Frkatović, Azra; Madden, Rebecca A; Adams, Mark J; He, Shuai; Bretherick, Andrew D; Hayward, Caroline; Porteous, David J; Wilson, James F; Evans, Kathryn L; McIntosh, Andrew M; Navarro, Pau; Haley, Chris S EBioMedicine 34883445 2021 Dec
Bayesian Sparse Mediation Analysis with Targeted Penalization of Natural Indirect Effects. Song, Yanyi; Zhou, Xiang; Kang, Jian; Aung, Max T; Zhang, Min; Zhao, Wei; Needham, Belinda L; Kardia, Sharon L R; Liu, Yongmei; Meeker, John D; Smith, Jennifer A; Mukherjee, Bhramar Journal of the Royal Statistical Society. Series C, Applied statistics 34887595 2021 Nov
AtheroSpectrum Reveals Novel Macrophage Foam Cell Gene Signatures Associated With Atherosclerotic Cardiovascular Disease Risk. Li, Chuan; Qu, Lili; Matz, Alyssa J; Murphy, Patrick A; Liu, Yongmei; Manichaikul, Ani W; Aguiar, Derek; Rich, Stephen S; Herrington, David M; Vu, David; Johnson, W Craig; Rotter, Jerome I; Post, Wendy S; Vella, Anthony T; Rodriguez-Oquendo, Annabelle; Zhou, Beiyan Circulation 34913723 2022 Jan 18
Integrated Genomic, Transcriptomic and Proteomic Analysis for Identifying Markers of Alzheimer's Disease. Madrid, Laura; Labrador, Sandra C; González-Pérez, Antonio; Sáez, María E; The Alzheimer's Disease Neuroimaging Initiative Adni Diagnostics (Basel, Switzerland) 34943540 2021 Dec 08
Monocyte miRNAs Are Associated With Type 2 Diabetes. Parker, Daniel C; Wan, Ma; Lohman, Kurt; Hou, Li; Nguyen, Anh Tram; Ding, Jingzhong; Bertoni, Alain; Shea, Steve; Burke, Gregory L; Jacobs, David R; Post, Wendy; Corcoran, David; Hoeschele, Ina; Parks, John S; Liu, Yongmei Diabetes 35073575 2022 Apr 01
Brain microRNAs are associated with variation in cognitive trajectory in advanced age. Wingo, Aliza P; Wang, Mengli; Liu, Jiaqi; Breen, Michael S; Yang, Hyun-Sik; Tang, Beisha; Schneider, Julie A; Seyfried, Nicholas T; Lah, James J; Levey, Allan I; Bennett, David A; Jin, Peng; De Jager, Philip L; Wingo, Thomas S Translational psychiatry 35105862 2022 Feb 01
Multi-transcriptomic analysis points to early organelle dysfunction in human astrocytes in Alzheimer's disease. Galea, Elena; Weinstock, Laura D; Larramona-Arcas, Raquel; Pybus, Alyssa F; Giménez-Llort, Lydia; Escartin, Carole; Wood, Levi B Neurobiology of disease 35143967 2022 05
MOMA: a multi-task attention learning algorithm for multi-omics data interpretation and classification. Moon, Sehwan; Lee, Hyunju Bioinformatics (Oxford, England) 35157023 2022 Apr 12
Local connectivity and synaptic dynamics in mouse and human neocortex. Campagnola, Luke; Seeman, Stephanie C; Chartrand, Thomas; Kim, Lisa; Hoggarth, Alex; Gamlin, Clare; Ito, Shinya; Trinh, Jessica; Davoudian, Pasha; Radaelli, Cristina; Kim, Mean-Hwan; Hage, Travis; Braun, Thomas; Alfiler, Lauren; Andrade, Julia; Bohn, Phillip; Dalley, Rachel; Henry, Alex; Kebede, Sara; Alice, Mukora; Sandman, David; Williams, Grace; Larsen, Rachael; Teeter, Corinne; Daigle, Tanya L; Berry, Kyla; Dotson, Nadia; Enstrom, Rachel; Gorham, Melissa; Hupp, Madie; Dingman Lee, Samuel; Ngo, Kiet; Nicovich, Philip R; Potekhina, Lydia; Ransford, Shea; Gary, Amanda; Goldy, Jeff; McMillen, Delissa; Pham, Trangthanh; Tieu, Michael; Siverts, La'Akea; Walker, Miranda; Farrell, Colin; Schroedter, Martin; Slaughterbeck, Cliff; Cobb, Charles; Ellenbogen, Richard; Gwinn, Ryder P; Keene, C Dirk; Ko, Andrew L; Ojemann, Jeffrey G; Silbergeld, Daniel L; Carey, Daniel; Casper, Tamara; Crichton, Kirsten; Clark, Michael; Dee, Nick; Ellingwood, Lauren; Gloe, Jessica; Kroll, Matthew; Sulc, Josef; Tung, Herman; Wadhwani, Katherine; Brouner, Krissy; Egdorf, Tom; Maxwell, Michelle; McGraw, Medea; Pom, Christina Alice; Ruiz, Augustin; Bomben, Jasmine; Feng, David; Hejazinia, Nika; Shi, Shu; Szafer, Aaron; Wakeman, Wayne; Phillips, John; Bernard, Amy; Esposito, Luke; D'Orazi, Florence D; Sunkin, Susan; Smith, Kimberly; Tasic, Bosiljka; Arkhipov, Anton; Sorensen, Staci; Lein, Ed; Koch, Christof; Murphy, Gabe; Zeng, Hongkui; Jarsky, Tim Science (New York, N.Y.) 35271334 2022 03 11
A single-cell atlas of human and mouse white adipose tissue. Emont, Margo P; Jacobs, Christopher; Essene, Adam L; Pant, Deepti; Tenen, Danielle; Colleluori, Georgia; Di Vincenzo, Angelica; Jørgensen, Anja M; Dashti, Hesam; Stefek, Adam; McGonagle, Elizabeth; Strobel, Sophie; Laber, Samantha; Agrawal, Saaket; Westcott, Gregory P; Kar, Amrita; Veregge, Molly L; Gulko, Anton; Srinivasan, Harini; Kramer, Zachary; De Filippis, Eleanna; Merkel, Erin; Ducie, Jennifer; Boyd, Christopher G; Gourash, William; Courcoulas, Anita; Lin, Samuel J; Lee, Bernard T; Morris, Donald; Tobias, Adam; Khera, Amit V; Claussnitzer, Melina; Pers, Tune H; Giordano, Antonio; Ashenberg, Orr; Regev, Aviv; Tsai, Linus T; Rosen, Evan D Nature 35296864 2022 Mar
New insights into the genetic etiology of Alzheimer's disease and related dementias. Bellenguez, Céline; Küçükali, Fahri; Jansen, Iris E; Kleineidam, Luca; Moreno-Grau, Sonia; Amin, Najaf; Naj, Adam C; Campos-Martin, Rafael; Grenier-Boley, Benjamin; Andrade, Victor; Holmans, Peter A; Boland, Anne; Damotte, Vincent; van der Lee, Sven J; Costa, Marcos R; Kuulasmaa, Teemu; Yang, Qiong; de Rojas, Itziar; Bis, Joshua C; Yaqub, Amber; Prokic, Ivana; Chapuis, Julien; Ahmad, Shahzad; Giedraitis, Vilmantas; Aarsland, Dag; Garcia-Gonzalez, Pablo; Abdelnour, Carla; Alarcón-Martín, Emilio; Alcolea, Daniel; Alegret, Montserrat; Alvarez, Ignacio; Álvarez, Victoria; Armstrong, Nicola J; Tsolaki, Anthoula; Antúnez, Carmen; Appollonio, Ildebrando; Arcaro, Marina; Archetti, Silvana; Pastor, Alfonso Arias; Arosio, Beatrice; Athanasiu, Lavinia; Bailly, Henri; Banaj, Nerisa; Baquero, Miquel; Barral, Sandra; Beiser, Alexa; Pastor, Ana Belén; Below, Jennifer E; Benchek, Penelope; Benussi, Luisa; Berr, Claudine; Besse, Céline; Bessi, Valentina; Binetti, Giuliano; Bizarro, Alessandra; Blesa, Rafael; Boada, Mercè; Boerwinkle, Eric; Borroni, Barbara; Boschi, Silvia; Bossù, Paola; Bråthen, Geir; Bressler, Jan; Bresner, Catherine; Brodaty, Henry; Brookes, Keeley J; Brusco, Luis Ignacio; Buiza-Rueda, Dolores; Bûrger, Katharina; Burholt, Vanessa; Bush, William S; Calero, Miguel; Cantwell, Laura B; Chene, Geneviève; Chung, Jaeyoon; Cuccaro, Michael L; Carracedo, Ángel; Cecchetti, Roberta; Cervera-Carles, Laura; Charbonnier, Camille; Chen, Hung-Hsin; Chillotti, Caterina; Ciccone, Simona; Claassen, Jurgen A H R; Clark, Christopher; Conti, Elisa; Corma-Gómez, Anaïs; Costantini, Emanuele; Custodero, Carlo; Daian, Delphine; Dalmasso, Maria Carolina; Daniele, Antonio; Dardiotis, Efthimios; Dartigues, Jean-François; de Deyn, Peter Paul; de Paiva Lopes, Katia; de Witte, Lot D; Debette, Stéphanie; Deckert, Jürgen; Del Ser, Teodoro; Denning, Nicola; DeStefano, Anita; Dichgans, Martin; Diehl-Schmid, Janine; Diez-Fairen, Mónica; Rossi, Paolo Dionigi; Djurovic, Srdjan; Duron, Emmanuelle; Düzel, Emrah; Dufouil, Carole; Eiriksdottir, Gudny; Engelborghs, Sebastiaan; Escott-Price, Valentina; Espinosa, Ana; Ewers, Michael; Faber, Kelley M; Fabrizio, Tagliavini; Nielsen, Sune Fallgaard; Fardo, David W; Farotti, Lucia; Fenoglio, Chiara; Fernández-Fuertes, Marta; Ferrari, Raffaele; Ferreira, Catarina B; Ferri, Evelyn; Fin, Bertrand; Fischer, Peter; Fladby, Tormod; Fließbach, Klaus; Fongang, Bernard; Fornage, Myriam; Fortea, Juan; Foroud, Tatiana M; Fostinelli, Silvia; Fox, Nick C; Franco-Macías, Emlio; Bullido, María J; Frank-García, Ana; Froelich, Lutz; Fulton-Howard, Brian; Galimberti, Daniela; García-Alberca, Jose Maria; García-González, Pablo; Garcia-Madrona, Sebastian; Garcia-Ribas, Guillermo; Ghidoni, Roberta; Giegling, Ina; Giorgio, Giaccone; Goate, Alison M; Goldhardt, Oliver; Gomez-Fonseca, Duber; González-Pérez, Antonio; Graff, Caroline; Grande, Giulia; Green, Emma; Grimmer, Timo; Grünblatt, Edna; Grunin, Michelle; Gudnason, Vilmundur; Guetta-Baranes, Tamar; Haapasalo, Annakaisa; Hadjigeorgiou, Georgios; Haines, Jonathan L; Hamilton-Nelson, Kara L; Hampel, Harald; Hanon, Olivier; Hardy, John; Hartmann, Annette M; Hausner, Lucrezia; Harwood, Janet; Heilmann-Heimbach, Stefanie; Helisalmi, Seppo; Heneka, Michael T; Hernández, Isabel; Herrmann, Martin J; Hoffmann, Per; Holmes, Clive; Holstege, Henne; Vilas, Raquel Huerto; Hulsman, Marc; Humphrey, Jack; Biessels, Geert Jan; Jian, Xueqiu; Johansson, Charlotte; Jun, Gyungah R; Kastumata, Yuriko; Kauwe, John; Kehoe, Patrick G; Kilander, Lena; Ståhlbom, Anne Kinhult; Kivipelto, Miia; Koivisto, Anne; Kornhuber, Johannes (see original citation for additional authors) Nature genetics 35379992 2022 04
Transcriptional landscape of human microglia implicates age, sex, and APOE-related immunometabolic pathway perturbations. Patel, Tulsi; Carnwath, Troy P; Wang, Xue; Allen, Mariet; Lincoln, Sarah J; Lewis-Tuffin, Laura J; Quicksall, Zachary S; Lin, Shu; Tutor-New, Frederick Q; Ho, Charlotte C G; Min, Yuhao; Malphrus, Kimberly G; Nguyen, Thuy T; Martin, Elizabeth; Garcia, Cesar A; Alkharboosh, Rawan M; Grewal, Sanjeet; Chaichana, Kaisorn; Wharen, Robert; Guerrero-Cazares, Hugo; Quinones-Hinojosa, Alfredo; Ertekin-Taner, Nilüfer Aging cell 35388616 2022 May
Distinct developmental phenotypes result from mutation of Set8/KMT5A and histone H4 lysine 20 in Drosophila melanogaster. Crain, Aaron T; Klusza, Stephen; Armstrong, Robin L; Santa Rosa, Priscila; Temple, Brenda R S; Strahl, Brian D; McKay, Daniel J; Matera, A Gregory; Duronio, Robert J Genetics 35404465 2022 May 31
Antisense oligonucleotides ameliorate kidney dysfunction in podocyte-specific APOL1 risk variant mice. Yang, Ya-Wen; Poudel, Bibek; Frederick, Julia; Dhillon, Poonam; Shrestha, Rojesh; Ma, Ziyuan; Wu, Junnan; Okamoto, Koji; Kopp, Jeffrey B; Booten, Sheri L; Gattis, Danielle; Watt, Andrew T; Palmer, Matthew; Aghajan, Mariam; Susztak, Katalin Molecular therapy : the journal of the American Society of Gene Therapy 35450819 2022 Jul 06
The multifaceted role of kidney tubule mitochondrial dysfunction in kidney disease development. Doke, Tomohito; Susztak, Katalin Trends in cell biology 35473814 2022 Oct
Single-cell analysis identifies the interaction of altered renal tubules with basophils orchestrating kidney fibrosis. Doke, Tomohito; Abedini, Amin; Aldridge, Daniel L; Yang, Ya-Wen; Park, Jihwan; Hernandez, Christina M; Balzer, Michael S; Shrestra, Rojesh; Coppock, Gaia; Rico, Juan M Inclan; Han, Seung Yub; Kim, Junhyong; Xin, Sheng; Piliponsky, Adrian M; Angelozzi, Marco; Lefebvre, Veronique; Siracusa, Mark C; Hunter, Christopher A; Susztak, Katalin Nature immunology 35552540 2022 May 12
Developmental Pathways Are Epigenetically Reprogrammed during Lung Cancer Brain Metastasis. Karlow, Jennifer A; Devarakonda, Siddhartha; Xing, Xiaoyun; Jang, Hyo Sik; Govindan, Ramaswamy; Watson, Mark; Wang, Ting Cancer research 35706127 2022 Aug 03
Epigenomic and transcriptomic analyses define core cell types, genes and targetable mechanisms for kidney disease. Liu, Hongbo; Doke, Tomohito; Guo, Dong; Sheng, Xin; Ma, Ziyuan; Park, Joseph; Vy, Ha My T; Nadkarni, Girish N; Abedini, Amin; Miao, Zhen; Palmer, Matthew; Voight, Benjamin F; Li, Hongzhe; Brown, Christopher D; Ritchie, Marylyn D; Shu, Yan; Susztak, Katalin Nature genetics 35710981 2022 07
The association between aging-related monocyte transcriptional networks and comorbidity burden: the Multi-Ethnic Study of Atherosclerosis (MESA). Ding, Jingzhong; Lohman, Kurt; Molina, Anthony; Delbono, Osvaldo; Bertoni, Alain; Shea, Steven; Post, Wendy; Guo, Xiuqing; Barr, R Graham; Manichaikul, Ani W; Pankow, James S; Rotter, Jerome I; Hoeschele, Ina; Kritchevsky, Stephen B; Liu, Yongmei GeroScience 35737188 2023 Feb
Keap1 moderates the transcription of virus induced genes through G9a-GLP and NFκB p50 recruitment. Burns, Veronica Elizabeth; Kerppola, Tom Klaus Immunology 35751391 2022 Sep
Genome-wide association and multi-omics studies identify MGMT as a novel risk gene for Alzheimer's disease among women. Chung, Jaeyoon; Das, Anjali; Sun, Xinyu; Sobreira, Débora R; Leung, Yuk Yee; Igartua, Catherine; Mozaffari, Sahar; Chou, Yi-Fan; Thiagalingam, Sam; Mez, Jesse; Zhang, Xiaoling; Jun, Gyungah R; Stein, Thor D; Kunkle, Brian W; Martin, Eden R; Pericak-Vance, Margaret A; Mayeux, Richard; Haines, Jonathan L; Schellenberg, Gerard D; Nobrega, Marcelo A; Lunetta, Kathryn L; Pinto, Jayant M; Wang, Li-San; Ober, Carole; Farrer, Lindsay A Alzheimer's & dementia : the journal of the Alzheimer's Association 35770850 2022 Jun 30
Epigenetic and Transcriptomic Programming of HSC Quiescence Signaling in Large for Gestational Age Neonates. Pelletier, Alexandre; Carrier, Arnaud; Zhao, Yongmei; Canouil, Mickaël; Derhourhi, Mehdi; Durand, Emmanuelle; Berberian-Ferrato, Lionel; Greally, John; Hughes, Francine; Froguel, Philippe; Bonnefond, Amélie; Delahaye, Fabien International journal of molecular sciences 35806330 2022 Jun 30
[11C]Martinostat PET analysis reveals reduced HDAC I availability in Alzheimer's disease. Pascoal, Tharick A; Chamoun, Mira; Lax, Elad; Wey, Hsiao-Ying; Shin, Monica; Ng, Kok Pin; Kang, Min Su; Mathotaarachchi, Sulantha; Benedet, Andrea L; Therriault, Joseph; Lussier, Firoza Z; Schroeder, Frederick A; DuBois, Jonathan M; Hightower, Baileigh G; Gilbert, Tonya M; Zürcher, Nicole R; Wang, Changning; Hopewell, Robert; Chakravarty, Mallar; Savard, Melissa; Thomas, Emilie; Mohaddes, Sara; Farzin, Sarah; Salaciak, Alyssa; Tullo, Stephanie; Cuello, A Claudio; Soucy, Jean-Paul; Massarweh, Gassan; Hwang, Heungsun; Kobayashi, Eliane; Hyman, Bradley T; Dickerson, Bradford C; Guiot, Marie-Christine; Szyf, Moshe; Gauthier, Serge; Hooker, Jacob M; Rosa-Neto, Pedro Nature communications 35853847 2022 07 19
Large-scale manipulation of promoter DNA methylation reveals context-specific transcriptional responses and stability. de Mendoza, Alex; Nguyen, Trung Viet; Ford, Ethan; Poppe, Daniel; Buckberry, Sam; Pflueger, Jahnvi; Grimmer, Matthew R; Stolzenburg, Sabine; Bogdanovic, Ozren; Oshlack, Alicia; Farnham, Peggy J; Blancafort, Pilar; Lister, Ryan Genome biology 35883107 2022 07 26
RNASE6 is a novel modifier of APOE-ε4 effects on cognition. Seto, Mabel; Weiner, Rebecca L; Dumitrescu, Logan; Mahoney, Emily R; Hansen, Shania L; Janve, Vaibhav; Khan, Omair A; Liu, Dandan; Wang, Yanling; Menon, Vilas; De Jager, Philip L; Schneider, Julie A; Bennett, David A; Gifford, Katherine A; Jefferson, Angela L; Hohman, Timothy J Neurobiology of aging 35896049 2022 10
Aging the brain: multi-region methylation principal component based clock in the context of Alzheimer's disease. Thrush, Kyra L; Bennett, David A; Gaiteri, Christopher; Horvath, Steve; Dyck, Christopher H van; Higgins-Chen, Albert T; Levine, Morgan E Aging 35907208 2022 Jul 30
Genome-wide meta-analyses reveal novel loci for verbal short-term memory and learning. Lahti, Jari; Tuominen, Samuli; Yang, Qiong; Pergola, Giulio; Ahmad, Shahzad; Amin, Najaf; Armstrong, Nicola J; Beiser, Alexa; Bey, Katharina; Bis, Joshua C; Boerwinkle, Eric; Bressler, Jan; Campbell, Archie; Campbell, Harry; Chen, Qiang; Corley, Janie; Cox, Simon R; Davies, Gail; De Jager, Philip L; Derks, Eske M; Faul, Jessica D; Fitzpatrick, Annette L; Fohner, Alison E; Ford, Ian; Fornage, Myriam; Gerring, Zachary; Grabe, Hans J; Grodstein, Francine; Gudnason, Vilmundur; Simonsick, Eleanor; Holliday, Elizabeth G; Joshi, Peter K; Kajantie, Eero; Kaprio, Jaakko; Karell, Pauliina; Kleineidam, Luca; Knol, Maria J; Kochan, Nicole A; Kwok, John B; Leber, Markus; Lam, Max; Lee, Teresa; Li, Shuo; Loukola, Anu; Luck, Tobias; Marioni, Riccardo E; Mather, Karen A; Medland, Sarah; Mirza, Saira S; Nalls, Mike A; Nho, Kwangsik; O'Donnell, Adrienne; Oldmeadow, Christopher; Painter, Jodie; Pattie, Alison; Reppermund, Simone; Risacher, Shannon L; Rose, Richard J; Sadashivaiah, Vijay; Scholz, Markus; Satizabal, Claudia L; Schofield, Peter W; Schraut, Katharina E; Scott, Rodney J; Simino, Jeannette; Smith, Albert V; Smith, Jennifer A; Stott, David J; Surakka, Ida; Teumer, Alexander; Thalamuthu, Anbupalam; Trompet, Stella; Turner, Stephen T; van der Lee, Sven J; Villringer, Arno; Völker, Uwe; Wilson, Robert S; Wittfeld, Katharina; Vuoksimaa, Eero; Xia, Rui; Yaffe, Kristine; Yu, Lei; Zare, Habil; Zhao, Wei; Ames, David; Attia, John; Bennett, David A; Brodaty, Henry; Chasman, Daniel I; Goldman, Aaron L; Hayward, Caroline; Ikram, M Arfan; Jukema, J Wouter; Kardia, Sharon L R; Lencz, Todd; Loeffler, Markus; Mattay, Venkata S; Palotie, Aarno; Psaty, Bruce M; Ramirez, Alfredo; Ridker, Paul M; Riedel-Heller, Steffi G; Sachdev, Perminder S; Saykin, Andrew J; Scherer, Martin; Schofield, Peter R; Sidney, Stephen; Starr, John M; Trollor, Julian; Ulrich, William; Wagner, Michael; Weir, David R; Wilson, James F; Wright, Margaret J; Weinberger, Daniel R; Debette, Stephanie; Eriksson, Johan G; Mosley Jr, Thomas H; Launer, Lenore J; van Duijn, Cornelia M; Deary, Ian J; Seshadri, Sudha; Räikkönen, Katri Molecular psychiatry 35974141 2022 Nov
Risperidone-induced changes in DNA methylation in peripheral blood from first-episode schizophrenia patients parallel changes in neuroimaging and cognitive phenotypes. Hu, Maolin; Xia, Yan; Zong, Xiaofen; Sweeney, John A; Bishop, Jeffrey R; Liao, Yanhui; Giase, Gina; Li, Bingshan; Rubin, Leah H; Wang, Yunpeng; Li, Zongchang; He, Ying; Chen, Xiaogang; Liu, Chunyu; Chen, Chao; Tang, Jinsong Psychiatry research 36075150 2022 Nov
Integrative Co-methylation Network Analysis Identifies Novel DNA Methylation Signatures and Their Target Genes in Alzheimer's Disease. Kim, Jun Pyo; Kim, Bo-Hyun; Bice, Paula J; Seo, Sang Won; Bennett, David A; Saykin, Andrew J; Nho, Kwangsik Biological psychiatry 36150909 2022 Jun 24
Associations between accelerated parental biologic age, autism spectrum disorder, social traits, and developmental and cognitive outcomes in their children. Song, Ashley Y; Bakulski, Kelly; Feinberg, Jason I; Newschaffer, Craig; Croen, Lisa A; Hertz-Picciotto, Irva; Schmidt, Rebecca J; Farzadegan, Homayoon; Lyall, Kristen; Fallin, M Daniele; Volk, Heather E; Ladd-Acosta, Christine Autism research : official journal of the International Society for Autism Research 36189953 2022 Dec
Effect of APOE alleles on the glial transcriptome in normal aging and Alzheimer's disease. Serrano-Pozo, Alberto; Li, Zhaozhi; Noori, Ayush; Nguyen, Huong N; Mezlini, Aziz; Li, Liang; Hudry, Eloise; Jackson, Rosemary J; Hyman, Bradley T; Das, Sudeshna Nature aging 36199750 2021 Oct
Metabolomic and lipidomic signatures in autosomal dominant and late-onset Alzheimer's disease brains. Novotny, Brenna C; Fernandez, Maria Victoria; Wang, Ciyang; Budde, John P; Bergmann, Kristy; Eteleeb, Abdallah M; Bradley, Joseph; Webster, Carol; Ebl, Curtis; Norton, Joanne; Gentsch, Jen; Dube, Umber; Wang, Fengxian; Morris, John C; Bateman, Randall J; Perrin, Richard J; McDade, Eric; Xiong, Chengjie; Chhatwal, Jasmeer; Dominantly Inherited Alzheimer Network (DIAN) Study Group; Alzheimer's Disease Neuroimaging Initiative; and the Alzheimer's Disease Metabolomics Consortium (ADMC); Goate, Alison; Farlow, Martin; Schofield, Peter; Chui, Helena; Karch, Celeste M; Cruchaga, Carlos; Benitez, Bruno A; Harari, Oscar Alzheimer's & dementia : the journal of the Alzheimer's Association 36251323 2023 May
Architecture of the outbred brown fat proteome defines regulators of metabolic physiology. Xiao, Haopeng; Bozi, Luiz H M; Sun, Yizhi; Riley, Christopher L; Philip, Vivek M; Chen, Mandy; Li, Jiaming; Zhang, Tian; Mills, Evanna L; Emont, Margo P; Sun, Wenfei; Reddy, Anita; Garrity, Ryan; Long, Jiani; Becher, Tobias; Vitas, Laura Potano; Laznik-Bogoslavski, Dina; Ordonez, Martha; Liu, Xinyue; Chen, Xiong; Wang, Yun; Liu, Weihai; Tran, Nhien; Liu, Yitong; Zhang, Yang; Cypess, Aaron M; White, Andrew P; He, Yuchen; Deng, Rebecca; Schöder, Heiko; Paulo, Joao A; Jedrychowski, Mark P; Banks, Alexander S; Tseng, Yu-Hua; Cohen, Paul; Tsai, Linus T; Rosen, Evan D; Klein, Samuel; Chondronikola, Maria; McAllister, Fiona E; Van Bruggen, Nick; Huttlin, Edward L; Spiegelman, Bruce M; Churchill, Gary A; Gygi, Steven P; Chouchani, Edward T Cell 36334589 2022 Nov 23
Differential Gene Expression and DNA Methylation in the Risk of Depression in LOAD Patients. Upadhya, Suraj; Gingerich, Daniel; Lutz, Michael William; Chiba-Falek, Ornit Biomolecules 36421693 2022 Nov 12
Neuroimmune transcriptome changes in patient brains of psychiatric and neurological disorders. Chen, Yu; Dai, Jiacheng; Tang, Longfei; Mikhailova, Tatiana; Liang, Qiuman; Li, Miao; Zhou, Jiaqi; Kopp, Richard F; Weickert, Cynthia; Chen, Chao; Liu, Chunyu Molecular psychiatry 36424395 2022 Nov 24
Tet2- and Tet3- Mediated Cytosine Hydroxymethylation in Six2 Progenitor Cells in Mice Is Critical for Nephron Progenitor Differentiation and Nephron Endowment. Liang, Xiujie; Aranyi, Tamas; Zhou, Jianfu; Guan, Yuting; Hu, Hailong; Liu, Hongbo; Susztak, Katalin Journal of the American Society of Nephrology : JASN 36522157 2023 Apr 01
Integrated DNA Methylation/RNA Profiling in Middle Temporal Gyrus of Alzheimer's Disease. Piras, Ignazio S; Brokaw, Danielle; Kong, Yinfei; Weisenberger, Daniel J; Krate, Jonida; Delvaux, Elaine; Mahurkar, Swapna; Blattler, Adam; Siegmund, Kimberly D; Sue, Lucia; Serrano, Geidy E; Beach, Thomas G; Laird, Peter W; Huentelman, Matthew J; Coleman, Paul D Cellular and molecular neurobiology 36596913 2023 Jul
Exploring genes for immunoglobulin A nephropathy: a summary data-based mendelian randomization and FUMA analysis. Zhang, Qian; Zhang, Kang; Zhu, Yining; Yuan, Guangwei; Yang, Jingyun; Zhang, Minmin BMC medical genomics 36709307 2023 Jan 29
Increased levels of endogenous retroviruses trigger fibroinflammation and play a role in kidney disease development. Dhillon, Poonam; Mulholland, Kelly Ann; Hu, Hailong; Park, Jihwan; Sheng, Xin; Abedini, Amin; Liu, Hongbo; Vassalotti, Allison; Wu, Junnan; Susztak, Katalin Nature communications 36732547 2023 Feb 02
Worsened Outcome in Patients with Membranous Nephropathy Carrying Apolipoprotein L1 High-Risk Genotype. Susztak, Katalin Clinical journal of the American Society of Nephrology : CJASN 36764286 2023 Mar 01
Molecular pathways that drive diabetic kidney disease. Mohandes, Samer; Doke, Tomohito; Hu, Hailong; Mukhi, Dhanunjay; Dhillon, Poonam; Susztak, Katalin The Journal of clinical investigation 36787250 2023 Feb 15
Multivariate adaptive shrinkage improves cross-population transcriptome prediction for transcriptome-wide association studies in underrepresented populations. Araujo, Daniel S; Nguyen, Chris; Hu, Xiaowei; Mikhaylova, Anna V; Gignoux, Chris; Ardlie, Kristin; Taylor, Kent D; Durda, Peter; Liu, Yongmei; Papanicolaou, George; Cho, Michael H; Rich, Stephen S; Rotter, Jerome I; NHLBI TOPMed Consortium; Im, Hae Kyung; Manichaikul, Ani; Wheeler, Heather E bioRxiv : the preprint server for biology 36798214 2023 May 20
Methods for Mediation Analysis with High-Dimensional DNA Methylation Data: Possible Choices and Comparison. Clark-Boucher, Dylan; Zhou, Xiang; Du, Jiacong; Liu, Yongmei; Needham, Belinda L; Smith, Jennifer A; Mukherjee, Bhramar medRxiv : the preprint server for health sciences 36824903 2023 Feb 14
Multi-omic characterization of brain changes in the vascular endothelial growth factor family during aging and Alzheimer's disease. Seto, Mabel; Dumitrescu, Logan; Mahoney, Emily R; Sclafani, Annah M; De Jager, Philip L; Menon, Vilas; Koran, Mary E I; Robinson, Renã A; Ruderfer, Douglas M; Cox, Nancy J; Seyfried, Nicholas T; Jefferson, Angela L; Schneider, Julie A; Bennett, David A; Petyuk, Vladislav A; Hohman, Timothy J Neurobiology of aging 36905877 2023 Jun
NAD+ precursor supplementation prevents mtRNA/RIG-I-dependent inflammation during kidney injury. Doke, Tomohito; Mukherjee, Sarmistha; Mukhi, Dhanunjay; Dhillon, Poonam; Abedini, Amin; Davis, James G; Chellappa, Karthikeyani; Chen, Beishan; Baur, Joseph A; Susztak, Katalin Nature metabolism 36914909 2023 Mar
HIV viral protein R induces loss of DCT1-type renal tubules. Latt, Khun Zaw; Yoshida, Teruhiko; Shrivastav, Shashi; Abedini, Amin; Reece, Jeff M; Sun, Zeguo; Lee, Hewang; Okamoto, Koji; Dagur, Pradeep; Heymann, Jurgen; Zhao, Yongmei; Chung, Joon-Yong; Hewitt, Stephen; Jose, Pedro A; Lee, Kyung; He, John Cijiang; Winkler, Cheryl A; Knepper, Mark A; Kino, Tomoshige; Rosenberg, Avi Z; Susztak, Katalin; Kopp, Jeffrey B bioRxiv : the preprint server for biology 36945458 2023 Nov 13
The Type 2 Diabetes Knowledge Portal: An open access genetic resource dedicated to type 2 diabetes and related traits. Costanzo, Maria C; von Grotthuss, Marcin; Massung, Jeffrey; Jang, Dongkeun; Caulkins, Lizz; Koesterer, Ryan; Gilbert, Clint; Welch, Ryan P; Kudtarkar, Parul; Hoang, Quy; Boughton, Andrew P; Singh, Preeti; Sun, Ying; Duby, Marc; Moriondo, Annie; Nguyen, Trang; Smadbeck, Patrick; Alexander, Benjamin R; Brandes, MacKenzie; Carmichael, Mary; Dornbos, Peter; Green, Todd; Huellas-Bruskiewicz, Kenneth C; Ji, Yue; Kluge, Alexandria; McMahon, Aoife C; Mercader, Josep M; Ruebenacker, Oliver; Sengupta, Sebanti; Spalding, Dylan; Taliun, Daniel; AMP-T2D Consortium; Smith, Philip; Thomas, Melissa K; Akolkar, Beena; Brosnan, M Julia; Cherkas, Andriy; Chu, Audrey Y; Fauman, Eric B; Fox, Caroline S; Kamphaus, Tania Nayak; Miller, Melissa R; Nguyen, Lynette; Parsa, Afshin; Reilly, Dermot F; Ruetten, Hartmut; Wholley, David; Zaghloul, Norann A; Abecasis, Gonçalo R; Altshuler, David; Keane, Thomas M; McCarthy, Mark I; Gaulton, Kyle J; Florez, Jose C; Boehnke, Michael; Burtt, Noël P; Flannick, Jason Cell metabolism 36963395 2023 Apr 04
Unbiased Human Kidney Tissue Proteomics Identifies Matrix Metalloproteinase 7 as a Kidney Disease Biomarker. Hirohama, Daigoro; Abedini, Amin; Moon, Salina; Surapaneni, Aditya; Dillon, Simon T; Vassalotti, Allison; Liu, Hongbo; Doke, Tomohito; Martinez, Victor; Md Dom, Zaipul; Karihaloo, Anil; Palmer, Matthew B; Coresh, Josef; Grams, Morgan E; Niewczas, Monika A; Susztak, Katalin Journal of the American Society of Nephrology : JASN 37022120 2023 Apr 05
Treatment effects of soluble guanylate cyclase modulation on diabetic kidney disease at single-cell resolution. Balzer, Michael S; Pavkovic, Mira; Frederick, Julia; Abedini, Amin; Freyberger, Alexius; Vienenkötter, Julia; Mathar, Ilka; Siudak, Krystyna; Eitner, Frank; Sandner, Peter; Grundmann, Manuel; Susztak, Katalin Cell reports. Medicine 37023747 2023 Apr 18
Epigenetic changes in sperm are associated with paternal and child quantitative autistic traits in an autism-enriched cohort. Feinberg, Jason I; Schrott, Rose; Ladd-Acosta, Christine; Newschaffer, Craig J; Hertz-Picciotto, Irva; Croen, Lisa A; Daniele Fallin, M; Feinberg, Andrew P; Volk, Heather E Molecular psychiatry 37100868 2023 Apr 27
Genetic variants in genes involved in creatine biosynthesis in patients with severe obesity or anorexia nervosa. Rajcsanyi, Luisa S; Hoffmann, Anne; Ghosh, Adhideb; Matrisch-Dinkler, Birgit; Zheng, Yiran; Peters, Triinu; Sun, Wenfei; Dong, Hua; Noé, Falko; Wolfrum, Christian; Herpertz-Dahlmann, Beate; Seitz, Jochen; de Zwaan, Martina; Herzog, Wolfgang; Ehrlich, Stefan; Zipfel, Stephan; Giel, Katrin; Egberts, Karin; Burghardt, Roland; Föcker, Manuel; Tsai, Linus T; Müller, Timo D; Blüher, Matthias; Hebebrand, Johannes; Hirtz, Raphael; Hinney, Anke Frontiers in genetics 37101650 2023
DNA methylation markers for kidney function and progression of diabetic kidney disease. Li, Kelly Yichen; Tam, Claudia Ha Ting; Liu, Hongbo; Day, Samantha; Lim, Cadmon King Poo; So, Wing Yee; Huang, Chuiguo; Jiang, Guozhi; Shi, Mai; Lee, Heung Man; TRANSCEND Consortium; Lan, Hui-Yao; Szeto, Cheuk-Chun; Hanson, Robert L; Nelson, Robert G; Susztak, Katalin; Chan, Juliana C N; Yip, Kevin Y; Ma, Ronald C W Nature communications 37188670 2023 May 15
Mendelian Randomization and Transcriptome-Wide Association Analysis Identified Genes That Were Pleiotropically Associated with Intraocular Pressure. Yang, Zhikun; Zhang, Zhewei; Zhu, Yining; Yuan, Guangwei; Yang, Jingyun; Yu, Weihong Genes 37239387 2023 Apr 30
Modeling of mitochondrial genetic polymorphisms reveals induction of heteroplasmy by pleiotropic disease locus 10398A>G. Smullen, Molly; Olson, Meagan N; Murray, Liam F; Suresh, Madhusoodhanan; Yan, Guang; Dawes, Pepper; Barton, Nathaniel J; Mason, Jivanna N; Zhang, Yucheng; Fernandez-Fontaine, Aria A; Church, George M; Mastroeni, Diego; Wang, Qi; Lim, Elaine T; Chan, Yingleong; Readhead, Benjamin Scientific reports 37369829 2023 Jun 27
Nerve growth factor receptor (Ngfr) induces neurogenic plasticity by suppressing reactive astroglial Lcn2/Slc22a17 signaling in Alzheimer's disease. Siddiqui, Tohid; Cosacak, Mehmet Ilyas; Popova, Stanislava; Bhattarai, Prabesh; Yilmaz, Elanur; Lee, Annie J; Min, Yuhao; Wang, Xue; Allen, Mariet; İş, Özkan; Atasavum, Zeynep Tansu; Rodriguez-Muela, Natalia; Vardarajan, Badri N; Flaherty, Delaney; Teich, Andrew F; Santa-Maria, Ismael; Freudenberg, Uwe; Werner, Carsten; Tosto, Giuseppe; Mayeux, Richard; Ertekin-Taner, Nilüfer; Kizil, Caghan NPJ Regenerative medicine 37429840 2023 Jul 10
Pan-primate studies of age and sex. Horvath, Steve; Haghani, Amin; Zoller, Joseph A; Lu, Ake T; Ernst, Jason; Pellegrini, Matteo; Jasinska, Anna J; Mattison, Julie A; Salmon, Adam B; Raj, Ken; Horvath, Markus; Paul, Kimberly C; Ritz, Beate R; Robeck, Todd R; Spriggs, Maria; Ehmke, Erin E; Jenkins, Susan; Li, Cun; Nathanielsz, Peter W GeroScience 37493860 2023 Dec
Associations of Early-Life Adversity With Later-Life Epigenetic Aging Profiles in the Multi-Ethnic Study of Atherosclerosis. Schmitz, Lauren L; Duffie, Elizabeth; Zhao, Wei; Ratliff, Scott M; Ding, Jingzhong; Liu, Yongmei; Merkin, Sharon Stein; Smith, Jennifer A; Seeman, Teresa American journal of epidemiology 37579321 2023 Nov 10
iNETgrate: integrating DNA methylation and gene expression data in a single gene network. Sajedi, Sogand; Ebrahimi, Ghazal; Roudi, Raheleh; Mehta, Isha; Samimi, Hanie; Kazempour, Shiva; Zainulabadeen, Aamir; Docking, Thomas Roderick; Arora, Sukeshi Patel; Cigarroa, Francisco; Seshadri, Sudha; Karsan, Aly; Zare, Habil Research square 37645739 2023 Aug 18
ChromGene: gene-based modeling of epigenomic data. Jaroszewicz, Artur; Ernst, Jason Genome biology 37679846 2023 Sep 07
Non-small Cell Lung Cancer Epigenomes Exhibit Altered DNA Methylation in Smokers and Never-smokers. Karlow, Jennifer A; Pehrsson, Erica C; Xing, Xiaoyun; Watson, Mark; Devarakonda, Siddhartha; Govindan, Ramaswamy; Wang, Ting Genomics, proteomics & bioinformatics 37742993 2023 Oct
The impact of blood MCP-1 levels on Alzheimer's disease with genetic variation of UNC5C and NAV3 loci. Huang, Jinghan; Wang, Yixuan; Stein, Thor D; Ang, Ting Fang Alvin; Zhu, Yibo; Tao, Qiushan; Lunetta, Kathryn L; Mez, Jesse; Au, Rhoda; Farrer, Lindsay A; Qiu, Wei Qiao; Zhang, Xiaoling Research square 37841863 2023 Sep 28
Multivariate adaptive shrinkage improves cross-population transcriptome prediction and association studies in underrepresented populations. Araujo, Daniel S; Nguyen, Chris; Hu, Xiaowei; Mikhaylova, Anna V; Gignoux, Chris; Ardlie, Kristin; Taylor, Kent D; Durda, Peter; Liu, Yongmei; Papanicolaou, George; Cho, Michael H; Rich, Stephen S; Rotter, Jerome I; NHLBI TOPMed Consortium; Im, Hae Kyung; Manichaikul, Ani; Wheeler, Heather E HGG advances 37869564 2023 Oct 12
Single-cell transcriptomics and chromatin accessibility profiling elucidate the kidney-protective mechanism of mineralocorticoid receptor antagonists. Abedini, Amin; Sánchez-Navaro, Andrea; Wu, Junnan; Klötzer, Konstantin A; Ma, Ziyuan; Poudel, Bibek; Doke, Tomohito; Balzer, Michael S; Frederick, Julia; Cernecka, Hana; Liu, Hongbo; Liang, Xiujie; Vitale, Steven; Kolkhof, Peter; Susztak, Katalin The Journal of clinical investigation 37906287 2024 Jan 02
Methods for mediation analysis with high-dimensional DNA methylation data: Possible choices and comparisons. Clark-Boucher, Dylan; Zhou, Xiang; Du, Jiacong; Liu, Yongmei; Needham, Belinda L; Smith, Jennifer A; Mukherjee, Bhramar PLoS genetics 37934796 2023 Nov
Sex-specific genetic architecture of late-life memory performance. Eissman, Jaclyn M; Archer, Derek B; Mukherjee, Shubhabrata; Lee, Michael L; Choi, Seo-Eun; Scollard, Phoebe; Trittschuh, Emily H; Mez, Jesse B; Bush, William S; Kunkle, Brian W; Naj, Adam C; Gifford, Katherine A; Alzheimer's Disease Neuroimaging Initiative (ADNI) | Alzheimer's Disease Genetics Consortium (ADGC) | The Alzheimer's Disease Sequencing Project (ADSP); Cuccaro, Michael L; Cruchaga, Carlos; Pericak-Vance, Margaret A; Farrer, Lindsay A; Wang, Li-San; Schellenberg, Gerard D; Mayeux, Richard P; Haines, Jonathan L; Jefferson, Angela L; Kukull, Walter A; Keene, C Dirk; Saykin, Andrew J; Thompson, Paul M; Martin, Eden R; Bennett, David A; Barnes, Lisa L; Schneider, Julie A; Crane, Paul K; Hohman, Timothy J; Dumitrescu, Logan Alzheimer's & dementia : the journal of the Alzheimer's Association 37984853 2024 Feb
Longitudinal change in memory performance as a strong endophenotype for Alzheimer's disease. Archer, Derek B; Eissman, Jaclyn M; Mukherjee, Shubhabrata; Lee, Michael L; Choi, Seo-Eun; Scollard, Phoebe; Trittschuh, Emily H; Mez, Jesse B; Bush, William S; Kunkle, Brian W; Naj, Adam C; Gifford, Katherine A; Alzheimer's Disease Neuroimaging Initiative (ADNI); Alzheimer's Disease Genetics Consortium (ADGC); Alzheimer's Disease Sequencing Project (ADSP); Cuccaro, Michael L; Pericak-Vance, Margaret A; Farrer, Lindsay A; Wang, Li-San; Schellenberg, Gerard D; Mayeux, Richard P; Haines, Jonathan L; Jefferson, Angela L; Kukull, Walter A; Keene, C Dirk; Saykin, Andrew J; Thompson, Paul M; Martin, Eden R; Bennett, David A; Barnes, Lisa L; Schneider, Julie A; Crane, Paul K; Dumitrescu, Logan; Hohman, Timothy J Alzheimer's & dementia : the journal of the Alzheimer's Association 37985223 2024 Feb
Polygenic burden of short tandem repeat expansions promote risk for Alzheimer's disease. Guo, Michael H; Lee, Wan-Ping; Vardarajan, Badri; Schellenberg, Gerard D; Phillips-Cremins, Jennifer medRxiv : the preprint server for health sciences 38014121 2023 Nov 16
Combing Genome-Wide Association Studies and Single-Cell Analysis to Elucidate the Mechanisms of Kidney Disease: Proceedings of the Henry Shavelle Professorship. Levinsohn, Jonathan; Li, Shen; Ha, Eunji; Susztak, Katalin Glomerular diseases 38033715 2023
ACSS2 gene variants determine kidney disease risk by controlling de novo lipogenesis in kidney tubules. Mukhi, Dhanunjay; Li, Lingzhi; Liu, Hongbo; Doke, Tomohito; Kolligundla, Lakshmi P; Ha, Eunji; Kloetzer, Konstantin; Abedini, Amin; Mukherjee, Sarmistha; Wu, Junnan; Dhillon, Poonam; Hu, Hailong; Guan, Dongyin; Funai, Katsuhiko; Uehara, Kahealani; Titchenell, Paul M; Baur, Joseph A; Wellen, Kathryn E; Susztak, Katalin The Journal of clinical investigation 38051585 2023 Dec 05
Integrating DNA methylation and gene expression data in a single gene network using the iNETgrate package. Sajedi, Sogand; Ebrahimi, Ghazal; Roudi, Raheleh; Mehta, Isha; Heshmat, Amirreza; Samimi, Hanie; Kazempour, Shiva; Zainulabadeen, Aamir; Docking, Thomas Roderick; Arora, Sukeshi Patel; Cigarroa, Francisco; Seshadri, Sudha; Karsan, Aly; Zare, Habil Scientific reports 38066050 2023 Dec 08
An epigenome-wide analysis of DNA methylation, racialized and economic inequities, and air pollution. Watkins, Sarah Holmes; Testa, Christian; Simpkin, Andrew J; Smith, George Davey; Coull, Brent; De Vivo, Immaculata; Tilling, Kate; Waterman, Pamela D; Chen, Jarvis T; Diez-Roux, Ana V; Krieger, Nancy; Suderman, Matthew; Relton, Caroline bioRxiv : the preprint server for biology 38105971 2023 Dec 08
Epigenetic aging & embodying injustice: US My Body My Story and Multi-Ethnic Atherosclerosis Study. Krieger, Nancy; Testa, Christian; Chen, Jarvis T; Johnson, Nykesha; Watkins, Sarah H; Suderman, Matthew; Simpkin, Andrew J; Tilling, Kate; Waterman, Pamela D; Coull, Brent A; De Vivo, Immaculata; Smith, George Davey; Roux, Ana V Diez; Relton, Caroline medRxiv : the preprint server for health sciences 38168159 2023 Dec 14
Metabolomics profiling reveals distinct, sex-specific signatures in the serum and brain metabolomes in the mouse models of Alzheimer's disease. Pandey, Ravi S; Arnold, Mattias; Batra, Richa; Krumsiek, Jan; Kotredes, Kevin P; Garceau, Dylan; Williams, Harriet; Sasner, Michael; Howell, Gareth R; Kaddurah-Daouk, Rima; Carter, Gregory W bioRxiv : the preprint server for biology 38187571 2023 Dec 22
Downregulation of Dickkopf-3, a Wnt antagonist elevated in Alzheimer's disease, restores synapse integrity and memory in a disease mouse model. Martin Flores, Nuria; Podpolny, Marina; McLeod, Faye; Workman, Isaac; Crawford, Karen; Ivanov, Dobril; Leonenko, Ganna; Escott-Price, Valentina; Salinas, Patricia C eLife 38285009 2024 Jan 29
Unraveling the epigenetic code: human kidney DNA methylation and chromatin dynamics in renal disease development. Yan, Yu; Liu, Hongbo; Abedini, Amin; Sheng, Xin; Palmer, Matthew; Li, Hongzhe; Susztak, Katalin Nature communications 38287030 2024 Jan 29
Individual bioenergetic capacity as a potential source of resilience to Alzheimer's disease. Arnold, Matthias; Buyukozkan, Mustafa; Doraiswamy, P Murali; Nho, Kwangsik; Wu, Tong; Gudnason, Vilmundur; Launer, Lenore J; Wang-Sattler, Rui; Adamski, Jerzy; Alzheimer’s Disease Neuroimaging Initiative; Alzheimer’s Disease Metabolomics Consortium; De Jager, Philip L; Ertekin-Taner, Nilüfer; Bennett, David A; Saykin, Andrew J; Peters, Annette; Suhre, Karsten; Kaddurah-Daouk, Rima; Kastenmüller, Gabi; Krumsiek, Jan medRxiv : the preprint server for health sciences 38313266 2024 Jan 24
APOE genotype-specific methylation patterns are linked to Alzheimer disease pathology and estrogen response. Panitch, Rebecca; Sahelijo, Nathan; Hu, Junming; Nho, Kwangsik; Bennett, David A; Lunetta, Kathryn L; Au, Rhoda; Stein, Thor D; Farrer, Lindsay A; Jun, Gyungah R Translational psychiatry 38424036 2024 Feb 29
Activation of the imprinted Prader-Willi Syndrome locus by CRISPR-based epigenome editing. Rohm, Dahlia; Black, Joshua B; McCutcheon, Sean R; Barrera, Alejandro; Morone, Daniel J; Nuttle, Xander; de Esch, Celine E; Tai, Derek J C; Talkowski, Michael E; Iglesias, Nahid; Gersbach, Charles A bioRxiv : the preprint server for biology 38496583 2024 Mar 04

This page last reviewed on April 25, 2024