Program Publications
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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 |
---|---|---|---|---|
LINCS Canvas Browser: interactive web app to query, browse and interrogate LINCS L1000 gene expression signatures. | Duan, Qiaonan; Flynn, Corey; Niepel, Mario; Hafner, Marc; Muhlich, Jeremy L; Fernandez, Nicolas F; Rouillard, Andrew D; Tan, Christopher M; Chen, Edward Y; Golub, Todd R; Sorger, Peter K; Subramanian, Aravind; Ma'ayan, Avi | Nucleic acids research | 24906883 | 2014 Jul |
Autophagy induction enhances TDP43 turnover and survival in neuronal ALS models. | Barmada, Sami J; Serio, Andrea; Arjun, Arpana; Bilican, Bilada; Daub, Aaron; Ando, D Michael; Tsvetkov, Andrey; Pleiss, Michael; Li, Xingli; Peisach, Daniel; Shaw, Christopher; Chandran, Siddharthan; Finkbeiner, Steven | Nature chemical biology | 24974230 | 2014 Aug |
Drug/Cell-line Browser: interactive canvas visualization of cancer drug/cell-line viability assay datasets. | Duan, Qiaonan; Wang, Zichen; Fernandez, Nicolas F; Rouillard, Andrew D; Tan, Christopher M; Benes, Cyril H; Ma'ayan, Avi | Bioinformatics (Oxford, England). | 25100688 | 2014 Nov 15; |
Lean Big Data integration in systems biology and systems pharmacology. | Ma'ayan, Avi; Rouillard, Andrew D; Clark, Neil R; Wang, Zichen; Duan, Qiaonan; Kou, Yan | Trends in pharmacological sciences | 25109570 | 2014 Sep |
The TLQP-21 peptide activates the G-protein-coupled receptor C3aR1 via a folding-upon-binding mechanism | Cero C, Vostrikov VV, Verardi R, Severini C, Gopinath T, Braun PD, Sassano MF, Gurney A, Roth BL, Vulchanova L, Possenti R, Veglia G, Bartolomucci A. | Structure | 25456411 | 2014 Dec 2 |
REDD1 functions at the crossroads between the therapeutic and adverse effects of topical glucocorticoids. | Baida, Gleb; Bhalla, Pankaj; Kirsanov, Kirill; Lesovaya, Ekaterina; Yakubovskaya, Marianna; Yuen, Kit; Guo, Shuchi; Lavker, Robert M; Readhead, Ben; Dudley, Joel T; Budunova, Irina | EMBO molecular medicine. | 25504525 | 2015 Jan; |
Computational and experimental advances in drug repositioning for accelerated therapeutic stratification | Shameer K, Readhead B, Dudley JT. | Current Topics in Medicinal Chemistry | 25579574 | 2015 |
Genomic and network patterns of schizophrenia genetic variation in human evolutionary accelerated regions. | Xu, Ke; Schadt, Eric E; Pollard, Katherine S; Roussos, Panos; Dudley, Joel T | Molecular biology and evolution. | 25681384 | 2015 May; |
Genome-wide significant loci: how important are they? Systems genetics to understand heritability of coronary artery disease and other common complex disorders. | Björkegren, Johan L M; Kovacic, Jason C; Dudley, Joel T; Schadt, Eric E | Journal of the American College of Cardiology. | 25720628 | 2015 Mar 3; |
Cell-Based Screening: Extracting Meaning from Complex Data | Finkbeiner S., Frumkin M., Kassner PD | Neuron | 25856492 | 2015 Apr 8 |
Inhibition of Lapatinib-Induced Kinome Reprogramming in ERBB2-Positive Breast Cancer by Targeting BET Family Bromodomains. | Stuhlmiller, Timothy J; Miller, Samantha M; Zawistowski, Jon S; Nakamura, Kazuhiro; Beltran, Adriana S; Duncan, James S; Angus, Steven P; Collins, Kyla A L; Granger, Deborah A; Reuther, Rachel A; Graves, Lee M; Gomez, Shawn M; Kuan, Pei-Fen; Parker, Joel | Cell reports. | 25865888 | 2015 Apr 21; |
PRESTO-Tango as an open-source resource for interrogation of the druggable human GPCRome. | Kroeze, Wesley K; Sassano, Maria F; Huang, Xi-Ping; Lansu, Katherine; McCorvy, John D; Giguère, Patrick M; Sciaky, Noah; Roth, Bryan L | Nature structural & molecular biology. | 25895059 | 2015 May; |
GEO2Enrichr: browser extension and server app to extract gene sets from GEO and analyze them for biological functions. | Gundersen, Gregory W; Jones, Matthew R; Rouillard, Andrew D; Kou, Yan; Monteiro, Caroline D; Feldmann, Axel S; Hu, Kevin S; Ma'ayan, Avi | Bioinformatics (Oxford, England). | 25971742 | 2015 Sep 15; |
Choosing the Right Tool for the Job: RNAi, TALEN, or CRISPR. | Boettcher, Michael; McManus, Michael T | Molecular cell. | 26000843 | 2015 May 21; |
Dynamics of the discovery process of protein-protein interactions from low content studies. | Wang, Zichen; Clark, Neil R; Ma'ayan, Avi | BMC systems biology. | 26048415 | 2015; |
Integrated Approaches for Genome-wide Interrogation of the Druggable Non-olfactory G Protein-coupled Receptor Superfamily. | Roth, Bryan L; Kroeze, Wesley K | The Journal of biological chemistry. | 26100629 | 2015 Aug 7; |
Publisher?s Note:Abstraction for data integration:Fusing mammalian molecular, cellular and phenotype big datasets for better knowledge extraction. | Rouillard, Andrew D; Wang, Zichen; Ma'ayan, Avi | Computational biology and chemistry. | 26101093 | 2015 Oct; |
Morphine Regulated Synaptic Networks Revealed by Integrated Proteomics and Network Analysis. | Stockton Jr, Steven D; Gomes, Ivone; Liu, Tong; Moraje, Chandrakala; Hipólito, Lucia; Jones, Matthew R; Ma'ayan, Avi; Morón, Jose A; Li, Hong; Devi, Lakshmi A | Molecular & cellular proteomics : MCP. | 26149443 | 2015 Oct; |
Comprehensive comparison of large-scale tissue expression datasets | Santos A, Tsafou K, Stolte C, Pletscher-Frankild S, O'Donoghue SI, Jensen LJ. | Peer J | 26157623 | 2015 June 30 |
HOODS: finding context-specific neighborhoods of proteins, chemicals and diseases. | Palleja, Albert; Jensen, Lars J | PeerJ. | 26157625 | 2015; |
Computational and Practical Aspects of Drug Repositioning. | Oprea, Tudor I; Overington, John P | Assay and drug development technologies. | 26241209 | 2015 Jul-Aug; |
An Integrated Transcriptome Atlas of Embryonic Hair Follicle Progenitors, Their Niche, and the Developing Skin. | Sennett, Rachel; Wang, Zichen; Rezza, Amélie; Grisanti, Laura; Roitershtein, Nataly; Sicchio, Cristina; Mok, Ka Wai; Heitman, Nicholas J; Clavel, Carlos; Ma'ayan, Avi; Rendl, Michael | Developmental cell. | 26256211 | 2015 Sep 14; |
Reprint of ''Abstraction for data integration: Fusing mammalian molecular, cellular and phenotype big datasets for better knowledge extraction''. | Rouillard, Andrew D; Wang, Zichen; Ma'ayan, Avi | Computational biology and chemistry. | 26297300 | 2015 Dec; |
Noribogaine is a G-protein biased ?-opioid receptor agonist. | Maillet, Emeline L; Milon, Nicolas; Heghinian, Mari D; Fishback, James; Schürer, Stephan C; Garamszegi, Nandor; Mash, Deborah C | Neuropharmacology. | 26302653 | 2015 Dec; |
Identification of type 2 diabetes subgroups through topological analysis of patient similarity. | Li, Li; Cheng, Wei-Yi; Glicksberg, Benjamin S; Gottesman, Omri; Tamler, Ronald; Chen, Rong; Bottinger, Erwin P; Dudley, Joel T | Science translational medicine. | 26511511 | 2015 Oct 28; |
Clinical Trials in a Dish: The Potential of Pluripotent Stem Cells to Develop Therapies for Neurodegenerative Diseases. | Haston, Kelly M; Finkbeiner, Steven | Annual review of pharmacology and toxicology. | 26514199 | 2016; |
Allosteric ligands for the pharmacologically dark receptors GPR68 and GPR65. | Huang, Xi-Ping; Karpiak, Joel; Kroeze, Wesley K; Zhu, Hu; Chen, Xin; Moy, Sheryl S; Saddoris, Kara A; Nikolova, Viktoriya D; Farrell, Martilias S; Wang, Sheng; Mangano, Thomas J; Deshpande, Deepak A; Jiang, Alice; Penn, Raymond B; Jin, Jian; Koller, Bever | Nature. | 26550826 | 2015 Nov 26; |
Molecular systems evaluation of oligomerogenic APP(E693Q) and fibrillogenic APP(KM670/671NL)/PSEN1(?exon9) mouse models identifies shared features with human Alzheimer's brain molecular pathology. | Readhead, B; Haure-Mirande, J-V; Zhang, B; Haroutunian, V; Gandy, S; Schadt, E E; Dudley, J T; Ehrlich, M E | Molecular psychiatry. | 26552589 | 2015 Nov 10; |
Mapping the effects of drugs on the immune system. | Kidd, Brian A; Wroblewska, Aleksandra; Boland, Mary R; Agudo, Judith; Merad, Miriam; Tatonetti, Nicholas P; Brown, Brian D; Dudley, Joel T | Nature biotechnology. | 26619012 | 2016 Jan; |
Fetal liver hematopoietic stem cell niches associate with portal vessels. | Khan, Jalal A; Mendelson, Avital; Kunisaki, Yuya; Birbrair, Alexander; Kou, Yan; Arnal-Estapé, Anna; Pinho, Sandra; Ciero, Paul; Nakahara, Fumio; Ma'ayan, Avi; Bergman, Aviv; Merad, Miriam; Frenette, Paul S | Science (New York, N.Y.). | 26634440 | 2016 Jan 8; |
A three-groups model for high-throughput survival screens. | Shaby, Benjamin A; Skibinski, Gaia; Ando, Michael; LaDow, Eva S; Finkbeiner, Steven | Biometrics. | 26821783 | 2016 Jan 28; |
Leveraging Large-scale Behavioral Profiling in Zebrafish to Explore Neuroactive Polypharmacology. | McCarroll, Matthew N; Gendelev, Leo; Keiser, Michael J; Kokel, David | ACS chemical biology. | 26845413 | 2016 Apr 15; |
Principal Angle Enrichment Analysis (PAEA): Dimensionally Reduced Multivariate Gene Set Enrichment Analysis Tool. | Clark, Neil R; Szymkiewicz, Maciej; Wang, Zichen; Monteiro, Caroline D; Jones, Matthew R; Ma'ayan, Avi | Proceedings. IEEE International Conference on Bioinformatics and Biomedicine. | 26848405 | 2015 Nov; |
Integrative radiogenomic analysis for multicentric radiophenotype in glioblastoma | Kong DS, Kim J, Lee IH, Kim ST, Seol HJ, Lee JI, Park WY, Ryu G, Wang Z, Ma'ayan A, Nam DH | Oncotarget | 26863628 | 2016 Feb 1 |
Translational bioinformatics in the era of real-time biomedical, health care and wellness data streams | Shameer K, Badgeley MA, Miotto R, Glicksberg BS, Morgan JW, Dudley JT | Brief Bioinform | 26876889 | 2016 Feb 14 |
Docking Screens for Novel Ligands Conferring New Biology. | Irwin, John J; Shoichet, Brian K | Journal of medicinal chemistry. | 26913380 | 2016 05 12; |
Polygenic overlap between schizophrenia risk and antipsychotic response: a genomic medicine approach. | Ruderfer, Douglas M; Charney, Alexander W; Readhead, Ben; Kidd, Brian A; Kähler, Anna K; Kenny, Paul J; Keiser, Michael J; Moran, Jennifer L; Hultman, Christina M; Scott, Stuart A; Sullivan, Patrick F; Purcell, Shaun M; Dudley, Joel T; Sklar, Pamela | The lancet. Psychiatry. | 26915512 | 2016 Apr; |
In Vitro and In Vivo Characterization of the Alkaloid Nuciferine. | Farrell, Martilias S; McCorvy, John D; Huang, Xi-Ping; Urban, Daniel J; White, Kate L; Giguere, Patrick M; Doak, Allison K; Bernstein, Alison I; Stout, Kristen A; Park, Su Mi; Rodriguiz, Ramona M; Gray, Bradley W; Hyatt, William S; Norwood, Andrew P; Webs | PloS one. | 26963248 | 2016; |
Signaling Networks among Stem Cell Precursors, Transit-Amplifying Progenitors, and their Niche in Developing Hair Follicles. | Rezza, Amélie; Wang, Zichen; Sennett, Rachel; Qiao, Wenlian; Wang, Dongmei; Heitman, Nicholas; Mok, Ka Wai; Clavel, Carlos; Yi, Rui; Zandstra, Peter; Ma'ayan, Avi; Rendl, Michael | Cell reports. | 27009580 | 2016 Mar 29; |
Evaluation of direct-to-consumer low-volume lab tests in healthy adults | Kidd BA, Hoffman G, Zimmerman N, Li L, Morgan JW, Glowe PK, Botwin GJ, Parekh S, Babic N, Doust MW, Stock GB, Schadt EE, Dudley JT | J Clin Invest | 27018593 | 2016 Mar 28 |
Integrative network modeling approaches to personalized cancer medicine. | Kidd BA, Readhead BP, Eden C, Parekh S, Dudley JT. | Personalized Medicine | 27019658 | 2015 Jun 1 |
Integrative network modeling approaches to personalized cancer medicine | Kidd BA, Readhead BP, Eden C, Parekh S, Dudley JT | Personalized Medicine | 27019658 | 2015 Jun 1 |
Discovery of a specific inhibitor of human GLUT5 by virtual screening and in vitro transport evaluation | George-Thompson AM, Ursu O, Babkin P, Iancu CV, Whang A, Oprea TI, Choe JY | Scientific Reports | 27074918 | Epub 2016 Apr 14. |
In silico methods for drug repurposing and pharmacology. | Hodos, Rachel A; Kidd, Brian A; Shameer, Khader; Readhead, Ben P; Dudley, Joel T | Wiley interdisciplinary reviews. Systems biology and medicine. | 27080087 | 2016 May; |
Enrichr: a comprehensive gene set enrichment analysis web server 2016 update. | Kuleshov, Maxim V; Jones, Matthew R; Rouillard, Andrew D; Fernandez, Nicolas F; Duan, Qiaonan; Wang, Zichen; Koplev, Simon; Jenkins, Sherry L; Jagodnik, Kathleen M; Lachmann, Alexander; McDermott, Michael G; Monteiro, Caroline D; Gundersen, Gregory W; Ma'ayan, Avi | Nucleic acids research. | 27141961 | 2016 Jul 8; |
Drug-induced adverse events prediction with the LINCS L1000 data. | Wang, Zichen; Clark, Neil R; Ma'ayan, Avi | Bioinformatics (Oxford, England). | 27153606 | 2016 Aug 1; |
Systems Medicine Approaches to Improving Understanding, Treatment, and Clinical Management of Neuroendocrine Prostate Cancer. | Yadav, Kamlesh K; Shameer, Khader; Readhead, Ben; Yadav, Shalini S; Li, Li; Kasarskis, Andrew; Tewari, Ashutosh K; Dudley, Joel T | Current pharmaceutical design. | 27174811 | 2016; |
BDDCS, the Rule of 5 and drugability. | Benet, Leslie Z; Hosey, Chelsea M; Ursu, Oleg; Oprea, Tudor I | Advanced drug delivery reviews. | 27182629 | 2016 Jun 1; |
Deep Patient: An Unsupervised Representation to Predict the Future of Patients from the Electronic Health Records. | Miotto, Riccardo; Li, Li; Kidd, Brian A; Dudley, Joel T | Scientific reports. | 27185194 | 2016 May 17; |
Cre dependent DREADD (designer receptors exclusively activated by designer drugs) mice. | Zhu, Hu; Aryal, Dipendra K; Olsen, Reid H J; Urban, Daniel J; Swearingen, Amanda; Forbes, Stacy; Roth, Bryan L; Hochgeschwender, Ute | Genesis (New York, N.Y. : 2000). | 27194399 | 2016 May 19; |
Glucocorticoid receptor isoforms direct distinct mitochondrial programs to regulate ATP production. | Morgan, David J; Poolman, Toryn M; Williamson, Andrew J K; Wang, Zichen; Clark, Neil R; Ma'ayan, Avi; Whetton, Anthony D; Brass, Andrew; Matthews, Laura C; Ray, David W | Scientific reports | 27226058 | 2016 05 26 |
Badapple: promiscuity patterns from noisy evidence. | Yang, Jeremy J; Ursu, Oleg; Lipinski, Christopher A; Sklar, Larry A; Oprea, Tudor I; Bologa, Cristian G | Journal of cheminformatics. | 27239230 | 2016; |
Zebrafish behavioral profiling identifies multitarget antipsychotic-like compounds. | Bruni, Giancarlo; Rennekamp, Andrew J; Velenich, Andrea; McCarroll, Matthew; Gendelev, Leo; Fertsch, Ethan; Taylor, Jack; Lakhani, Parth; Lensen, Dennis; Evron, Tama; Lorello, Paul J; Huang, Xi-Ping; Kolczewski, Sabine; Carey, Galen; Caldarone, Barbara J; Prinssen, Eric; Roth, Bryan L; Keiser, Michael J; Peterson, Randall T; Kokel, David | Nature chemical biology. | 27239787 | 2016 Jul; |
?1 receptor ligands control a switch between passive and active threat responses. | Rennekamp, Andrew J; Huang, Xi-Ping; Wang, You; Patel, Samir; Lorello, Paul J; Cade, Lindsay; Gonzales, Andrew P W; Yeh, Jing-Ruey Joanna; Caldarone, Barbara J; Roth, Bryan L; Kokel, David; Peterson, Randall T | Nature chemical biology. | 27239788 | 2016 Jul; |
Cognitive Machine-Learning Algorithm for Cardiac Imaging: A Pilot Study for Differentiating Constrictive Pericarditis From Restrictive Cardiomyopathy. | Sengupta, Partho P; Huang, Yen-Min; Bansal, Manish; Ashrafi, Ali; Fisher, Matt; Shameer, Khader; Gall, Walt; Dudley, Joel T | Circulation. Cardiovascular imaging. | 27266599 | 2016 Jun; |
Krüppel-Like Factor 15 Mediates Glucocorticoid-Induced Restoration of Podocyte Differentiation Markers. | Mallipattu, Sandeep K; Guo, Yiqing; Revelo, Monica P; Roa-Peña, Lucia; Miller, Timothy; Ling, Jason; Shankland, Stuart J; Bialkowska, Agnieszka B; Ly, Victoria; Estrada, Chelsea; Jain, Mukesh K; Lu, Yuan; Ma'ayan, Avi; Mehrotra, Anita; Yacoub, Rabi; Nord, Edward P; Woroniecki, Robert P; Yang, Vincent W; He, John C | Journal of the American Society of Nephrology : JASN. | 27288011 | 2016 Jun 10; |
Comparative analyses of population-scale phenomic data in electronic medical records reveal race-specific disease networks. | Glicksberg, Benjamin S; Li, Li; Badgeley, Marcus A; Shameer, Khader; Kosoy, Roman; Beckmann, Noam D; Pho, Nam; Hakenberg, Jörg; Ma, Meng; Ayers, Kristin L; Hoffman, Gabriel E; Dan Li, Shuyu; Schadt, Eric E; Patel, Chirag J; Chen, Rong; Dudley, Joel T | Bioinformatics (Oxford, England). | 27307606 | 2016 Jun 15; |
The harmonizome: a collection of processed datasets gathered to serve and mine knowledge about genes and proteins. | Rouillard, Andrew D; Gundersen, Gregory W; Fernandez, Nicolas F; Wang, Zichen; Monteiro, Caroline D; McDermott, Michael G; Ma'ayan, Avi | Database : the journal of biological databases and curation | 27374120 | 2016 |
High quality, small molecule-activity datasets for kinase research. | Sharma, Rajan; Schürer, Stephan C; Muskal, Steven M | F1000Research. | 27429748 | 2016; |
Identification of Novel Smoothened Ligands Using Structure-Based Docking. | Lacroix, Celine; Fish, Inbar; Torosyan, Hayarpi; Parathaman, Pranavan; Irwin, John J; Shoichet, Brian K; Angers, Stephane | PloS one. | 27490099 | 2016; |
Polycomb repressive complex 2 (PRC2) silences genes responsible for neurodegeneration. | von Schimmelmann, Melanie; Feinberg, Philip A; Sullivan, Josefa M; Ku, Stacy M; Badimon, Ana; Duff, Mary Kaye; Wang, Zichen; Lachmann, Alexander; Dewell, Scott; Ma'ayan, Avi; Han, Ming-Hu; Tarakhovsky, Alexander; Schaefer, Anne | Nature neuroscience. | 27526204 | 2016 Oct; |
Structure-based discovery of opioid analgesics with reduced side effects. | Manglik, Aashish; Lin, Henry; Aryal, Dipendra K; McCorvy, John D; Dengler, Daniela; Corder, Gregory; Levit, Anat; Kling, Ralf C; Bernat, Viachaslau; Hübner, Harald; Huang, Xi-Ping; Sassano, Maria F; Giguère, Patrick M; Löber, Stefan; Da Duan; Scherrer, Gr | Nature. | 27533032 | 2016 09 08; |
Non-Substrate Based, Small Molecule Inhibitors of the Human Isoprenylcysteine Carboxyl Methyltransferase. | Butler, Kyle V; Bohn, Kelsey; Hrycyna, Christine A; Jin, Jian | MedChemComm. | 27547295 | 2016 May 1; |
An open RNA-Seq data analysis pipeline tutorial with an example of reprocessing data from a recent Zika virus study. | Wang, Zichen; Ma'ayan, Avi | F1000Research. | 27583132 | 2016 Jul 5; |
Replicating Cardiovascular Condition-Birth Month Associations. | Li, Li; Boland, Mary Regina; Miotto, Riccardo; Tatonetti, Nicholas P; Dudley, Joel T | Scientific reports. | 27624541 | 2016 Sep 14; |
Extraction and analysis of signatures from the Gene Expression Omnibus by the crowd. | Wang, Zichen; Monteiro, Caroline D; Jagodnik, Kathleen M; Fernandez, Nicolas F; Gundersen, Gregory W; Rouillard, Andrew D; Jenkins, Sherry L; Feldmann, Axel S; Hu, Kevin S; McDermott, Michael G; Duan, Qiaonan; Clark, Neil R; Jones, Matthew R; Kou, Yan; Goff, Troy; Woodland, Holly; Amaral, Fabio M R; Szeto, Gregory L; Fuchs, Oliver; Schüssler-Fiorenza Rose, Sophia M; Sharma, Shvetank; Schwartz, Uwe; Bausela, Xabier Bengoetxea; Szymkiewicz, Maciej; Maroulis, Vasileios; Salykin, Anton; Barra, Carolina M; Kruth, Candice D; Bongio, Nicholas J; Mathur, Vaibhav; Todoric, Radmila D; Rubin, Udi E; Malatras, Apostolos; Fulp, Carl T; Galindo, John A; Motiejunaite, Ruta; Jüschke, Christoph; Dishuck, Philip C; Lahl, Katharina; Jafari, Mohieddin; Aibar, Sara; Zaravinos, Apostolos; Steenhuizen, Linda H; Allison, Lindsey R; Gamallo, Pablo; de Andres Segura, Fernando; Dae Devlin, Tyler; Pérez-García, Vicente; Ma'ayan, Avi | Nature communications. | 27667448 | 2016 Sep 26; |
Estimation of Maximum Recommended Therapeutic Dose Using Predicted Promiscuity and Potency. | Liu, T; Oprea, T; Ursu, O; Hasselgren, C; Altman, R B | Clinical and translational science. | 27736015 | 2016 12; |
Discovery and Characterization of Novel GPR39 Agonists Allosterically Modulated by Zinc. | Sato, Seiji; Huang, Xi-Ping; Kroeze, Wesley K; Roth, Bryan L | Molecular pharmacology. | 27754899 | 2016 Dec; |
Gold Nanoparticle Reprograms Pancreatic Tumor Microenvironment and Inhibits Tumor Growth. | Saha, Sounik; Xiong, Xunhao; Chakraborty, Prabir K; Shameer, Khader; Arvizo, Rochelle R; Kudgus, Rachel A; Dwivedi, Shailendra Kumar Dhar; Hossen, Md Nazir; Gillies, Elizabeth M; Robertson, J David; Dudley, Joel T; Urrutia, Raul A; Postier, Russell G; Bha | ACS nano. | 27758098 | 2016 12 27; |
DrugCentral: online drug compendium. | Ursu, Oleg; Holmes, Jayme; Knockel, Jeffrey; Bologa, Cristian G; Yang, Jeremy J; Mathias, Stephen L; Nelson, Stuart J; Oprea, Tudor I | Nucleic acids research. | 27789690 | 2017 Jan 4; |
GEN3VA: aggregation and analysis of gene expression signatures from related studies. | Gundersen, Gregory W; Jagodnik, Kathleen M; Woodland, Holly; Fernandez, Nicholas F; Sani, Kevin; Dohlman, Anders B; Ung, Peter Man-Un; Monteiro, Caroline D; Schlessinger, Avner; Ma'ayan, Avi | BMC bioinformatics. | 27846806 | 2016 Nov 15; |
Group based prenatal care in a low-and high risk population in the Netherlands: a study protocol for a stepped wedge cluster randomized controlled trial. | van Zwicht, Birgit S; Crone, Matty R; van Lith, Jan M M; Rijnders, Marlies E B | BMC pregnancy and childbirth | 27846824 | 2016 Nov 15 |
EXPLORING BRAIN TRANSCRIPTOMIC PATTERNS: A TOPOLOGICAL ANALYSIS USING SPATIAL EXPRESSION NETWORKS. | Kuncheva, Zhana; Krishnan, Michelle L; Montana, Giovanni | Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing. | 27896963 | 2016; |
EXPLORING THE REPRODUCIBILITY OF PROBABILISTIC CAUSAL MOLECULAR NETWORK MODELS. | Cohain, Ariella; Divaraniya, Aparna A; Zhu, Kuixi; Scarpa, Joseph R; Kasarskis, Andrew; Zhu, Jun; Chang, Rui; Dudley, Joel T; Schadt, Eric E | Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing. | 27896968 | 2016; |
The ChEMBL database in 2017. | Gaulton, Anna; Hersey, Anne; Nowotka, Michał; Bento, A Patrícia; Chambers, Jon; Mendez, David; Mutowo, Prudence; Atkinson, Francis; Bellis, Louisa J; Cibrián-Uhalte, Elena; Davies, Mark; Dedman, Nathan; Karlsson, Anneli; Magariños, María Paula; Overington, John P; Papadatos, George; Smit, Ines; Leach, Andrew R | Nucleic acids research | 27899562 | 2017 01 04 |
Pharos: Collating protein information to shed light on the druggable genome. | Nguyen, Dac-Trung; Mathias, Stephen; Bologa, Cristian; Brunak, Soren; Fernandez, Nicolas; Gaulton, Anna; Hersey, Anne; Holmes, Jayme; Jensen, Lars Juhl; Karlsson, Anneli; Liu, Guixia; Ma'ayan, Avi; Mandava, Geetha; Mani, Subramani; Mehta, Saurabh; Overington, John; Patel, Juhee; Rouillard, Andrew D; Schürer, Stephan; Sheils, Timothy; Simeonov, Anton; Sklar, Larry A; Southall, Noel; Ursu, Oleg; Vidovic, Dusica; Waller, Anna; Yang, Jeremy; Jadhav, Ajit; Oprea, Tudor I; Guha, Rajarshi | Nucleic acids research. | 27903890 | 2017 Jan 4; |
A comprehensive map of molecular drug targets. | Santos, Rita; Ursu, Oleg; Gaulton, Anna; Bento, A Patrícia; Donadi, Ramesh S; Bologa, Cristian G; Karlsson, Anneli; Al-Lazikani, Bissan; Hersey, Anne; Oprea, Tudor I; Overington, John P | Nature reviews. Drug discovery. | 27910877 | 2017 01; |
Genomic Analysis of Kidney Allograft Injury Identifies Hematopoietic Cell Kinase as a Key Driver of Renal Fibrosis. | Wei, Chengguo; Li, Li; Menon, Madhav C; Zhang, Weijia; Fu, Jia; Kidd, Brian; Keung, Karen L; Woytovich, Christopher; Greene, Ilana; Xiao, Wenzhen; Salem, Fadi; Yi, Zhengzi; He, John Cijiang; Dudley, Joel T; Murphy, Barbara | Journal of the American Society of Nephrology : JASN. | 27927780 | 2017 May; |
Nrf2 mitigates LRRK2- and α-synuclein-induced neurodegeneration by modulating proteostasis. | Gaia Skibinski, Vicky Hwang, Dale Michael Ando, Aaron Daub, Alicia K. Lee, Abinaya Ravisankar, Sara Modan, Mariel M. Finucane, Benjamin A. Shaby, and Steven Finkbeiner | Proceedings of the National Academy of Sciences of the United States of America. | 28028237 | 2017 Jan 31; |
Novel Therapeutics Identification for Fibrosis in Renal Allograft Using Integrative Informatics Approach. | Li, Li; Greene, Ilana; Readhead, Benjamin; Menon, Madhav C; Kidd, Brian A; Uzilov, Andrew V; Wei, Chengguo; Philippe, Nimrod; Schroppel, Bernd; He, John Cijiang; Chen, Rong; Dudley, Joel T; Murphy, Barbara | Scientific reports. | 28051114 | 2017 Jan 04; |
Integrative Analysis of Disease Signatures Shows Inflammation Disrupts Juvenile Experience-Dependent Cortical Plasticity. | Smith, Milo R; Burman, Poromendro; Sadahiro, Masato; Kidd, Brian A; Dudley, Joel T; Morishita, Hirofumi | eNeuro. | 28101530 | 2016 Nov-Dec; |
Protein biomarker druggability profiling. | Mani, Subramani; Cannon, Daniel; Ohls, Robin; Oprea, Tudor; Mathias, Stephen; Ballard, Karri; Ursu, Oleg; Bologa, Cristian | Journal of biomedical informatics. | 28131723 | 2017 Feb; |
Automated cell type discovery and classification through knowledge transfer. | Lee, Hao-Chih; Kosoy, Roman; Becker, Christine E; Dudley, Joel T; Kidd, Brian A | Bioinformatics (Oxford, England). | 28158442 | 2017 Jun 01; |
Transcription Factor Response Elements on Tip: A Sensitive Approach for Large-Scale Endogenous Transcription Factor Quantitative Identification. | Shi, Wenhao; Li, Kai; Song, Lei; Liu, Mingwei; Wang, Yunzhi; Liu, Wanlin; Xia, Xia; Qin, Zhaoyu; Zhen, Bei; Wang, Yi; He, Fuchu; Qin, Jun; Ding, Chen | Analytical chemistry. | 28193032 | 2016 12 20; |
Systematic analyses of drugs and disease indications in RepurposeDB reveal pharmacological, biological and epidemiological factors influencing drug repositioning. | Shameer, Khader; Glicksberg, Benjamin S; Hodos, Rachel; Johnson, Kipp W; Badgeley, Marcus A; Readhead, Ben; Tomlinson, Max S; O'Connor, Timothy; Miotto, Riccardo; Kidd, Brian A; Chen, Rong; Ma'ayan, Avi; Dudley, Joel T | Briefings in bioinformatics. | 28200013 | 2017 Feb 15; |
Differential cytokine contributions of perivascular haematopoietic stem cell niches. | Asada, Noboru; Kunisaki, Yuya; Pierce, Halley; Wang, Zichen; Fernandez, Nicolas F; Birbrair, Alexander; Ma'ayan, Avi; Frenette, Paul S | Nature cell biology. | 28218906 | 2017 Mar; |
Protamine is an antagonist of apelin receptor, and its activity is reversed by heparin. | Le Gonidec, Sophie; Chaves-Almagro, Carline; Bai, Yushi; Kang, Hye Jin; Smith, Allyson; Wanecq, Estelle; Huang, Xi-Ping; Prats, Hervé; Knibiehler, Bernard; Roth, Bryan L; Barak, Larry S; Caron, Marc G; Valet, Philippe; Audigier, Yves; Masri, Bernard | FASEB journal : official publication of the Federation of American Societies for Experimental Biology. | 28242772 | 2017 06; |
A Whole-Genome RNA Interference Screen Reveals a Role for Spry2 in Insulin Transcription and the Unfolded Protein Response. | Pappalardo, Zachary; Gambhir Chopra, Deeksha; Hennings, Thomas G; Richards, Hunter; Choe, Justin; Yang, Katherine; Baeyens, Luc; Ang, Kenny; Chen, Steven; Arkin, Michelle; German, Michael S; McManus, Michael T; Ku, Gregory M | Diabetes. | 28246293 | 2017 Jun; |
Systemic QSAR and phenotypic virtual screening: chasing butterflies in drug discovery. | Cruz-Monteagudo, Maykel; Schürer, Stephan; Tejera, Eduardo; Pérez-Castillo, Yunierkis; Medina-Franco, José L; Sánchez-Rodríguez, Aminael; Borges, Fernanda | Drug discovery today. | 28274840 | 2017 Mar 06; |
GARLH Family Proteins Stabilize GABAA Receptors at Synapses. | Yamasaki, Tokiwa; Hoyos-Ramirez, Erika; Martenson, James S; Morimoto-Tomita, Megumi; Tomita, Susumu | Neuron. | 28279354 | 2017 Mar 08; |
In silico design of novel probes for the atypical opioid receptor MRGPRX2. | Lansu, Katherine; Karpiak, Joel; Liu, Jing; Huang, Xi-Ping; McCorvy, John D; Kroeze, Wesley K; Che, Tao; Nagase, Hiroshi; Carroll, Frank I; Jin, Jian; Shoichet, Brian K; Roth, Bryan L | Nature chemical biology. | 28288109 | 2017 May; |
TIN-X: target importance and novelty explorer. | Cannon, Daniel C; Yang, Jeremy J; Mathias, Stephen L; Ursu, Oleg; Mani, Subramani; Waller, Anna; Schürer, Stephan C; Jensen, Lars Juhl; Sklar, Larry A; Bologa, Cristian G; Oprea, Tudor I | Bioinformatics (Oxford, England). | 28398460 | 2017 Aug 15; |
Dopaminergic control of anxiety in young and aged zebrafish. | Kacprzak, Victoria; Patel, Neil A; Riley, Elizabeth; Yu, Lili; Yeh, Jing-Ruey J; Zhdanova, Irina V | Pharmacology, biochemistry, and behavior. | 28408289 | 2017 06; |
L1000CDS(2): LINCS L1000 characteristic direction signatures search engine. | Duan, Qiaonan; Reid, St Patrick; Clark, Neil R; Wang, Zichen; Fernandez, Nicolas F; Rouillard, Andrew D; Readhead, Ben; Tritsch, Sarah R; Hodos, Rachel; Hafner, Marc; Niepel, Mario; Sorger, Peter K; Dudley, Joel T; Bavari, Sina; Panchal, Rekha G; Ma'ayan, Avi | NPJ systems biology and applications. | 28413689 | 2016; |
Reply: Deep Learning With Unsupervised Feature in Echocardiographic Imaging. | Narula, Sukrit; Shameer, Khader; Salem Omar, Alaa Mabrouk; Dudley, Joel T; Sengupta, Partho P | Journal of the American College of Cardiology. | 28427589 | 2017 04 25; |
A mouse tissue transcription factor atlas. | Zhou, Quan; Liu, Mingwei; Xia, Xia; Gong, Tongqing; Feng, Jinwen; Liu, Wanlin; Liu, Yang; Zhen, Bei; Wang, Yi; Ding, Chen; Qin, Jun | Nature communications. | 28429721 | 2017 Apr 21; |
Deep learning for healthcare: review, opportunities and challenges. | Miotto, Riccardo; Wang, Fei; Wang, Shuang; Jiang, Xiaoqian; Dudley, Joel T | Briefings in bioinformatics. | 28481991 | 2017 May 06; |
Activation of tumor suppressor protein PP2A inhibits KRAS-driven tumor growth. | Sangodkar, Jaya; Perl, Abbey; Tohme, Rita; Kiselar, Janna; Kastrinsky, David B; Zaware, Nilesh; Izadmehr, Sudeh; Mazhar, Sahar; Wiredja, Danica D; O'Connor, Caitlin M; Hoon, Divya; Dhawan, Neil S; Schlatzer, Daniela; Yao, Shen; Leonard, Daniel; Borczuk, A | The Journal of clinical investigation. | 28504649 | 2017 Jun 01; |
From flamingo dance to (desirable) drug discovery: a nature-inspired approach. | Sánchez-Rodríguez, Aminael; Pérez-Castillo, Yunierkis; Schürer, Stephan C; Nicolotti, Orazio; Mangiatordi, Giuseppe Felice; Borges, Fernanda; Cordeiro, M Natalia D S; Tejera, Eduardo; Medina-Franco, José L; Cruz-Monteagudo, Maykel | Drug discovery today. | 28624633 | 2017 Jun 15; |
How Ligands Illuminate GPCR Molecular Pharmacology. | Wacker, Daniel; Stevens, Raymond C; Roth, Bryan L | Cell. | 28753422 | 2017 Jul 27; |
Intracoronary Imaging, Cholesterol Efflux, and Transcriptomics after Intensive Statin Treatment in Diabetes. | Chamaria, Surbhi; Johnson, Kipp W; Vengrenyuk, Yuliya; Baber, Usman; Shameer, Khader; Divaraniya, Aparna A; Glicksberg, Benjamin S; Li, Li; Bhatheja, Samit; Moreno, Pedro; Maehara, Akiko; Mehran, Roxana; Dudley, Joel T; Narula, Jagat; Sharma, Samin K; Kini, Annapoorna S | Scientific reports. | 28765529 | 2017 Aug 01; |
Progress towards a public chemogenomic set for protein kinases and a call for contributions. | Drewry, David H; Wells, Carrow I; Andrews, David M; Angell, Richard; Al-Ali, Hassan; Axtman, Alison D; Capuzzi, Stephen J; Elkins, Jonathan M; Ettmayer, Peter; Frederiksen, Mathias; Gileadi, Opher; Gray, Nathanael; Hooper, Alice; Knapp, Stefan; Laufer, St | PloS one. | 28767711 | 2017; |
Assembly rules for GABAA receptor complexes in the brain. | Martenson, James S;Yamasaki, Tokiwa;Chaudhury, Nashid H;Albrecht, David;Tomita, Susumu | eLife | 28816653 | NULL |
A high-conductance chemo-optogenetic system based on the vertebrate channel Trpa1b. | Lam, Pui-Ying; Mendu, Suresh K; Mills, Robert W; Zheng, Baohui; Padilla, Hugo; Milan, David J; Desai, Bimal N; Peterson, Randall T | Scientific reports. | 28928472 | 2017 Sep 19; |
Complex systems biology. | Ma'ayan, Avi | Journal of the Royal Society, Interface. | 28931638 | 2017 Sep; |
A Bioinformatic Algorithm for Analyzing Cell Signaling Using Temporal Proteomic Data. | Zhang, Chunchao; Chen, Yue; Mao, Xinfang; Huang, Yin; Jung, Sung Yun; Jain, Antrix; Qin, Jun; Wang, Yi | Proteomics. | 28940701 | 2017 Nov; |
Clustergrammer, a web-based heatmap visualization and analysis tool for high-dimensional biological data. | Fernandez, Nicolas F; Gundersen, Gregory W; Rahman, Adeeb; Grimes, Mark L; Rikova, Klarisa; Hornbeck, Peter; Ma'ayan, Avi | Scientific data. | 28994825 | 2017 Oct 10; |
Formalizing drug indications on the road to therapeutic intent. | Nelson, Stuart J; Oprea, Tudor I; Ursu, Oleg; Bologa, Cristian G; Zaveri, Amrapali; Holmes, Jayme; Yang, Jeremy J; Mathias, Stephen L; Mani, Subramani; Tuttle, Mark S; Dumontier, Michel | Journal of the American Medical Informatics Association : JAMIA. | 29016968 | 2017 Nov 01; |
Report and Application of a Tool Compound Data Set. | Butler, Kyle V; MacDonald, Ian A; Hathaway, Nathaniel A; Jin, Jian | Journal of chemical information and modeling. | 29035535 | 2017 Nov 02; |
Biased signaling of the proton-sensing receptor OGR1 by benzodiazepines. | Pera, Tonio; Deshpande, Deepak A; Ippolito, Michael; Wang, Bin; Gavrila, Adelina; Michael, James V; Nayak, Ajay P; Tompkins, Eric; Farrell, Eleni; Kroeze, Wesley K; Roth, Bryan L; Panettieri Jr, Reynold A; Benovic, Jeffrey L; An, Steven S; Dulin, Nickolai O; Penn, Raymond B | FASEB journal : official publication of the Federation of American Societies for Experimental Biology. | 29042451 | ; |
Discovery of new GPCR ligands to illuminate new biology. | Roth, Bryan L; Irwin, John J; Shoichet, Brian K | Nature chemical biology. | 29045379 | 2017 Nov; |
D4dopamine receptor high-resolution structures enable the discovery of selective agonists. | Wang, Sheng; Wacker, Daniel; Levit, Anat; Che, Tao; Betz, Robin M; McCorvy, John D; Venkatakrishnan, A J; Huang, Xi-Ping; Dror, Ron O; Shoichet, Brian K; Roth, Bryan L | Science (New York, N.Y.). | 29051383 | 2017 10 20; |
Identification and Optimization of 4-Anilinoquinolines as Inhibitors of Cyclin?G Associated Kinase. | Asquith, Christopher R M; Laitinen, Tuomo; Bennett, James M; Godoi, Paulo H; East, Michael P; Tizzard, Graham J; Graves, Lee M; Johnson, Gary L; Dornsife, Ronna E; Wells, Carrow I; Elkins, Jonathan M; Willson, Timothy M; Zuercher, William J | ChemMedChem. | 29072804 | 2018 Jan 08; |
Common and cell-type specific responses to anti-cancer drugs revealed by high throughput transcript profiling. | Niepel, Mario; Hafner, Marc; Duan, Qiaonan; Wang, Zichen; Paull, Evan O; Chung, Mirra; Lu, Xiaodong; Stuart, Joshua M; Golub, Todd R; Subramanian, Aravind; Ma'ayan, Avi; Sorger, Peter K | Nature communications. | 29084964 | 2017 Oct 30; |
Predicting age by mining electronic medical records with deep learning characterizes differences between chronological and physiological age. | Wang, Zichen; Li, Li; Glicksberg, Benjamin S; Israel, Ariel; Dudley, Joel T; Ma'ayan, Avi | Journal of biomedical informatics. | 29113935 | 2017 Dec; |
Drug target ontology to classify and integrate drug discovery data. | Lin, Yu; Mehta, Saurabh; Küçük-McGinty, Hande; Turner, John Paul; Vidovic, Dusica; Forlin, Michele; Koleti, Amar; Nguyen, Dac-Trung; Jensen, Lars Juhl; Guha, Rajarshi; Mathias, Stephen L; Ursu, Oleg; Stathias, Vasileios; Duan, Jianbin; Nabizadeh, Nooshin; | Journal of biomedical semantics. | 29122012 | 2017 Nov 09; |
Competitive Kinase Enrichment Proteomics Reveals that Abemaciclib Inhibits GSK3β and Activates WNT Signaling. | Cousins, Emily M; Goldfarb, Dennis; Yan, Feng; Roques, Jose; Darr, David; Johnson, Gary L; Major, Michael B | Molecular cancer research : MCR | 29133594 | 2018 02 |
Quantitative, Wide-Spectrum Kinase Profiling in Live Cells for Assessing the Effect of Cellular ATP on Target Engagement. | Vasta, James D; Corona, Cesear R; Wilkinson, Jennifer; Zimprich, Chad A; Hartnett, James R; Ingold, Morgan R; Zimmerman, Kristopher; Machleidt, Thomas; Kirkland, Thomas A; Huwiler, Kristin G; Ohana, Rachel Friedman; Slater, Michael; Otto, Paul; Cong, Mei; | Cell chemical biology. | 29174542 | 2018 02 15; |
Cell-specific prediction and application of drug-induced gene expression profiles. | Hodos, Rachel; Zhang, Ping; Lee, Hao-Chih; Duan, Qiaonan; Wang, Zichen; Clark, Neil R; Ma'ayan, Avi; Wang, Fei; Kidd, Brian; Hu, Jianying; Sontag, David; Dudley, Joel | Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing. | 29218867 | 2018; |
Structure-inspired design of ?-arrestin-biased ligands for aminergic GPCRs. | McCorvy, John D; Butler, Kyle V; Kelly, Brendan; Rechsteiner, Katie; Karpiak, Joel; Betz, Robin M; Kormos, Bethany L; Shoichet, Brian K; Dror, Ron O; Jin, Jian; Roth, Bryan L | Nature chemical biology. | 29227473 | 2017 Dec 11; |
Coordinated regulation of intracellular pH by two glucose-sensing pathways in yeast. | Isom, Daniel G; Page, Stephani C; Collins, Leonard B; Kapolka, Nicholas J; Taghon, Geoffrey J; Dohlman, Henrik G | The Journal of biological chemistry. | 29284676 | 2018 02 16; |
Integration of pan-cancer transcriptomics with RPPA proteomics reveals mechanisms of epithelial-mesenchymal transition. | Koplev, Simon; Lin, Katie; Dohlman, Anders B; Ma'ayan, Avi | PLoS computational biology. | 29293502 | 2018 01; |
Dual gene activation and knockout screen reveals directional dependencies in genetic networks. | Boettcher, Michael; Tian, Ruilin; Blau, James A; Markegard, Evan; Wagner, Ryan T; Wu, David; Mo, Xiulei; Biton, Anne; Zaitlen, Noah; Fu, Haian; McCormick, Frank; Kampmann, Martin; McManus, Michael T | Nature biotechnology. | 29334369 | 2018 Feb; |
Machine learning in cardiovascular medicine: are we there yet? | Shameer, Khader; Johnson, Kipp W; Glicksberg, Benjamin S; Dudley, Joel T; Sengupta, Partho P | Heart (British Cardiac Society). | 29352006 | 2018 07; |
L1000FWD: fireworks visualization of drug-induced transcriptomic signatures. | Wang, Zichen; Lachmann, Alexander; Keenan, Alexandra B; Ma'ayan, Avi | Bioinformatics (Oxford, England). | 29420694 | ; |
Mass Spectrometry-Based Proteomics Reveals Potential Roles of NEK9 and MAP2K4 in Resistance to PI3K Inhibition in Triple-Negative Breast Cancers. | Mundt, Filip; Rajput, Sandeep; Li, Shunqiang; Ruggles, Kelly V; Mooradian, Arshag D; Mertins, Philipp; Gillette, Michael A; Krug, Karsten; Guo, Zhanfang; Hoog, Jeremy; Erdmann-Gilmore, Petra; Primeau, Tina; Huang, Shixia; Edwards, Dean P; Wang, Xiaowei; Wang, Xuya; Kawaler, Emily; Mani, D R; Clauser, Karl R; Gao, Feng; Luo, Jingqin; Davies, Sherri R; Johnson, Gary L; Huang, Kuan-Lin; Yoon, Christopher J; Ding, Li; Fenyö, David; Ellis, Matthew J; Townsend, R Reid; Held, Jason M; Carr, Steven A; Ma, Cynthia X | Cancer research. | 29472518 | 2018 05 15; |
Unexplored therapeutic opportunities in the human genome. | Oprea, Tudor I; Bologa, Cristian G; Brunak, Søren; Campbell, Allen; Gan, Gregory N; Gaulton, Anna; Gomez, Shawn M; Guha, Rajarshi; Hersey, Anne; Holmes, Jayme; Jadhav, Ajit; Jensen, Lars Juhl; Johnson, Gary L; Karlson, Anneli; Leach, Andrew R; Ma'ayan, Avi; Malovannaya, Anna; Mani, Subramani; Mathias, Stephen L; McManus, Michael T; Meehan, Terrence F; von Mering, Christian; Muthas, Daniel; Nguyen, Dac-Trung; Overington, John P; Papadatos, George; Qin, Jun; Reich, Christian; Roth, Bryan L; Schürer, Stephan C; Simeonov, Anton; Sklar, Larry A; Southall, Noel; Tomita, Susumu; Tudose, Ilinca; Ursu, Oleg; Vidovic, Du?ica; Waller, Anna; Westergaard, David; Yang, Jeremy J; Zahoránszky-Köhalmi, Gergely | Nature reviews. Drug discovery. | 29472638 | 2018 May; |
Datasets2Tools, repository and search engine for bioinformatics datasets, tools and canned analyses. | Torre, Denis; Krawczuk, Patrycja; Jagodnik, Kathleen M; Lachmann, Alexander; Wang, Zichen; Wang, Lily; Kuleshov, Maxim V; Ma'ayan, Avi | Scientific data. | 29485625 | 2018 Feb 27; |
The Transcriptionally Permissive Chromatin State of Embryonic Stem Cells Is Acutely Tuned to Translational Output. | Bulut-Karslioglu, Aydan; Macrae, Trisha A; Oses-Prieto, Juan A; Covarrubias, Sergio; Percharde, Michelle; Ku, Gregory; Diaz, Aaron; McManus, Michael T; Burlingame, Alma L; Ramalho-Santos, Miguel | Cell stem cell. | 29499153 | 2018 03 01; |
A proteomic landscape of diffuse-type gastric cancer. | Ge, Sai; Xia, Xia; Ding, Chen; Zhen, Bei; Zhou, Quan; Feng, Jinwen; Yuan, Jiajia; Chen, Rui; Li, Yumei; Ge, Zhongqi; Ji, Jiafu; Zhang, Lianhai; Wang, Jiayuan; Li, Zhongwu; Lai, Yumei; Hu, Ying; Li, Yanyan; Li, Yilin; Gao, Jing; Chen, Lin; Xu, Jianming; Zh | Nature communications. | 29520031 | 2018 03 08; |
Unexplored therapeutic opportunities in the human genome. | Oprea, Tudor I; Bologa, Cristian G; Brunak, Søren; Campbell, Allen; Gan, Gregory N; Gaulton, Anna; Gomez, Shawn M; Guha, Rajarshi; Hersey, Anne; Holmes, Jayme; Jadhav, Ajit; Jensen, Lars Juhl; Johnson, Gary L; Karlson, Anneli; Leach, Andrew R; Ma'ayan, Avi; Malovannaya, Anna; Mani, Subramani; Mathias, Steven L; McManus, Michael T; Meehan, Terrence F; von Mering, Christian; Muthas, Daniel; Nguyen, Dac-Trung; Overington, John P; Papadatos, George; Qin, Jun; Reich, Christian; Roth, Bryan L; Schürer, Stephan C; Simeonov, Anton; Sklar, Larry A; Southall, Noel; Tomita, Susumu; Tudose, Ilinca; Ursu, Oleg; Vidovic, Du?ica; Waller, Anna; Westergaard, David; Yang, Jeremy J; Zahoránszky-Köhalmi, Gergely | Nature reviews. Drug discovery. | 29567993 | 2018 May; |
Massive mining of publicly available RNA-seq data from human and mouse. | Lachmann, Alexander; Torre, Denis; Keenan, Alexandra B; Jagodnik, Kathleen M; Lee, Hoyjin J; Wang, Lily; Silverstein, Moshe C; Ma'ayan, Avi | Nature communications. | 29636450 | ; |
Proteomic analysis defines kinase taxonomies specific for subtypes of breast cancer. | Collins, Kyla A L; Stuhlmiller, Timothy J; Zawistowski, Jon S; East, Michael P; Pham, Trang T; Hall, Claire R; Goulet, Daniel R; Bevill, Samantha M; Angus, Steven P; Velarde, Sara H; Sciaky, Noah; Oprea, Tudor I; Graves, Lee M; Johnson, Gary L; Gomez, Shawn M | Oncotarget. | 29643987 | 2018 Mar 20; |
A proteomics landscape of circadian clock in mouse liver. | Wang, Yunzhi; Song, Lei; Liu, Mingwei; Ge, Rui; Zhou, Quan; Liu, Wanlin; Li, Ruiyang; Qie, Jingbo; Zhen, Bei; Wang, Yi; He, Fuchu; Qin, Jun; Ding, Chen | Nature communications. | 29674717 | 2018 Apr 19; |
Application of Integrated Drug Screening/Kinome Analysis to Identify Inhibitors of Gemcitabine-Resistant Pancreatic Cancer Cell Growth. | Krulikas, Linas J; McDonald, Ian M; Lee, Benjamin; Okumu, Denis O; East, Michael P; Gilbert, Thomas S K; Herring, Laura E; Golitz, Brian T; Wells, Carrow I; Axtman, Allison D; Zuercher, William J; Willson, Timothy M; Kireev, Dmitri; Yeh, Jen Jen; Johnson, Gary L; Baines, Antonio T; Graves, Lee M | SLAS discovery : advancing life sciences R & D. | 29742358 | 2018 09; |
Integration of protein phosphorylation, acetylation, and methylation data sets to outline lung cancer signaling networks. | Grimes, Mark; Hall, Benjamin; Foltz, Lauren; Levy, Tyler; Rikova, Klarisa; Gaiser, Jeremiah; Cook, William; Smirnova, Ekaterina; Wheeler, Travis; Clark, Neil R; Lachmann, Alexander; Zhang, Bin; Hornbeck, Peter; Ma'ayan, Avi; Comb, Michael | Science signaling. | 29789295 | 2018 05 22; |
eXpression2Kinases (X2K) Web: linking expression signatures to upstream cell signaling networks. | Clarke, Daniel J B; Kuleshov, Maxim V; Schilder, Brian M; Torre, Denis; Duffy, Mary E; Keenan, Alexandra B; Lachmann, Alexander; Feldmann, Axel S; Gundersen, Gregory W; Silverstein, Moshe C; Wang, Zichen; Ma'ayan, Avi | Nucleic acids research. | 29800326 | 2018 Jul 02; |
Artificial Intelligence in Cardiology. | Johnson, Kipp W; Torres Soto, Jessica; Glicksberg, Benjamin S; Shameer, Khader; Miotto, Riccardo; Ali, Mohsin; Ashley, Euan; Dudley, Joel T | Journal of the American College of Cardiology. | 29880128 | 2018 06 12; |
Gut Microbial ?-Glucuronidase Inhibition via Catalytic Cycle Interception. | Pellock, Samuel J; Creekmore, Benjamin C; Walton, William G; Mehta, Naimee; Biernat, Kristen A; Cesmat, Andrew P; Ariyarathna, Yamuna; Dunn, Zachary D; Li, Bo; Jin, Jian; James, Lindsey I; Redinbo, Matthew R | ACS central science. | 30062115 | 2018 Jul 25; |
Podocyte-Specific Induction of Krüppel-Like Factor 15 Restores Differentiation Markers and Attenuates Kidney Injury in Proteinuric Kidney Disease. | Guo, Yiqing; Pace, Jesse; Li, Zhengzhe; Ma'ayan, Avi; Wang, Zichen; Revelo, Monica P; Chen, Edward; Gu, Xiangchen; Attalah, Ahmed; Yang, Yaqi; Estrada, Chelsea; Yang, Vincent W; He, John C; Mallipattu, Sandeep K | Journal of the American Society of Nephrology : JASN. | 30143559 | 2018 Aug 24; |
Drug Gene Budger (DGB): an application for ranking drugs to modulate a specific gene based on transcriptomic signatures. | Wang, Zichen; He, Edward; Sani, Kevin; Jagodnik, Kathleen M; Silverstein, Moshe C; Ma'ayan, Avi | Bioinformatics (Oxford, England). | 30169739 | 2019 Apr 01; |
Coral: Clear and Customizable Visualization of Human Kinome Data. | Metz, Kathleen S; Deoudes, Erika M; Berginski, Matthew E; Jimenez-Ruiz, Ivan; Aksoy, Bulent Arman; Hammerbacher, Jeff; Gomez, Shawn M; Phanstiel, Douglas H | Cell systems. | 30172842 | 2018 09 26; |
Covalent inhibitors of EGFR family protein kinases induce degradation of human Tribbles 2 (TRIB2) pseudokinase in cancer cells. | Foulkes, Daniel M; Byrne, Dominic P; Yeung, Wayland; Shrestha, Safal; Bailey, Fiona P; Ferries, Samantha; Eyers, Claire E; Keeshan, Karen; Wells, Carrow; Drewry, David H; Zuercher, William J; Kannan, Natarajan; Eyers, Patrick A | Science signaling. | 30254057 | 2018 Sep 25; |
Darkness in the Human Gene and Protein Function Space: Widely Modest or Absent Illumination by the Life Science Literature and the Trend for Fewer Protein Function Discoveries Since 2000. | Sinha, Swati; Eisenhaber, Birgit; Jensen, Lars Juhl; Kalbuaji, Bharata; Eisenhaber, Frank | Proteomics. | 30265449 | 2018 Nov; |
DrugCentral 2018: an update. | Ursu, Oleg; Holmes, Jayme; Bologa, Cristian G; Yang, Jeremy J; Mathias, Stephen L; Stathias, Vasileios; Nguyen, Dac-Trung; Schürer, Stephan; Oprea, Tudor | Nucleic acids research. | 30371892 | 2018 Oct 29; |
Integrative bioinformatics identifies postnatal lead (Pb) exposure disrupts developmental cortical plasticity. | Smith, Milo R; Yevoo, Priscilla; Sadahiro, Masato; Austin, Christine; Amarasiriwardena, Chitra; Awawda, Mahmoud; Arora, Manish; Dudley, Joel T; Morishita, Hirofumi | Scientific reports. | 30401819 | 2018 11 06; |
Polypharmacology or Promiscuity? Structural Interactions of Resveratrol With Its Bandwagon of Targets. | Saqib, Uzma; Kelley, Tanya T; Panguluri, Siva K; Liu, Dongfang; Savai, Rajkumar; Baig, Mirza S; Schürer, Stephan C | Frontiers in pharmacology | 30405416 | 2018 |
Critical period plasticity-related transcriptional aberrations in schizophrenia and bipolar disorder. | Smith, Milo R; Readhead, Ben; Dudley, Joel T; Morishita, Hirofumi | Schizophrenia research. | 30442475 | 2019 05; |
BioJupies: Automated Generation of Interactive Notebooks for RNA-Seq Data Analysis in the Cloud. | Torre, Denis; Lachmann, Alexander; Ma'ayan, Avi | Cell systems. | 30447998 | 2018 Nov 08; |
Temporal proteomic profiling of postnatal human cortical development. | Breen, Michael S; Ozcan, Sureyya; Ramsey, Jordan M; Wang, Zichen; Ma'ayan, Avi; Rustogi, Nitin; Gottschalk, Michael G; Webster, Maree J; Weickert, Cynthia Shannon; Buxbaum, Joseph D; Bahn, Sabine | Translational psychiatry. | 30518843 | 2018 Dec 05; |
A Comparative Study of the Pharmacokinetics of Clozapine N-Oxide and Clozapine N-Oxide Hydrochloride Salt in Rhesus Macaques. | Allen, Daicia C; Carlson, Timothy L; Xiong, Yan; Jin, Jian; Grant, Kathleen A; Cuzon Carlson, Verginia C | The Journal of pharmacology and experimental therapeutics. | 30523062 | 2019 Feb; |
Far away from the lamppost. | Oprea, Tudor I; Jan, Lily; Johnson, Gary L; Roth, Bryan L; Ma'ayan, Avi; Schürer, Stephan; Shoichet, Brian K; Sklar, Larry A; McManus, Michael T | PLoS biology. | 30532236 | 2018 Dec; |
Drug and disease signature integration identifies synergistic combinations in glioblastoma. | Stathias, Vasileios; Jermakowicz, Anna M; Maloof, Marie E; Forlin, Michele; Walters, Winston; Suter, Robert K; Durante, Michael A; Williams, Sion L; Harbour, J William; Volmar, Claude-Henry; Lyons, Nicholas J; Wahlestedt, Claes; Graham, Regina M; Ivan, Michael E; Komotar, Ricardo J; Sarkaria, Jann N; Subramanian, Aravind; Golub, Todd R; Schürer, Stephan C; Ayad, Nagi G | Nature communications. | 30552330 | 2018 12 14; |
Mining data and metadata from the gene expression omnibus. | Wang, Zichen; Lachmann, Alexander; Ma'ayan, Avi | Biophysical reviews. | 30594974 | 2019 Feb; |
Dermal Condensate Niche Fate Specification Occurs Prior to Formation and Is Placode Progenitor Dependent. | Mok, Ka-Wai; Saxena, Nivedita; Heitman, Nicholas; Grisanti, Laura; Srivastava, Devika; Muraro, Mauro J; Jacob, Tina; Sennett, Rachel; Wang, Zichen; Su, Yutao; Yang, Lu M; Ma'ayan, Avi; Ornitz, David M; Kasper, Maria; Rendl, Michael | Developmental cell. | 30595537 | 2019 Jan 07; |
WNT Activates the AAK1 Kinase to Promote Clathrin-Mediated Endocytosis of LRP6 and Establish a Negative Feedback Loop. | Agajanian, Megan J; Walker, Matthew P; Axtman, Alison D; Ruela-de-Sousa, Roberta R; Serafin, D Stephen; Rabinowitz, Alex D; Graham, David M; Ryan, Meagan B; Tamir, Tigist; Nakamichi, Yuko; Gammons, Melissa V; Bennett, James M; Couñago, Rafael M; Drewry, David H; Elkins, Jonathan M; Gileadi, Carina; Gileadi, Opher; Godoi, Paulo H; Kapadia, Nirav; Müller, Susanne; Santiago, André S; Sorrell, Fiona J; Wells, Carrow I; Fedorov, Oleg; Willson, Timothy M; Zuercher, William J; Major, Michael B | Cell reports. | 30605688 | 2019 Jan 02; |
Tracing cellular heterogeneity in pooled genetic screens via multi-level barcoding. | Boettcher, Michael; Covarrubias, Sergio; Biton, Anne; Blau, James; Wang, Haopeng; Zaitlen, Noah; McManus, Michael T | BMC genomics | 30727954 | 2019 Feb 06 |
Ultra-large library docking for discovering new chemotypes. | Lyu, Jiankun; Wang, Sheng; Balius, Trent E; Singh, Isha; Levit, Anat; Moroz, Yurii S; O'Meara, Matthew J; Che, Tao; Algaa, Enkhjargal; Tolmachova, Kateryna; Tolmachev, Andrey A; Shoichet, Brian K; Roth, Bryan L; Irwin, John J | Nature. | 30728502 | 2019 Feb; |
Predicting opioid dependence from electronic health records with machine learning. | Ellis, Randall J; Wang, Zichen; Genes, Nicholas; Ma'ayan, Avi | BioData mining. | 30728857 | 2019; |
SGC-GAK-1: A Chemical Probe for Cyclin G Associated Kinase (GAK). | Asquith, Christopher R M; Berger, Benedict-Tilman; Wan, Jing; Bennett, James M; Capuzzi, Stephen J; Crona, Daniel J; Drewry, David H; East, Michael P; Elkins, Jonathan M; Fedorov, Oleg; Godoi, Paulo H; Hunter, Debra M; Knapp, Stefan; Müller, Susanne; Torrice, Chad D; Wells, Carrow I; Earp, H Shelton; Willson, Timothy M; Zuercher, William J | Journal of medicinal chemistry. | 30768268 | 2019 Mar 14; |
An African-specific haplotype in MRGPRX4 is associated with menthol cigarette smoking. | Kozlitina, Julia; Risso, Davide; Lansu, Katherine; Olsen, Reid Hans Johnson; Sainz, Eduardo; Luiselli, Donata; Barik, Arnab; Frigerio-Domingues, Carlos; Pagani, Luca; Wooding, Stephen; Kirchner, Thomas; Niaura, Ray; Roth, Bryan; Drayna, Dennis | PLoS genetics. | 30768591 | 2019 02; |
How structure informs and transforms chemogenetics. | Roth, Bryan L | Current opinion in structural biology. | 30818201 | 2019 08; |
How to Develop a Drug Target Ontology: KNowledge Acquisition and Representation Methodology (KNARM). | Küçük McGinty, Hande; Visser, Ubbo; Schürer, Stephan | Methods in molecular biology (Clifton, N.J.). | 30848456 | 2019; |
Leveraging Big Data to Transform Drug Discovery. | Glicksberg, Benjamin S; Li, Li; Chen, Rong; Dudley, Joel; Chen, Bin | Methods in molecular biology (Clifton, N.J.). | 30848458 | 2019; |
How to Prepare a Compound Collection Prior to Virtual Screening. | Bologa, Cristian G; Ursu, Oleg; Oprea, Tudor I | Methods in molecular biology (Clifton, N.J.). | 30848459 | 2019; |
DREADD Agonist 21 Is an Effective Agonist for Muscarinic-Based DREADDs in Vitro and in Vivo. | Thompson, Karen J; Khajehali, Elham; Bradley, Sophie J; Navarrete, Jovana S; Huang, Xi Ping; Slocum, Samuel; Jin, Jian; Liu, Jing; Xiong, Yan; Olsen, Reid H J; Diberto, Jeffrey F; Boyt, Kristen M; Pina, Melanie M; Pati, Dipanwita; Molloy, Colin; Bundgaard | ACS pharmacology & translational science. | 30868140 | 2018 Sep 14; |
Defining Structure-Functional Selectivity Relationships (SFSR) for a Class of Non-Catechol Dopamine D1 Receptor Agonists. | Martini, Michael L; Liu, Jing; Ray, Caroline; Yu, Xufen; Huang, Xi-Ping; Urs, Aarti; Urs, Nikhil; McCorvy, John D; Caron, Marc G; Roth, Bryan L; Jin, Jian | Journal of medicinal chemistry. | 30875219 | 2019 Apr 11; |
Discovery of Covalent CDK14 Inhibitors with Pan-TAIRE Family Specificity. | Ferguson, Fleur M; Doctor, Zainab M; Ficarro, Scott B; Browne, Christopher M; Marto, Jarrod A; Johnson, Jared L; Yaron, Tomer M; Cantley, Lewis C; Kim, Nam Doo; Sim, Taebo; Berberich, Matthew J; Kalocsay, Marian; Sorger, Peter K; Gray, Nathanael S | Cell chemical biology. | 30930164 | 2019 Mar 11; |
Cheminformatics Tools for Analyzing and Designing Optimized Small-Molecule Collections and Libraries. | Moret, Nienke; Clark, Nicholas A; Hafner, Marc; Wang, Yuan; Lounkine, Eugen; Medvedovic, Mario; Wang, Jinhua; Gray, Nathanael; Jenkins, Jeremy; Sorger, Peter K | Cell chemical biology. | 30956147 | 2019 Mar 12; |
D2 Dopamine Receptor G Protein-Biased Partial Agonists Based on Cariprazine. | Shen, Yudao; McCorvy, John D; Martini, Michael L; Rodriguiz, Ramona M; Pogorelov, Vladimir M; Ward, Karen M; Wetsel, William C; Liu, Jing; Roth, Bryan L; Jin, Jian | Journal of medicinal chemistry. | 30964661 | 2019 May 09; |
Engineering a haematopoietic stem cell niche by revitalizing mesenchymal stromal cells. | Nakahara, Fumio; Borger, Daniel K; Wei, Qiaozhi; Pinho, Sandra; Maryanovich, Maria; Zahalka, Ali H; Suzuki, Masako; Cruz, Cristian D; Wang, Zichen; Xu, Chunliang; Boulais, Philip E; Ma'ayan, Avi; Greally, John M; Frenette, Paul S | Nature cell biology. | 30988422 | 2019 Apr 15; |
GSK2801, A BAZ2/BRD9 Bromodomain Inhibitor, Synergizes with BET Inhibitors to Induce Apoptosis in Triple-Negative Breast Cancer. | Bevill, Samantha M; Olivares-Quintero, Jose F; Sciaky, Noah; Golitz, Brian T; Singh, Darshan; Beltran, Adriana S; Rashid, Naim U; Stuhlmiller, Timothy J; Hale, Andrew; Moorman, Nathaniel J; Santos, Charlene M; Angus, Steven P; Zawistowski, Jon S; Johnson, Gary L | Molecular cancer research : MCR. | 31000582 | 2019 Apr 18; |
Improving the Utility of the Tox21 Dataset by Deep Metadata Annotations and Constructing Reusable Benchmarked Chemical Reference Signatures. | Cooper, Daniel J; Schürer, Stephan | Molecules (Basel, Switzerland). | 31018579 | 2019 Apr 23; |
XFEL structures of the human MT2 melatonin receptor reveal the basis of subtype selectivity. | Johansson, Linda C; Stauch, Benjamin; McCorvy, John D; Han, Gye Won; Patel, Nilkanth; Huang, Xi-Ping; Batyuk, Alexander; Gati, Cornelius; Slocum, Samuel T; Li, Chufeng; Grandner, Jessica M; Hao, Shuming; Olsen, Reid H J; Tribo, Alexandra R; Zaare, Sahba; Zhu, Lan; Zatsepin, Nadia A; Weierstall, Uwe; Yous, Saïd; Stevens, Raymond C; Liu, Wei; Roth, Bryan L; Katritch, Vsevolod; Cherezov, Vadim | Nature. | 31019305 | 2019 May; |
Structural basis of ligand recognition at the human MT1 melatonin receptor. | Stauch, Benjamin; Johansson, Linda C; McCorvy, John D; Patel, Nilkanth; Han, Gye Won; Huang, Xi-Ping; Gati, Cornelius; Batyuk, Alexander; Slocum, Samuel T; Ishchenko, Andrii; Brehm, Wolfgang; White, Thomas A; Michaelian, Nairie; Madsen, Caleb; Zhu, Lan; Grant, Thomas D; Grandner, Jessica M; Shiriaeva, Anna; Olsen, Reid H J; Tribo, Alexandra R; Yous, Saïd; Stevens, Raymond C; Weierstall, Uwe; Katritch, Vsevolod; Roth, Bryan L; Liu, Wei; Cherezov, Vadim | Nature. | 31019306 | 2019 May; |
A Perspective on Extreme Open Science: Companies Sharing Compounds without Restriction. | Drewry, David H; Wells, Carrow I; Zuercher, William J; Willson, Timothy M | SLAS discovery : advancing life sciences R & D. | 31034310 | 2019 Jun; |
Publisher Correction: Structural basis of ligand recognition at the human MT1 melatonin receptor. | Stauch, Benjamin; Johansson, Linda C; McCorvy, John D; Patel, Nilkanth; Han, Gye Won; Huang, Xi-Ping; Gati, Cornelius; Batyuk, Alexander; Slocum, Samuel T; Ishchenko, Andrii; Brehm, Wolfgang; White, Thomas A; Michaelian, Nairie; Madsen, Caleb; Zhu, Lan; Grant, Thomas D; Grandner, Jessica M; Shiriaeva, Anna; Olsen, Reid H J; Tribo, Alexandra R; Yous, Saïd; Stevens, Raymond C; Weierstall, Uwe; Katritch, Vsevolod; Roth, Bryan L; Liu, Wei; Cherezov, Vadim | Nature. | 31048811 | 2019 May; |
modEnrichr: a suite of gene set enrichment analysis tools for model organisms. | Kuleshov, Maxim V; Diaz, Jennifer E L; Flamholz, Zachary N; Keenan, Alexandra B; Lachmann, Alexander; Wojciechowicz, Megan L; Cagan, Ross L; Ma'ayan, Avi | Nucleic acids research. | 31069376 | 2019 Jul 02; |
Geneshot: search engine for ranking genes from arbitrary text queries. | Lachmann, Alexander; Schilder, Brian M; Wojciechowicz, Megan L; Torre, Denis; Kuleshov, Maxim V; Keenan, Alexandra B; Ma'ayan, Avi | Nucleic acids research. | 31114885 | 2019 Jul 02; |
ChEA3: transcription factor enrichment analysis by orthogonal omics integration. | Keenan, Alexandra B; Torre, Denis; Lachmann, Alexander; Leong, Ariel K; Wojciechowicz, Megan L; Utti, Vivian; Jagodnik, Kathleen M; Kropiwnicki, Eryk; Wang, Zichen; Ma'ayan, Avi | Nucleic acids research. | 31114921 | 2019 Jul 02; |
CoCoScore: context-aware co-occurrence scoring for text mining applications using distant supervision. | Junge, Alexander; Jensen, Lars Juhl | Bioinformatics (Oxford, England). | 31199464 | 2020 Jan 01; |
The human endogenous metabolome as a pharmacology baseline for drug discovery. | Bofill, Andreu; Jalencas, Xavier; Oprea, Tudor I; Mestres, Jordi | Drug discovery today. | 31226432 | 2019 09; |
CDK16: the pick of the understudied PCTAIRE kinases. | Axtman, Alison; Drewry, David; Wells, Carrow | Nature reviews. Drug discovery | 31267068 | 2019 Jul |
Molecular pharmacology of metabotropic receptors targeted by neuropsychiatric drugs. | Roth, Bryan L | Nature structural & molecular biology. | 31270468 | 2019 Jul; |
Exploring the dark genome: implications for precision medicine. | Oprea, Tudor I | Mammalian genome : official journal of the International Mammalian Genome Society. | 31270560 | 2019 Aug; |
OSCI: standardized stem cell ontology representation and use cases for stem cell investigation. | He, Yongqun; Duncan, William D; Cooper, Daniel J; Hansen, Jens; Iyengar, Ravi; Ong, Edison; Walker, Kendal; Tibi, Omar; Smith, Sam; Serra, Lucas M; Zheng, Jie; Sarntivijai, Sirarat; Schürer, Stephan; O'Shea, K Sue; Diehl, Alexander D | BMC bioinformatics. | 31272389 | 2019 Apr 25; |
VEGAS as a Platform for Facile Directed Evolution in Mammalian Cells. | English, Justin G; Olsen, Reid H J; Lansu, Katherine; Patel, Michael; White, Karoline; Cockrell, Adam S; Singh, Darshan; Strachan, Ryan T; Wacker, Daniel; Roth, Bryan L | Cell. | 31280962 | 2019 Jul 25; |
Design, Synthesis, and Characterization of Ogerin-Based Positive Allosteric Modulators for G Protein-Coupled Receptor 68 (GPR68). | Yu, Xufen; Huang, Xi-Ping; Kenakin, Terry P; Slocum, Samuel T; Chen, Xin; Martini, Michael L; Liu, Jing; Jin, Jian | Journal of medicinal chemistry. | 31298539 | 2019 08 22; |
The crystal structure of the protein kinase HIPK2 reveals a unique architecture of its CMGC-insert region. | Agnew, Christopher; Liu, Lijun; Liu, Shu; Xu, Wei; You, Liang; Yeung, Wayland; Kannan, Natarajan; Jablons, David; Jura, Natalia | The Journal of biological chemistry. | 31341017 | 2019 09 13; |
Integrative analysis of loss-of-function variants in clinical and genomic data reveals novel genes associated with cardiovascular traits. | Glicksberg, Benjamin S; Amadori, Letizia; Akers, Nicholas K; Sukhavasi, Katyayani; Franzén, Oscar; Li, Li; Belbin, Gillian M; Ayers, Kristin L; Shameer, Khader; Badgeley, Marcus A; Johnson, Kipp W; Readhead, Ben; Darrow, Bruce J; Kenny, Eimear E; Betsholtz, Christer; Ermel, Raili; Skogsberg, Josefin; Ruusalepp, Arno; Schadt, Eric E; Dudley, Joel T; Ren, Hongxia; Kovacic, Jason C; Giannarelli, Chiara; Li, Shuyu D; Björkegren, Johan L M; Chen, Rong | BMC medical genomics. | 31345219 | 2019 07 25; |
Kinome profiling of non-Hodgkin lymphoma identifies Tyro3 as a therapeutic target in primary effusion lymphoma. | Wong, Jason P; Stuhlmiller, Timothy J; Giffin, Louise C; Lin, Carolina; Bigi, Rachele; Zhao, Jichen; Zhang, Weihe; Bravo Cruz, Ariana G; Park, Steven I; Earp, H Shelton; Dittmer, Dirk P; Frye, Stephen V; Wang, Xiaodong; Johnson, Gary L; Damania, Blossom | Proceedings of the National Academy of Sciences of the United States of America. | 31346082 | 2019 Aug 13; |
Visualization of drug target interactions in the contexts of pathways and networks with ReactomeFIViz. | Blucher, Aurora S; McWeeney, Shannon K; Stein, Lincoln; Wu, Guanming | F1000Research. | 31372215 | 2019; |
Identification of hyper-rewired genomic stress non-oncogene addiction genes across 15 cancer types. | Hjaltelin, Jessica Xin; Izarzugaza, Jose M G; Jensen, Lars Juhl; Russo, Francesco; Westergaard, David; Brunak, Søren | NPJ systems biology and applications. | 31396397 | 2019; |
VEGAS as a Platform for Facile Directed Evolution in Mammalian Cells. | English, Justin G; Olsen, Reid H J; Lansu, Katherine; Patel, Michael; White, Karoline; Cockrell, Adam S; Singh, Darshan; Strachan, Ryan T; Wacker, Daniel; Roth, Bryan L | Cell. | 31398329 | 2019 Aug 08; |
Zebrafish behavioural profiling identifies GABA and serotonin receptor ligands related to sedation and paradoxical excitation. | McCarroll, Matthew N; Gendelev, Leo; Kinser, Reid; Taylor, Jack; Bruni, Giancarlo; Myers-Turnbull, Douglas; Helsell, Cole; Carbajal, Amanda; Rinaldi, Capria; Kang, Hye Jin; Gong, Jung Ho; Sello, Jason K; Tomita, Susumu; Peterson, Randall T; Keiser, Michae | Nature communications. | 31501447 | 2019 09 09; |
Recombination drives the evolution of mutational robustness. | Singhal, Sonia; Gomez, Shawn M; Burch, Christina L | Current opinion in systems biology. | 31572829 | 2019 Feb; |
PDBe-KB: a community-driven resource for structural and functional annotations. | PDBe-KB consortium | Nucleic acids research. | 31584092 | 2020 Jan 08; |
Can BDDCS illuminate targets in drug design? | Bocci, Giovanni; Benet, Leslie Z; Oprea, Tudor I | Drug discovery today. | 31585170 | 2019 Dec; |
Single-cell immune landscape of human atherosclerotic plaques. | Fernandez, Dawn M; Rahman, Adeeb H; Fernandez, Nicolas F; Chudnovskiy, Aleksey; Amir, El-Ad David; Amadori, Letizia; Khan, Nayaab S; Wong, Christine K; Shamailova, Roza; Hill, Christopher A; Wang, Zichen; Remark, Romain; Li, Jennifer R; Pina, Christian; Faries, Christopher; Awad, Ahmed J; Moss, Noah; Bjorkegren, Johan L M; Kim-Schulze, Seunghee; Gnjatic, Sacha; Ma'ayan, Avi; Mocco, J; Faries, Peter; Merad, Miriam; Giannarelli, Chiara | Nature medicine. | 31591603 | 2019 10; |
ADCK3/COQ8A: the choice target of the UbiB protein kinase-like family. | Asquith, Christopher R M; Murray, Nathan H; Pagliarini, David J | Nature reviews. Drug discovery. | 31673128 | 2019 10; |
The reactome pathway knowledgebase. | Jassal, Bijay; Matthews, Lisa; Viteri, Guilherme; Gong, Chuqiao; Lorente, Pascual; Fabregat, Antonio; Sidiropoulos, Konstantinos; Cook, Justin; Gillespie, Marc; Haw, Robin; Loney, Fred; May, Bruce; Milacic, Marija; Rothfels, Karen; Sevilla, Cristoffer; Shamovsky, Veronica; Shorser, Solomon; Varusai, Thawfeek; Weiser, Joel; Wu, Guanming; Stein, Lincoln; Hermjakob, Henning; D'Eustachio, Peter | Nucleic acids research | 31691815 | 2020 01 08 |
LINCS Data Portal 2.0: next generation access point for perturbation-response signatures. | Stathias, Vasileios; Turner, John; Koleti, Amar; Vidovic, Dusica; Cooper, Daniel; Fazel-Najafabadi, Mehdi; Pilarczyk, Marcin; Terryn, Raymond; Chung, Caty; Umeano, Afoma; Clarke, Daniel J B; Lachmann, Alexander; Evangelista, John Erol; Ma'ayan, Avi; Medvedovic, Mario; Schürer, Stephan C | Nucleic acids research. | 31701147 | 2020 01 08; |
Research Techniques Made Simple: Molecular Docking in Dermatology - A Foray into In Silico Drug Discovery. | Issa, Naiem T; Badiavas, Evangelos V; Schürer, Stephan | The Journal of investigative dermatology. | 31753122 | 2019 12; |
Dermal sheath contraction powers stem cell niche relocation during hair cycle regression. | Heitman, Nicholas; Sennett, Rachel; Mok, Ka-Wai; Saxena, Nivedita; Srivastava, Devika; Martino, Pieter; Grisanti, Laura; Wang, Zichen; Ma'ayan, Avi; Rompolas, Panteleimon; Rendl, Michael | Science (New York, N.Y.). | 31857493 | 2020 01 10; |
How to Illuminate the Druggable Genome Using Pharos. | Sheils, Timothy; Mathias, Stephen L; Siramshetty, Vishal B; Bocci, Giovanni; Bologa, Cristian G; Yang, Jeremy J; Waller, Anna; Southall, Noel; Nguyen, Dac-Trung; Oprea, Tudor I | Current protocols in bioinformatics. | 31898878 | 2020 Mar; |
Machine and deep learning approaches for cancer drug repurposing. | Issa, Naiem T; Stathias, Vasileios; Schürer, Stephan; Dakshanamurthy, Sivanesan | Seminars in cancer biology. | 31904426 | 2020 Jan 03; |
Genetic deletion of gpr27 alters acylcarnitine metabolism, insulin sensitivity, and glucose homeostasis in zebrafish. | Nath, Anjali K; Ma, Junyan; Chen, Zsu-Zsu; Li, Zhuyun; Vitery, Maria Del Carmen; Kelley, Michelle L; Peterson, Randall T; Gerszten, Robert E; Yeh, Jing-Ruey J | FASEB journal : official publication of the Federation of American Societies for Experimental Biology. | 31914600 | 2020 Jan; |
In Depth Analysis of Kinase Cross Screening Data to Identify CAMKK2 Inhibitory Scaffolds. | O'Byrne, Sean N; Scott, John W; Pilotte, Joseph R; Santiago, André da S; Langendorf, Christopher G; Oakhill, Jonathan S; Eduful, Benjamin J; Couñago, Rafael M; Wells, Carrow I; Zuercher, William J; Willson, Timothy M; Drewry, David H | Molecules (Basel, Switzerland) | 31941153 | 2020 Jan 13 |
Will Artificial Intelligence for Drug Discovery Impact Clinical Pharmacology? | Zhavoronkov, Alex; Vanhaelen, Quentin; Oprea, Tudor I | Clinical pharmacology and therapeutics | 31957003 | 2020 04 |
Identification of DOT1L inhibitors by structure-based virtual screening adapted from a nucleoside-focused library. | Gibbons, Garrett S; Chakraborty, Amarraj; Grigsby, Sierrah M; Umeano, Afoma C; Liao, Chenzhong; Moukha-Chafiq, Omar; Pathak, Vibha; Mathew, Bini; Lee, Young-Tae; Dou, Yali; Schürer, Stephan C; Reynolds, Robert C; Snowden, Timothy S; Nikolovska-Coleska, Za | European journal of medicinal chemistry. | 31978781 | 2020 Mar 01; |
ABC transporters control ATP release through cholesterol-dependent volume-regulated anion channel activity. | Dunn, Patrick J; Salm, Elizabeth J; Tomita, Susumu | The Journal of biological chemistry. | 31988241 | 2020 Apr 17; |
How many rare diseases are there? | Haendel, Melissa; Vasilevsky, Nicole; Unni, Deepak; Bologa, Cristian; Harris, Nomi; Rehm, Heidi; Hamosh, Ada; Baynam, Gareth; Groza, Tudor; McMurry, Julie; Dawkins, Hugh; Rath, Ana; Thaxon, Courtney; Bocci, Giovanni; Joachimiak, Marcin P; Köhler, Sebastia | Nature reviews. Drug discovery. | 32020066 | 2020 02; |
Virtual discovery of melatonin receptor ligands to modulate circadian rhythms. | Stein, Reed M; Kang, Hye Jin; McCorvy, John D; Glatfelter, Grant C; Jones, Anthony J; Che, Tao; Slocum, Samuel; Huang, Xi-Ping; Savych, Olena; Moroz, Yurii S; Stauch, Benjamin; Johansson, Linda C; Cherezov, Vadim; Kenakin, Terry; Irwin, John J; Shoichet, Brian K; Roth, Bryan L; Dubocovich, Margarita L | Nature. | 32040955 | 2020 03; |
Cataloguing the dead: breathing new life into pseudokinase research. | Shrestha, Safal; Byrne, Dominic P; Harris, John A; Kannan, Natarajan; Eyers, Patrick A | The FEBS journal. | 32053275 | 2020 Oct; |
Emerging roles of the αC-β4 loop in protein kinase structure, function, evolution, and disease. | Yeung, Wayland; Ruan, Zheng; Kannan, Natarajan | IUBMB life | 32101380 | 2020 06 |
Structure-based discovery of potent and selective melatonin receptor agonists. | Patel, Nilkanth; Huang, Xi Ping; Grandner, Jessica M; Johansson, Linda C; Stauch, Benjamin; McCorvy, John D; Liu, Yongfeng; Roth, Bryan; Katritch, Vsevolod | eLife. | 32118583 | 2020 Mar 02; |
Nanobody-enabled monitoring of kappa opioid receptor states. | Che, Tao; English, Justin; Krumm, Brian E; Kim, Kuglae; Pardon, Els; Olsen, Reid H J; Wang, Sheng; Zhang, Shicheng; Diberto, Jeffrey F; Sciaky, Noah; Carroll, F Ivy; Steyaert, Jan; Wacker, Daniel; Roth, Bryan L | Nature communications. | 32123179 | 2020 03 02; |
Presynaptic calcium channels: specialized control of synaptic neurotransmitter release. | Dolphin, Annette C; Lee, Amy | Nature reviews. Neuroscience. | 32161339 | 2020 04; |
Memory of Divisional History Directs the Continuous Process of Primitive Hematopoietic Lineage Commitment. | Bernitz, Jeffrey M; Rapp, Katrina; Daniel, Michael G; Shcherbinin, Dmitrii; Yuan, Ye; Gomes, Andreia; Waghray, Avinash; Brosh, Ran; Lachmann, Alexander; Ma'ayan, Avi; Papatsenko, Dmitri; Moore, Kateri A | Stem cell reports. | 32243840 | 2020 04 14; |
EnrichrBot: Twitter bot tracking tweets about human genes. | Bartal, Alon; Lachmann, Alexander; Clarke, Daniel J B; Seiden, Allison H; Jagodnik, Kathleen M; Ma'ayan, Avi | Bioinformatics (Oxford, England). | 32277816 | 2020 Jun 01; |
Discovery and Structure-Activity Relationship Study of (Z)-5-Methylenethiazolidin-4-one Derivatives as Potent and Selective Pan-phosphatidylinositol 5-Phosphate 4-Kinase Inhibitors. | Manz, Theresa D; Sivakumaren, Sindhu Carmen; Ferguson, Fleur M; Zhang, Tinghu; Yasgar, Adam; Seo, Hyuk-Soo; Ficarro, Scott B; Card, Joseph D; Shim, Hyeseok; Miduturu, Chandrasekhar V; Simeonov, Anton; Shen, Min; Marto, Jarrod A; Dhe-Paganon, Sirano; Hall, Matthew D; Cantley, Lewis C; Gray, Nathanael S | Journal of medicinal chemistry. | 32298120 | 2020 May 14; |
QSAR without borders. | Muratov, Eugene N; Bajorath, Jürgen; Sheridan, Robert P; Tetko, Igor V; Filimonov, Dmitry; Poroikov, Vladimir; Oprea, Tudor I; Baskin, Igor I; Varnek, Alexandre; Roitberg, Adrian; Isayev, Olexandr; Curtarolo, Stefano; Fourches, Denis; Cohen, Yoram; Aspuru-Guzik, Alan; Winkler, David A; Agrafiotis, Dimitris; Cherkasov, Artem; Tropsha, Alexander | Chemical Society reviews | 32356548 | 2020 06 07 |
CRISPR-addressable yeast strains with applications in human G protein-coupled receptor profiling and synthetic biology. | Rowe, Jacob B; Taghon, Geoffrey J; Kapolka, Nicholas J; Morgan, William M; Isom, Daniel G | The Journal of biological chemistry. | 32358068 | 2020 Jun 12; |
TRUPATH, an open-source biosensor platform for interrogating the GPCR transducerome. | Olsen, Reid H J; DiBerto, Jeffrey F; English, Justin G; Glaudin, Alexis M; Krumm, Brian E; Slocum, Samuel T; Che, Tao; Gavin, Ariana C; McCorvy, John D; Roth, Bryan L; Strachan, Ryan T | Nature chemical biology. | 32367019 | 2020 May 04; |
Systems Analysis Implicates WAVE2 Complex in the Pathogenesis of Developmental Left-Sided Obstructive Heart Defects. | Edwards, Jonathan J; Rouillard, Andrew D; Fernandez, Nicolas F; Wang, Zichen; Lachmann, Alexander; Shankaran, Sunita S; Bisgrove, Brent W; Demarest, Bradley; Turan, Nahid; Srivastava, Deepak; Bernstein, Daniel; Deanfield, John; Giardini, Alessandro; Porter, George; Kim, Richard; Roberts, Amy E; Newburger, Jane W; Goldmuntz, Elizabeth; Brueckner, Martina; Lifton, Richard P; Seidman, Christine E; Chung, Wendy K; Tristani-Firouzi, Martin; Yost, H Joseph; Ma'ayan, Avi; Gelb, Bruce D | JACC. Basic to translational science. | 32368696 | 2020 Apr; |
DCyFIR: a high-throughput CRISPR platform for multiplexed G protein-coupled receptor profiling and ligand discovery. | Kapolka, N J; Taghon, G J; Rowe, J B; Morgan, W M; Enten, J F; Lambert, N A; Isom, D G | Proceedings of the National Academy of Sciences of the United States of America. | 32434907 | 2020 06 09; |
Systematic Analysis of Environmental Chemicals That Dysregulate Critical Period Plasticity-Related Gene Expression Reveals Common Pathways That Mimic Immune Response to Pathogen. | Smith, Milo R; Yevoo, Priscilla; Sadahiro, Masato; Readhead, Ben; Kidd, Brian; Dudley, Joel T; Morishita, Hirofumi | Neural plasticity. | 32454811 | 2020; |
Defining the Neural Kinome: Strategies and Opportunities for Small Molecule Drug Discovery to Target Neurodegenerative Diseases. | Krahn, Andrea I; Wells, Carrow; Drewry, David H; Beitel, Lenore K; Durcan, Thomas M; Axtman, Alison D | ACS chemical neuroscience. | 32464049 | 2020 07 01; |
Quantifying CDK inhibitor selectivity in live cells. | Wells, Carrow I; Vasta, James D; Corona, Cesear R; Wilkinson, Jennifer; Zimprich, Chad A; Ingold, Morgan R; Pickett, Julie E; Drewry, David H; Pugh, Kathryn M; Schwinn, Marie K; Hwang, Byounghoon Brian; Zegzouti, Hicham; Huber, Kilian V M; Cong, Mei; Meisenheimer, Poncho L; Willson, Timothy M; Robers, Matthew B | Nature communications. | 32488087 | 2020 Jun 02; |
TMEM163 Regulates ATP-Gated P2X Receptor and Behavior. | Salm, Elizabeth J; Dunn, Patrick J; Shan, Lili; Yamasaki, Miwako; Malewicz, Nathalie M; Miyazaki, Taisuke; Park, Joongkyu; Sumioka, Akio; Hamer, R Richard L; He, Wei-Wu; Morimoto-Tomita, Megumi; LaMotte, Robert H; Tomita, Susumu | Cell reports. | 32492420 | 2020 Jun 02; |
GPR84: an immune response dial? | Wojciechowicz, Megan L; Ma'ayan, Avi | Nature reviews. Drug discovery | 32494048 | 2020 06 |
Opposite regulation of conditioned place preference and intravenous drug self-administration in rodent models: Motivational and non-motivational examples. | Green, Thomas A; Bardo, Michael T | Neuroscience and biobehavioral reviews. | 32534899 | 2020 Jun 12; |
Gain-of-function genetic screen of the kinome reveals BRSK2 as an inhibitor of the NRF2 transcription factor. | Tamir, Tigist Y; Bowman, Brittany M; Agajanian, Megan J; Goldfarb, Dennis; Schrank, Travis P; Stohrer, Trent; Hale, Andrew E; Siesser, Priscila F; Weir, Seth J; Murphy, Ryan M; LaPak, Kyle M; Weissman, Bernard E; Moorman, Nathaniel J; Major, M Ben | Journal of cell science. | 32546533 | 2020 Jul 15; |
Deschloroclozapine, a potent and selective chemogenetic actuator enables rapid neuronal and behavioral modulations in mice and monkeys. | Nagai, Yuji; Miyakawa, Naohisa; Takuwa, Hiroyuki; Hori, Yukiko; Oyama, Kei; Ji, Bin; Takahashi, Manami; Huang, Xi-Ping; Slocum, Samuel T; DiBerto, Jeffrey F; Xiong, Yan; Urushihata, Takuya; Hirabayashi, Toshiyuki; Fujimoto, Atsushi; Mimura, Koki; English, | Nature neuroscience. | 32632286 | 2020 09; |
The COVID-19 Gene and Drug Set Library. | Kuleshov, Maxim V; Clarke, Daniel J B; Kropiwnicki, Eryk; Jagodnik, Kathleen M; Bartal, Alon; Evangelista, John E; Zhou, Abigail; Ferguson, Laura B; Lachmann, Alexander; Ma'ayan, Avi | Research square. | 32702729 | 2020 May 13; |
An acidic residue buried in the dimer interface of isocitrate dehydrogenase 1 (IDH1) helps regulate catalysis and pH sensitivity. | Luna, Lucas A; Lesecq, Zachary; White, Katharine A; Hoang, An; Scott, David A; Zagnitko, Olga; Bobkov, Andrey A; Barber, Diane L; Schiffer, Jamie M; Isom, Daniel G; Sohl, Christal D | The Biochemical journal | 32729927 | 2020 08 28 |
Discrete Adaptive Responses to MEK Inhibitor in Subpopulations of Triple-Negative Breast Cancer. | Goulet, Daniel R; Foster 2nd, Joseph P; Zawistowski, Jon S; Bevill, Samantha M; Noël, Mélodie P; Olivares-Quintero, José F; Sciaky, Noah; Singh, Darshan; Santos, Charlene; Pattenden, Samantha G; Davis, Ian J; Johnson, Gary L | Molecular cancer research : MCR. | 32753473 | 2020 Nov; |
Chemical Biology Toolkit for DCLK1 Reveals Connection to RNA Processing. | Liu, Yan; Ferguson, Fleur M; Li, Lianbo; Kuljanin, Miljan; Mills, Caitlin E; Subramanian, Kartik; Harshbarger, Wayne; Gondi, Sudershan; Wang, Jinhua; Sorger, Peter K; Mancias, Joseph D; Gray, Nathanael S; Westover, Kenneth D | Cell chemical biology. | 32755567 | 2020 Aug 04; |
A Semi-automated and Scalable 3D Spheroid Assay to Study Neuroblast Migration. | Ducker, Martin; Millar, Valerie; Ebner, Daniel; Szele, Francis G | Stem cell reports. | 32763162 | 2020 09 08; |
Nucleotide Binding, Evolutionary Insights, and Interaction Partners of the Pseudokinase Unc-51-like Kinase 4. | Preuss, Franziska; Chatterjee, Deep; Mathea, Sebastian; Shrestha, Safal; St-Germain, Jonathan; Saha, Manipa; Kannan, Natarajan; Raught, Brian; Rottapel, Robert; Knapp, Stefan | Structure (London, England : 1993) | 32814032 | 2020 11 03 |
The COVID-19 Drug and Gene Set Library. | Kuleshov, Maxim V; Stein, Daniel J; Clarke, Daniel J B; Kropiwnicki, Eryk; Jagodnik, Kathleen M; Bartal, Alon; Evangelista, John E; Hom, Jason; Cheng, Minxuan; Bailey, Allison; Zhou, Abigail; Ferguson, Laura B; Lachmann, Alexander; Ma'ayan, Avi | Patterns (New York, N.Y.). | 32838343 | 2020 Sep 11; |
KG-COVID-19: a framework to produce customized knowledge graphs for COVID-19 response. | Reese, Justin; Unni, Deepak; Callahan, Tiffany J; Cappelletti, Luca; Ravanmehr, Vida; Carbon, Seth; Fontana, Tommaso; Blau, Hannah; Matentzoglu, Nicolas; Harris, Nomi L; Munoz-Torres, Monica C; Robinson, Peter N; Joachimiak, Marcin P; Mungall, Christopher J | bioRxiv : the preprint server for biology. | 32839776 | 2020 Aug 18; |
Off-Patent Drug Repositioning. | Avram, Sorin; Curpan, Ramona; Halip, Liliana; Bora, Alina; Oprea, Tudor I | Journal of chemical information and modeling | 32877182 | 2020 12 28 |
A 12-lipoxygenase-Gpr31 signaling axis is required for pancreatic organogenesis in the zebrafish. | Hernandez-Perez, Marimar; Kulkarni, Abhishek; Samala, Niharika; Sorrell, Cody; El, Kimberly; Haider, Isra; Mukhtar Aleem, Ansari; Holman, Theodore R; Rai, Ganesha; Tersey, Sarah A; Mirmira, Raghavendra G; Anderson, Ryan M | FASEB journal : official publication of the Federation of American Societies for Experimental Biology. | 32918516 | 2020 Nov; |
Deciphering the Plasma Proteome of Type 2 Diabetes. | Elhadad, Mohamed A; Jonasson, Christian; Huth, Cornelia; Wilson, Rory; Gieger, Christian; Matias, Pamela; Grallert, Harald; Graumann, Johannes; Gailus-Durner, Valerie; Rathmann, Wolfgang; von Toerne, Christine; Hauck, Stefanie M; Koenig, Wolfgang; Sinner, | Diabetes. | 32928870 | 2020 Dec; |
Artificial intelligence, drug repurposing and peer review. | Levin, Jeremy M; Oprea, Tudor I; Davidovich, Sagie; Clozel, Thomas; Overington, John P; Vanhaelen, Quentin; Cantor, Charles R; Bischof, Evelyne; Zhavoronkov, Alex | Nature biotechnology. | 32929264 | 2020 10; |
Chemokine Signatures of Pathogen-Specific T Cells II: Memory T Cells in Acute and Chronic Infection. | Davenport, Bennett; Eberlein, Jens; Nguyen, Tom T; Victorino, Francisco; van der Heide, Verena; Kuleshov, Maxim; Ma'ayan, Avi; Kedl, Ross; Homann, Dirk | Journal of immunology (Baltimore, Md. : 1950). | 32948682 | 2020 Oct 15; |
Chemokine Signatures of Pathogen-Specific T Cells I: Effector T Cells. | Eberlein, Jens; Davenport, Bennett; Nguyen, Tom T; Victorino, Francisco; Jhun, Kevin; van der Heide, Verena; Kuleshov, Maxim; Ma'ayan, Avi; Kedl, Ross; Homann, Dirk | Journal of immunology (Baltimore, Md. : 1950). | 32948687 | 2020 Oct 15; |
PKIS deep dive yields a chemical starting point for dark kinases and a cell active BRSK2 inhibitor. | Tamir, Tigist Y; Drewry, David H; Wells, Carrow; Major, M Ben; Axtman, Alison D | Scientific reports | 32985588 | 2020 Sep 28 |
HCAR3: an underexplored metabolite sensor. | Kapolka, Nicholas J; Isom, Daniel G | Nature reviews. Drug discovery. | 33009526 | 2020 Nov; |
Concise, gram-scale synthesis of furo[2,3-b]pyridines with functional handles for chemoselective cross-coupling. | O'Byrne, Sean N; Eduful, Benjamin J; Willson, Timothy M; Drewry, David H | Tetrahedron letters | 33012852 | 2020 Sep 17 |
Germline and Mosaic Variants in PRKACA and PRKACB Cause a Multiple Congenital Malformation Syndrome. | Palencia-Campos, Adrian; Aoto, Phillip C; Machal, Erik M F; Rivera-Barahona, Ana; Soto-Bielicka, Patricia; Bertinetti, Daniela; Baker, Blaine; Vu, Lily; Piceci-Sparascio, Francesca; Torrente, Isabella; Boudin, Eveline; Peeters, Silke; Van Hul, Wim; Huber, | American journal of human genetics. | 33058759 | 2020 11 05; |
Unbiased proteomic screening identifies a novel role for the E3 ubiquitin ligase Nedd4-2 in translational suppression during ER stress. | Eagleman, Daphne E; Zhu, Jiuhe; Liu, Dai-Chi; Seimetz, Joseph; Kalsotra, Auinash; Tsai, Nien-Pei | Journal of neurochemistry. | 33064840 | 2020 Oct 16; |
Connectivity Mapping Identifies BI-2536 as a Potential Drug to Treat Diabetic Kidney Disease. | Zhang, Lu; Wang, Zichen; Liu, Ruijie; Li, Zhengzhe; Lin, Jennifer; Wojciechowicz, Megan L; Huang, Jiyi; Lee, Kyung; Ma'ayan, Avi; He, John Cijiang | Diabetes | 33067313 | 2021 Feb |
The Dark Kinase Knowledgebase: an online compendium of knowledge and experimental results of understudied kinases. | Berginski, Matthew E; Moret, Nienke; Liu, Changchang; Goldfarb, Dennis; Sorger, Peter K; Gomez, Shawn M | Nucleic acids research. | 33079988 | 2020 Oct 20; |
CALCIUM REGULATION OF T CELL METABOLISM. | Wang, Yinhu; Tao, Anthony; Vaeth, Martin; Feske, Stefan | Current opinion in physiology. | 33103016 | 2020 Oct; |
DrugCentral 2021 supports drug discovery and repositioning. | Avram, Sorin; Bologa, Cristian G; Holmes, Jayme; Bocci, Giovanni; Wilson, Thomas B; Nguyen, Dac-Trung; Curpan, Ramona; Halip, Liliana; Bora, Alina; Yang, Jeremy J; Knockel, Jeffrey; Sirimulla, Suman; Ursu, Oleg; Oprea, Tudor I | Nucleic acids research | 33151287 | 2021 01 08 |
TCRD and Pharos 2021: mining the human proteome for disease biology. | Sheils, Timothy K; Mathias, Stephen L; Kelleher, Keith J; Siramshetty, Vishal B; Nguyen, Dac-Trung; Bologa, Cristian G; Jensen, Lars Juhl; Vidović, Dušica; Koleti, Amar; Schürer, Stephan C; Waller, Anna; Yang, Jeremy J; Holmes, Jayme; Bocci, Giovanni; Southall, Noel; Dharkar, Poorva; Mathé, Ewy; Simeonov, Anton; Oprea, Tudor I | Nucleic acids research | 33156327 | 2021 01 08 |
Hypothesis: Unifying model of domain architecture for conventional and novel protein kinase C isozymes. | Jones, Alexander C; Taylor, Susan S; Newton, Alexandra C; Kornev, Alexandr P | IUBMB life | 33166426 | 2020 12 |
A Workflow of Integrated Resources to Catalyze Network Pharmacology Driven COVID-19 Research. | Zahoránszky-K?halmi, Gergely; Siramshetty, Vishal B; Kumar, Praveen; Gurumurthy, Manideep; Grillo, Busola; Mathew, Biju; Metaxatos, Dimitrios; Backus, Mark; Mierzwa, Tim; Simon, Reid; Grishagin, Ivan; Brovold, Laura; Mathé, Ewy A; Hall, Matthew D; Michael | bioRxiv : the preprint server for biology. | 33173863 | 2020 Nov 05; |
Quantitative Structure-Mutation-Activity Relationship Tests (QSMART) model for protein kinase inhibitor response prediction. | Huang, Liang-Chin; Yeung, Wayland; Wang, Ye; Cheng, Huimin; Venkat, Aarya; Li, Sheng; Ma, Ping; Rasheed, Khaled; Kannan, Natarajan | BMC bioinformatics. | 33183223 | 2020 Nov 12; |
KG-COVID-19: a framework to produce customized knowledge graphs for COVID-19 response. | Reese, Justin T; Unni, Deepak; Callahan, Tiffany J; Cappelletti, Luca; Ravanmehr, Vida; Carbon, Seth; Shefchek, Kent A; Good, Benjamin M; Balhoff, James P; Fontana, Tommaso; Blau, Hannah; Matentzoglu, Nicolas; Harris, Nomi L; Munoz-Torres, Monica C; Haend | Patterns (New York, N.Y.). | 33196056 | 2020 Nov 09; |
REDIAL-2020: A Suite of Machine Learning Models to Estimate Anti-SARS-CoV-2 Activities. | Kc, Govinda; Bocci, Giovanni; Verma, Srijan; Hassan, Mahmudulla; Holmes, Jayme; Yang, Jeremy; Sirimulla, Suman; Oprea, Tudor I | ChemRxiv : the preprint server for chemistry. | 33200119 | 2020 Sep 16; |
The Clinical Kinase Index: A Method to Prioritize Understudied Kinases as Drug Targets for the Treatment of Cancer. | Essegian, Derek; Khurana, Rimpi; Stathias, Vasileios; Schürer, Stephan C | Cell reports. Medicine. | 33205077 | 2020 Oct 20; |
A Chemical Probe for Dark Kinase STK17B Derives Its Potency and High Selectivity through a Unique P-Loop Conformation. | Picado, Alfredo; Chaikuad, Apirat; Wells, Carrow I; Shrestha, Safal; Zuercher, William J; Pickett, Julie E; Kwarcinski, Frank E; Sinha, Parvathi; de Silva, Chandi S; Zutshi, Reena; Liu, Shubin; Kannan, Natarajan; Knapp, Stefan; Drewry, David H; Willson, Timothy M | Journal of medicinal chemistry | 33215924 | 2020 12 10 |
Activation of the ARCPOMC?MeA Projection Reduces Food Intake. | Kwon, Eunjin; Jo, Young-Hwan | Frontiers in neural circuits. | 33250721 | 2020; |
Mapping the Degradable Kinome Provides a Resource for Expedited Degrader Development. | Donovan, Katherine A; Ferguson, Fleur M; Bushman, Jonathan W; Eleuteri, Nicholas A; Bhunia, Debabrata; Ryu, SeongShick; Tan, Li; Shi, Kun; Yue, Hong; Liu, Xiaoxi; Dobrovolsky, Dennis; Jiang, Baishan; Wang, Jinhua; Hao, Mingfeng; You, Inchul; Teng, Mingxing; Liang, Yanke; Hatcher, John; Li, Zhengnian; Manz, Theresa D; Groendyke, Brian; Hu, Wanyi; Nam, Yunju; Sengupta, Sandip; Cho, Hanna; Shin, Injae; Agius, Michael P; Ghobrial, Irene M; Ma, Michelle W; Che, Jianwei; Buhrlage, Sara J; Sim, Taebo; Gray, Nathanael S; Fischer, Eric S | Cell | 33275901 | 2020 12 10 |
Optogenetic stimulation of the liver-projecting melanocortinergic pathway promotes hepatic glucose production. | Kwon, Eunjin; Joung, Hye-Young; Liu, Shun-Mei; Chua Jr, Streamson C; Schwartz, Gary J; Jo, Young-Hwan | Nature communications. | 33293550 | 2020 12 08; |
Virtual and In Vitro Antiviral Screening Revive Therapeutic Drugs for COVID-19. | Bocci, Giovanni; Bradfute, Steven B; Ye, Chunyan; Garcia, Matthew J; Parvathareddy, Jyothi; Reichard, Walter; Surendranathan, Surekha; Bansal, Shruti; Bologa, Cristian G; Perkins, Douglas J; Jonsson, Colleen B; Sklar, Larry A; Oprea, Tudor I | ACS pharmacology & translational science | 33330842 | 2020 Dec 11 |
The Kinase Chemogenomic Set (KCGS): An Open Science Resource for Kinase Vulnerability Identification. | Wells, Carrow I; Al-Ali, Hassan; Andrews, David M; Asquith, Christopher R M; Axtman, Alison D; Dikic, Ivan; Ebner, Daniel; Ettmayer, Peter; Fischer, Christian; Frederiksen, Mathias; Futrell, Robert E; Gray, Nathanael S; Hatch, Stephanie B; Knapp, Stefan; Lücking, Ulrich; Michaelides, Michael; Mills, Caitlin E; Müller, Susanne; Owen, Dafydd; Picado, Alfredo; Saikatendu, Kumar S; Schröder, Martin; Stolz, Alexandra; Tellechea, Mariana; Turunen, Brandon J; Vilar, Santiago; Wang, Jinhua; Zuercher, William J; Willson, Timothy M; Drewry, David H | International journal of molecular sciences | 33429995 | 2021 Jan 08 |
SmartGraph: a network pharmacology investigation platform. | Zahoránszky-Kőhalmi, Gergely; Sheils, Timothy; Oprea, Tudor I | Journal of cheminformatics | 33430980 | 2020 Jan 21 |
Development of a potent and selective chemical probe for the pleiotropic kinase CK2. | Wells, Carrow I; Drewry, David H; Pickett, Julie E; Tjaden, Amelie; Krämer, Andreas; Müller, Susanne; Gyenis, Laszlo; Menyhart, Daniel; Litchfield, David W; Knapp, Stefan; Axtman, Alison D | Cell chemical biology | 33484635 | 2021 04 15 |
InContext: curation of medical context for drug indications. | Moodley, Kody; Rieswijk, Linda; Oprea, Tudor I; Dumontier, Michel | Journal of biomedical semantics | 33579375 | 2021 02 12 |
Machine learning identifies candidates for drug repurposing in Alzheimer's disease. | Rodriguez, Steve; Hug, Clemens; Todorov, Petar; Moret, Nienke; Boswell, Sarah A; Evans, Kyle; Zhou, George; Johnson, Nathan T; Hyman, Bradley T; Sorger, Peter K; Albers, Mark W; Sokolov, Artem | Nature communications | 33589615 | 2021 02 15 |
Prioritizing Pain-Associated Targets with Machine Learning. | Jeon, Minji; Jagodnik, Kathleen M; Kropiwnicki, Eryk; Stein, Daniel J; Ma'ayan, Avi | Biochemistry | 33606503 | 2021 05 11 |
The Atypical Kinase RIOK3 Limits RVFV Propagation and Is Regulated by Alternative Splicing. | Havranek, Katherine E; White, Luke Adam; Bisom, Thomas C; Lanchy, Jean-Marc; Lodmell, J Stephen | Viruses | 33652597 | 2021 02 26 |
Appyters: Turning Jupyter Notebooks into data-driven web apps. | Clarke, Daniel J B; Jeon, Minji; Stein, Daniel J; Moiseyev, Nicole; Kropiwnicki, Eryk; Dai, Charles; Xie, Zhuorui; Wojciechowicz, Megan L; Litz, Skylar; Hom, Jason; Evangelista, John Erol; Goldman, Lucas; Zhang, Serena; Yoon, Christine; Ahamed, Tahmid; Bhuiyan, Samantha; Cheng, Minxuan; Karam, Julie; Jagodnik, Kathleen M; Shu, Ingrid; Lachmann, Alexander; Ayling, Sam; Jenkins, Sherry L; Ma'ayan, Avi | Patterns (New York, N.Y.) | 33748796 | 2021 Mar 12 |
Targeting Never-In-Mitosis-A Related Kinase 5 in Cancer: A Review. | Matossian, Margarite D; Wells, Carrow I; Zuercher, William J; Collins-Burow, Bridgette M; Drewry, David H; Burow, Matthew E | Current medicinal chemistry | 33749548 | 2021 |
Discovery and resistance mechanism of a selective CDK12 degrader. | Jiang, Baishan; Gao, Yang; Che, Jianwei; Lu, Wenchao; Kaltheuner, Ines H; Dries, Ruben; Kalocsay, Marian; Berberich, Matthew J; Jiang, Jie; You, Inchul; Kwiatkowski, Nicholas; Riching, Kristin M; Daniels, Danette L; Sorger, Peter K; Geyer, Matthias; Zhang, Tinghu; Gray, Nathanael S | Nature chemical biology | 33753926 | 2021 Mar 22 |
Blockade of IL-22 signaling reverses erythroid dysfunction in stress-induced anemias. | Raundhal, Mahesh; Ghosh, Shrestha; Myers, Samuel A; Cuoco, Michael S; Singer, Meromit; Carr, Steven A; Waikar, Sushrut S; Bonventre, Joseph V; Ritz, Jerome; Stone, Richard M; Steensma, David P; Regev, Aviv; Glimcher, Laurie H | Nature immunology | 33753942 | 2021 04 |
Predicting Lyme Disease From Patients' Peripheral Blood Mononuclear Cells Profiled With RNA-Sequencing. | Clarke, Daniel J B; Rebman, Alison W; Bailey, Allison; Wojciechowicz, Megan L; Jenkins, Sherry L; Evangelista, John E; Danieletto, Matteo; Fan, Jinshui; Eshoo, Mark W; Mosel, Michael R; Robinson, William; Ramadoss, Nitya; Bobe, Jason; Soloski, Mark J; Aucott, John N; Ma'ayan, Avi | Frontiers in immunology | 33763080 | 2021 |
Gene Set Knowledge Discovery with Enrichr. | Xie, Zhuorui; Bailey, Allison; Kuleshov, Maxim V; Clarke, Daniel J B; Evangelista, John E; Jenkins, Sherry L; Lachmann, Alexander; Wojciechowicz, Megan L; Kropiwnicki, Eryk; Jagodnik, Kathleen M; Jeon, Minji; Ma'ayan, Avi | Current protocols | 33780170 | 2021 Mar |
Drugmonizome and Drugmonizome-ML: integration and abstraction of small molecule attributes for drug enrichment analysis and machine learning. | Kropiwnicki, Eryk; Evangelista, John E; Stein, Daniel J; Clarke, Daniel J B; Lachmann, Alexander; Kuleshov, Maxim V; Jeon, Minji; Jagodnik, Kathleen M; Ma'ayan, Avi | Database : the journal of biological databases and curation | 33787872 | 2021 03 31 |
An Esrrb and Nanog Cell Fate Regulatory Module Controlled by Feed Forward Loop Interactions. | Sevilla, Ana; Papatsenko, Dimitri; Mazloom, Amin R; Xu, Huilei; Vasileva, Ana; Unwin, Richard D; LeRoy, Gary; Chen, Edward Y; Garrett-Bakelman, Francine E; Lee, Dung-Fang; Trinite, Benjamin; Webb, Ryan L; Wang, Zichen; Su, Jie; Gingold, Julian; Melnick, Ari; Garcia, Benjamin A; Whetton, Anthony D; MacArthur, Ben D; Ma'ayan, Avi; Lemischka, Ihor R | Frontiers in cell and developmental biology | 33816475 | 2021 |
Highly Accurate Chip-Based Resequencing of SARS-CoV-2 Clinical Samples. | Hoff, Kendall; Ding, Xun; Carter, Lucas; Duque, John; Lin, Ju-Yu; Dung, Samantha; Singh, Priyanka; Sun, Jiayi; Crnogorac, Filip; Swaminathan, Radha; Alden, Emily N; Zhu, Xuechen; Shimada, Ryota; Posavi, Marijan; Hull, Noah; Dinwiddie, Darrell; Halasz, Adam M; McGall, Glenn; Zhou, Wei; Edwards, Jeremy S | Langmuir : the ACS journal of surfaces and colloids | 33848173 | 2021 Apr 27 |
mTORC2 controls the activity of PKC and Akt by phosphorylating a conserved TOR interaction motif. | Baffi, Timothy R; Lordén, Gema; Wozniak, Jacob M; Feichtner, Andreas; Yeung, Wayland; Kornev, Alexandr P; King, Charles C; Del Rio, Jason C; Limaye, Ameya J; Bogomolovas, Julius; Gould, Christine M; Chen, Ju; Kennedy, Eileen J; Kannan, Natarajan; Gonzalez, David J; Stefan, Eduard; Taylor, Susan S; Newton, Alexandra C | Science signaling | 33850054 | 2021 Apr 13 |
TMEM16C is involved in thermoregulation and protects rodent pups from febrile seizures. | Wang, Tongfei A; Chen, Chao; Huang, Fen; Feng, Shengjie; Tien, Jason; Braz, João M; Basbaum, Allan I; Jan, Yuh Nung; Jan, Lily Yeh | Proceedings of the National Academy of Sciences of the United States of America | 33972431 | 2021 05 18 |
FOXA1 and adaptive response determinants to HER2 targeted therapy in TBCRC 036. | Angus, Steven P; Stuhlmiller, Timothy J; Mehta, Gaurav; Bevill, Samantha M; Goulet, Daniel R; Olivares-Quintero, J Felix; East, Michael P; Tanioka, Maki; Zawistowski, Jon S; Singh, Darshan; Sciaky, Noah; Chen, Xin; He, Xiaping; Rashid, Naim U; Chollet-Hinton, Lynn; Fan, Cheng; Soloway, Matthew G; Spears, Patricia A; Jefferys, Stuart; Parker, Joel S; Gallagher, Kristalyn K; Forero-Torres, Andres; Krop, Ian E; Thompson, Alastair M; Murthy, Rashmi; Gatza, Michael L; Perou, Charles M; Earp, H Shelton; Carey, Lisa A; Johnson, Gary L | NPJ breast cancer | 33980863 | 2021 May 12 |
KEA3: improved kinase enrichment analysis via data integration. | Kuleshov, Maxim V; Xie, Zhuorui; London, Alexandra B K; Yang, Janice; Evangelista, John Erol; Lachmann, Alexander; Shu, Ingrid; Torre, Denis; Ma'ayan, Avi | Nucleic acids research | 34019655 | 2021 07 02 |
Towards a RIOK2 chemical probe: cellular potency improvement of a selective 2-(acylamino)pyridine series. | Wang, Christopher B; Lorente-Macías, Álvaro; Wells, Carrow; Pickett, Julie E; Picado, Alfredo; Zuercher, William J; Axtman, Alison D | RSC medicinal chemistry | 34046605 | 2021 Jan 01 |
Regulation of Tissue Inflammation by 12-Lipoxygenases. | Kulkarni, Abhishek; Nadler, Jerry L; Mirmira, Raghavendra G; Casimiro, Isabel | Biomolecules | 34064822 | 2021 05 11 |
Krüppel-like factor 6-mediated loss of BCAA catabolism contributes to kidney injury in mice and humans. | Piret, Sian E; Guo, Yiqing; Attallah, Ahmed A; Horne, Sylvia J; Zollman, Amy; Owusu, Daniel; Henein, Justina; Sidorenko, Viktoriya S; Revelo, Monica P; Hato, Takashi; Ma'ayan, Avi; He, John Cijiang; Mallipattu, Sandeep K | Proceedings of the National Academy of Sciences of the United States of America | 34074766 | 2021 06 08 |
Crowdsourced mapping of unexplored target space of kinase inhibitors. | Cichońska, Anna; Ravikumar, Balaguru; Allaway, Robert J; Wan, Fangping; Park, Sungjoon; Isayev, Olexandr; Li, Shuya; Mason, Michael; Lamb, Andrew; Tanoli, Ziaurrehman; Jeon, Minji; Kim, Sunkyu; Popova, Mariya; Capuzzi, Stephen; Zeng, Jianyang; Dang, Kristen; Koytiger, Gregory; Kang, Jaewoo; Wells, Carrow I; Willson, Timothy M; IDG-DREAM Drug-Kinase Binding Prediction Challenge Consortium; Oprea, Tudor I; Schlessinger, Avner; Drewry, David H; Stolovitzky, Gustavo; Wennerberg, Krister; Guinney, Justin; Aittokallio, Tero | Nature communications | 34083538 | 2021 06 03 |
TIGA: Target illumination GWAS analytics. | Yang, Jeremy J; Grissa, Dhouha; Lambert, Christophe G; Bologa, Cristian G; Mathias, Stephen L; Waller, Anna; Wild, David J; Jensen, Lars Juhl; Oprea, Tudor I | Bioinformatics (Oxford, England) | 34086846 | 2021 Jun 04 |
Chemoproteomic methods for covalent drug discovery. | Chan, Wai Cheung; Sharifzadeh, Shabnam; Buhrlage, Sara J; Marto, Jarrod A | Chemical Society reviews | 34143170 | 2021 Aug 02 |
NEK5 activity regulates the mesenchymal and migratory phenotype in breast cancer cells. | Matossian, Margarite D; Elliott, Steven; Van Hoang, T; Burks, Hope E; Wright, Maryl K; Alzoubi, Madlin S; Yan, Thomas; Chang, Tiffany; Wathieu, Henri; Windsor, Gabrielle O; Hartono, Alifiani Bo; Lee, Sean; Zuercher, William J; Drewry, David H; Wells, Carrow; Kapadia, Nirav; Buechlein, Aaron; Fang, Fang; Nephew, Kenneth P; Collins-Burow, Bridgette M; Burow, Matthew E | Breast cancer research and treatment | 34196902 | 2021 Jul 01 |
A critical overview of computational approaches employed for COVID-19 drug discovery. | Muratov , Eugene N; Amaro , Rommie; Andrade , Carolina H; Brown , Nathan; Ekins , Sean; Fourches , Denis; Isayev , Olexandr; Kozakov , Dima; Medina-Franco , José L; Merz , Kenneth M; Oprea , Tudor I; Poroikov , Vladimir; Schneider , Gisbert; Todd , Matthew H; Varnek , Alexandre; Winkler , David A; Zakharov , Alexey V; Cherkasov , Artem; Tropsha , Alexander | Chemical Society reviews | 34212944 | 2021 Aug 21 |
Hinge Binder Scaffold Hopping Identifies Potent Calcium/Calmodulin-Dependent Protein Kinase Kinase 2 (CAMKK2) Inhibitor Chemotypes. | Eduful, Benjamin J; O'Byrne, Sean N; Temme, Louisa; Asquith, Christopher R M; Liang, Yi; Picado, Alfredo; Pilotte, Joseph R; Hossain, Mohammad Anwar; Wells, Carrow I; Zuercher, William J; Catta-Preta, Carolina M C; Zonzini Ramos, Priscila; Santiago, André de S; Couñago, Rafael M; Langendorf, Christopher G; Nay, Kévin; Oakhill, Jonathan S; Pulliam, Thomas L; Lin, Chenchu; Awad, Dominik; Willson, Timothy M; Frigo, Daniel E; Scott, John W; Drewry, David H | Journal of medicinal chemistry | 34264658 | 2021 08 12 |
The Tails of Protein Kinase A. | Taylor, Susan S; Søberg, Kristoffer; Kobori, Evan; Wu, Jian; Pautz, Sabine; Herberg, Friedrich W; Skålhegg, Bjørn Steen | Molecular pharmacology | 34330820 | 2022 04 |
Identification of Pyrimidine-Based Lead Compounds for Understudied Kinases Implicated in Driving Neurodegeneration. | Drewry, David H; Annor-Gyamfi, Joel K; Wells, Carrow I; Pickett, Julie E; Dederer, Verena; Preuss, Franziska; Mathea, Sebastian; Axtman, Alison D | Journal of medicinal chemistry | 34333981 | 2022 01 27 |
Post-translational modification of RAS proteins. | Campbell, Sharon L; Philips, Mark R | Current opinion in structural biology | 34365229 | 2021 12 |
Evaluation of Amide Bioisosteres Leading to 1,2,3-Triazole Containing Compounds as GPR88 Agonists: Design, Synthesis, and Structure-Activity Relationship Studies. | Rahman, Md Toufiqur; Decker, Ann M; Laudermilk, Lucas; Maitra, Rangan; Ma, Weiya; Ben Hamida, Sami; Darcq, Emmanuel; Kieffer, Brigitte L; Jin, Chunyang | Journal of medicinal chemistry | 34387471 | 2021 Aug 26 |
Adiponectin receptor fragmentation in mouse models of type 1 and type 2 diabetes. | Frabutt, Dylan; Stull, Natalie; Pineros, Annie R; Tersey, Sarah A; Scheuner, Donalyn; Mastracci, Teresa L; Pugia, Michael J | Archives of autoimmune diseases | 34414399 | 2020 |
Non-canonical role of Hippo tumor suppressor serine/threonine kinase 3 STK3 in prostate cancer. | Schirmer, Amelia U; Driver, Lucy M; Zhao, Megan T; Wells, Carrow I; Pickett, Julie E; O'Bryne, Sean N; Eduful, Benjamin J; Yang, Xuan; Howard, Lauren; You, Sungyong; Devi, Gayathri R; DiGiovanni, John; Freedland, Stephen J; Chi, Jen-Tsan; Drewry, David H; Macias, Everardo | Molecular therapy : the journal of the American Society of Gene Therapy | 34450249 | 2022 01 05 |
NeuriteNet: A convolutional neural network for assessing morphological parameters of neurite growth. | Vecchi, Joseph T; Mullan, Sean; Lopez, Josue A; Hansen, Marlan R; Sonka, Milan; Lee, Amy | Journal of neuroscience methods | 34480956 | 2021 11 01 |
KinOrtho: a method for mapping human kinase orthologs across the tree of life and illuminating understudied kinases. | Huang, Liang-Chin; Taujale, Rahil; Gravel, Nathan; Venkat, Aarya; Yeung, Wayland; Byrne, Dominic P; Eyers, Patrick A; Kannan, Natarajan | BMC bioinformatics | 34537014 | 2021 Sep 18 |
Characterizing the role of the dark kinome in neurodegenerative disease - A mini review. | Axtman, Alison D | Biochimica et biophysica acta. General subjects | 34547390 | 2021 Dec |
PRM-LIVE with Trapped Ion Mobility Spectrometry and Its Application in Selectivity Profiling of Kinase Inhibitors. | Zhu, He; Ficarro, Scott B; Alexander, William M; Fleming, Laura E; Adelmant, Guillaume; Zhang, Tinghu; Willetts, Matthew; Decker, Jens; Brehmer, Sven; Krause, Michael; East, Michael P; Gray, Nathanael S; Johnson, Gary L; Kruppa, Gary; Marto, Jarrod A | Analytical chemistry | 34606255 | 2021 10 19 |
Loss of proximal tubular transcription factor Krüppel-like factor 15 exacerbates kidney injury through loss of fatty acid oxidation. | Piret, Sian E; Attallah, Ahmed A; Gu, Xiangchen; Guo, Yiqing; Gujarati, Nehaben A; Henein, Justina; Zollman, Amy; Hato, Takashi; Ma'ayan, Avi; Revelo, Monica P; Dickman, Kathleen G; Chen, Chung-Hsin; Shun, Chia-Tung; Rosenquist, Thomas A; He, John C; Mallipattu, Sandeep K | Kidney international | 34634362 | 2021 Dec |
Structural basis of human ghrelin receptor signaling by ghrelin and the synthetic agonist ibutamoren. | Liu, Heng; Sun, Dapeng; Myasnikov, Alexander; Damian, Marjorie; Baneres, Jean-Louis; Sun, Ji; Zhang, Cheng | Nature communications | 34737341 | 2021 11 04 |
The reactome pathway knowledgebase 2022. | Gillespie, Marc; Jassal, Bijay; Stephan, Ralf; Milacic, Marija; Rothfels, Karen; Senff-Ribeiro, Andrea; Griss, Johannes; Sevilla, Cristoffer; Matthews, Lisa; Gong, Chuqiao; Deng, Chuan; Varusai, Thawfeek; Ragueneau, Eliot; Haider, Yusra; May, Bruce; Shamovsky, Veronica; Weiser, Joel; Brunson, Timothy; Sanati, Nasim; Beckman, Liam; Shao, Xiang; Fabregat, Antonio; Sidiropoulos, Konstantinos; Murillo, Julieth; Viteri, Guilherme; Cook, Justin; Shorser, Solomon; Bader, Gary; Demir, Emek; Sander, Chris; Haw, Robin; Wu, Guanming; Stein, Lincoln; Hermjakob, Henning; D'Eustachio, Peter | Nucleic acids research | 34788843 | 2022 01 07 |
Structure, function and pharmacology of human itch GPCRs. | Cao, Can; Kang, Hye Jin; Singh, Isha; Chen, He; Zhang, Chengwei; Ye, Wenlei; Hayes, Byron W; Liu, Jing; Gumpper, Ryan H; Bender, Brian J; Slocum, Samuel T; Krumm, Brian E; Lansu, Katherine; McCorvy, John D; Kroeze, Wesley K; English, Justin G; DiBerto, Jeffrey F; Olsen, Reid H J; Huang, Xi-Ping; Zhang, Shicheng; Liu, Yongfeng; Kim, Kuglae; Karpiak, Joel; Jan, Lily Y; Abraham, Soman N; Jin, Jian; Shoichet, Brian K; Fay, Jonathan F; Roth, Bryan L | Nature | 34789874 | 2021 12 |
A high-fat diet catalyzes progression to hyperglycemia in mice with selective impairment of insulin action in Glut4-expressing tissues. | Reilly, Austin M; Yan, Shijun; Huang, Menghao; Abhyankar, Surabhi D; Conley, Jason M; Bone, Robert N; Stull, Natalie D; Horan, Daniel J; Roh, Hyun C; Robling, Alexander G; Ericsson, Aaron C; Dong, Xiaocheng C; Evans-Molina, Carmella; Ren, Hongxia | The Journal of biological chemistry | 34801552 | 2022 Jan |
Supervised learning with word embeddings derived from PubMed captures latent knowledge about protein kinases and cancer. | Ravanmehr, Vida; Blau, Hannah; Cappelletti, Luca; Fontana, Tommaso; Carmody, Leigh; Coleman, Ben; George, Joshy; Reese, Justin; Joachimiak, Marcin; Bocci, Giovanni; Hansen, Peter; Bult, Carol; Rueter, Jens; Casiraghi, Elena; Valentini, Giorgio; Mungall, Christopher; Oprea, Tudor I; Robinson, Peter N | NAR genomics and bioinformatics | 34888523 | 2021 Dec |
Identification of RIOK2 as a master regulator of human blood cell development. | Ghosh, Shrestha; Raundhal, Mahesh; Myers, Samuel A; Carr, Steven A; Chen, Xi; Petsko, Gregory A; Glimcher, Laurie H | Nature immunology | 34937919 | 2022 01 |
Adaptive chromatin remodeling and transcriptional changes of the functional kinome in tumor cells in response to targeted kinase inhibition. | East, Michael P; Johnson, Gary L | The Journal of biological chemistry | 34958800 | 2022 Feb |
Intestinal Gpr17 deficiency improves glucose metabolism by promoting GLP-1 secretion. | Yan, Shijun; Conley, Jason M; Reilly, Austin M; Stull, Natalie D; Abhyankar, Surabhi D; Ericsson, Aaron C; Kono, Tatsuyoshi; Molosh, Andrei I; Kubal, Chandrashekhar A; Evans-Molina, Carmella; Ren, Hongxia | Cell reports | 34986353 | 2022 01 04 |
Systematic identification of ACE2 expression modulators reveals cardiomyopathy as a risk factor for mortality in COVID-19 patients. | Kaur, Navchetan; Oskotsky, Boris; Butte, Atul J; Hu, Zicheng | Genome biology | 35012625 | 2022 01 10 |
Host kinase CSNK2 is a target for inhibition of pathogenic β-coronaviruses including SARS-CoV-2. | Yang, Xuan; Dickmander, Rebekah J; Bayati, Armin; Taft-Benz, Sharon A; Smith, Jeffery L; Wells, Carrow I; Madden, Emily A; Brown, Jason W; Lenarcic, Erik M; Yount Jr, Boyd L; Chang, Edcon; Axtman, Alison D; Baric, Ralph S; Heise, Mark T; McPherson, Peter S; Moorman, Nathaniel J; Willson, Timothy M | bioRxiv : the preprint server for biology | 35018375 | 2022 Jan 26 |
A Workflow of Integrated Resources to Catalyze Network Pharmacology Driven COVID-19 Research. | Zahoránszky-Kőhalmi, Gergely; Siramshetty, Vishal B; Kumar, Praveen; Gurumurthy, Manideep; Grillo, Busola; Mathew, Biju; Metaxatos, Dimitrios; Backus, Mark; Mierzwa, Tim; Simon, Reid; Grishagin, Ivan; Brovold, Laura; Mathé, Ewy A; Hall, Matthew D; Michael, Samuel G; Godfrey, Alexander G; Mestres, Jordi; Jensen, Lars J; Oprea, Tudor I | Journal of chemical information and modeling | 35057621 | 2022 02 14 |
A Learning Based Framework for Disease Prediction from Images of Human-Derived Pluripotent Stem Cells of Schizophrenia Patients. | Fularczyk, Nickolas; Di Re, Jessica; Stertz, Laura; Walss-Bass, Consuelo; Laezza, Fernanda; Labate, Demetrio | Neuroinformatics | 35064871 | 2022 Jan 22 |
Getting Started with the IDG KMC Datasets and Tools. | Kropiwnicki, Eryk; Binder, Jessica L; Yang, Jeremy J; Holmes, Jayme; Lachmann, Alexander; Clarke, Daniel J B; Sheils, Timothy; Kelleher, Keith J; Metzger, Vincent T; Bologa, Cristian G; Oprea, Tudor I; Ma'ayan, Avi | Current protocols | 35085427 | 2022 Jan |
Neuropeptide B/W receptor 1 peptidomimetic agonists: Structure-activity relationships and plasma stability. | Nguyen, Thuy; Decker, Ann M; Snyder, Rodney W; Tonetti, Emma C; Gamage, Thomas F; Zhang, Yanan | European journal of medicinal chemistry | 35101647 | 2022 Mar 05 |
Tra2beta-Dependent Regulation of RIO Kinase 3 Splicing During Rift Valley Fever Virus Infection Underscores the Links Between Alternative Splicing and Innate Antiviral Immunity. | White, Luke Adam; Bisom, Thomas C; Grimes, Hunter L; Hayashi, Miyuki; Lanchy, Jean-Marc; Lodmell, J Stephen | Frontiers in cellular and infection microbiology | 35127560 | 2021 |
Tousled-like kinase 2 targets ASF1 histone chaperones through client mimicry. | Simon, Bertrand; Lou, Hua Jane; Huet-Calderwood, Clotilde; Shi, Guangda; Boggon, Titus J; Turk, Benjamin E; Calderwood, David A | Nature communications | 35136069 | 2022 02 08 |
blitzGSEA: Efficient computation of Gene Set Enrichment Analysis through Gamma distribution approximation. | Lachmann, Alexander; Xie, Zhuorui; Ma'ayan, Avi | Bioinformatics (Oxford, England) | 35143610 | 2022 Feb 10 |
Machine learning prediction and tau-based screening identifies potential Alzheimer's disease genes relevant to immunity. | Binder, Jessica; Ursu, Oleg; Bologa, Cristian; Jiang, Shanya; Maphis, Nicole; Dadras, Somayeh; Chisholm, Devon; Weick, Jason; Myers, Orrin; Kumar, Praveen; Yang, Jeremy J; Bhaskar, Kiran; Oprea, Tudor I | Communications biology | 35149761 | 2022 02 11 |
EMBER: Multi-label prediction of kinase-substrate phosphorylation events through deep learning. | Kirchoff, Kathryn E; Gomez, Shawn M | Bioinformatics (Oxford, England) | 35157015 | 2022 Feb 14 |
DrugShot: querying biomedical search terms to retrieve prioritized lists of small molecules. | Kropiwnicki, Eryk; Lachmann, Alexander; Clarke, Daniel J B; Xie, Zhuorui; Jagodnik, Kathleen M; Ma'ayan, Avi | BMC bioinformatics | 35183110 | 2022 Feb 19 |
Structure-Based Design of a Chemical Probe Set for the 5-HT5A Serotonin Receptor. | Levit Kaplan, Anat; Strachan, Ryan T; Braz, Joao M; Craik, Veronica; Slocum, Samuel; Mangano, Thomas; Amabo, Vanessa; O'Donnell, Henry; Lak, Parnian; Basbaum, Allan I; Roth, Bryan L; Shoichet, Brian K | Journal of medicinal chemistry | 35195401 | 2022 03 10 |
State of the Art and Uses for the Biopharmaceutics Drug Disposition Classification System (BDDCS): New Additions, Revisions, and Citation References. | Bocci, Giovanni; Oprea, Tudor I; Benet, Leslie Z | The AAPS journal | 35199251 | 2022 02 23 |
Molecular recognition of formylpeptides and diverse agonists by the formylpeptide receptors FPR1 and FPR2. | Zhuang, Youwen; Wang, Lei; Guo, Jia; Sun, Dapeng; Wang, Yue; Liu, Weiyi; Xu, H Eric; Zhang, Cheng | Nature communications | 35217703 | 2022 Feb 25 |
The voltage-gated Ca2+ channel subunit α2δ-4 regulates locomotor behavior and sensorimotor gating in mice. | Klomp, Annette; Omichi, Ryotaro; Iwasa, Yoichiro; Smith, Richard J; Usachev, Yuriy M; Russo, Andrew F; Narayanan, Nandakumar S; Lee, Amy | PloS one | 35353835 | 2022 |
Gene and drug landing page aggregator. | Clarke, Daniel J B; Kuleshov, Maxim V; Xie, Zhuorui; Evangelista, John E; Meyers, Marilyn R; Kropiwnicki, Eryk; Jenkins, Sherry L; Ma'ayan, Avi | Bioinformatics advances | 35368424 | 2022 |
Agonist and antagonist TRUPATH assays for G protein-coupled receptors. | DiBerto, Jeffrey F; Smart, Katie; Olsen, Reid H J; Roth, Bryan L | STAR protocols | 35403009 | 2022 06 17 |
Identification of 4-Anilinoquin(az)oline as a Cell-Active Protein Kinase Novel 3 (PKN3) Inhibitor Chemotype. | Asquith, Christopher R M; Temme, Louisa; East, Michael P; Laitinen, Tuomo; Pickett, Julie; Kwarcinski, Frank E; Sinha, Parvathi; Wells, Carrow I; Johnson, Gary L; Zutshi, Reena; Drewry, David H | ChemMedChem | 35403825 | 2022 06 20 |
AlphaFold illuminates half of the dark human proteins. | Binder, Jessica L; Berendzen, Joel; Stevens, Amy O; He, Yi; Wang, Jian; Dokholyan, Nikolay V; Oprea, Tudor I | Current opinion in structural biology | 35439658 | 2022 06 |
Cavβ1 regulates T cell expansion and apoptosis independently of voltage-gated Ca2+ channel function. | Erdogmus, Serap; Concepcion, Axel R; Yamashita, Megumi; Sidhu, Ikjot; Tao, Anthony Y; Li, Wenyi; Rocha, Pedro P; Huang, Bonnie; Garippa, Ralph; Lee, Boram; Lee, Amy; Hell, Johannes W; Lewis, Richard S; Prakriya, Murali; Feske, Stefan | Nature communications | 35440113 | 2022 04 19 |
Ectopic biomolecular phase transitions: fusion proteins in cancer pathologies. | Davis, Richoo B; Moosa, Mahdi Muhammad; Banerjee, Priya R | Trends in cell biology | 35484036 | 2022 Aug |
Protein proximity networks and functional evaluation of the casein kinase 1 gamma family reveal unique roles for CK1γ3 in WNT signaling. | Agajanian, Megan J; Potjewyd, Frances M; Bowman, Brittany M; Solomon, Smaranda; LaPak, Kyle M; Bhatt, Dhaval P; Smith, Jeffery L; Goldfarb, Dennis; Axtman, Alison D; Major, Michael B | The Journal of biological chemistry | 35487243 | 2022 06 |
Open source fraction collector/MALDI spotter for proteomics. | Ficarro, Scott B; Max Alexander, William; Tavares, Isidoro; Marto, Jarrod A | HardwareX | 35518277 | 2022 Apr |
SigCom LINCS: data and metadata search engine for a million gene expression signatures. | Evangelista, John Erol; Clarke, Daniel J B; Xie, Zhuorui; Lachmann, Alexander; Jeon, Minji; Chen, Kerwin; Jagodnik, Kathleen M; Jenkins, Sherry L; Kuleshov, Maxim V; Wojciechowicz, Megan L; Schürer, Stephan C; Medvedovic, Mario; Ma'ayan, Avi | Nucleic acids research | 35524556 | 2022 May 07 |
Computational tools and resources for pseudokinase research. | O'Boyle, Brady; Shrestha, Safal; Kochut, Krzysztof; Eyers, Patrick A; Kannan, Natarajan | Methods in enzymology | 35525549 | 2022 |
Analysis of human Tribbles 2 (TRIB2) pseudokinase. | Harris, John A; Fairweather, Emma; Byrne, Dominic P; Eyers, Patrick A | Methods in enzymology | 35525562 | 2022 |
Investigating the Therapeutic Potential of Cdk8 Small Molecule Inhibitors to Prevent Pathological Cardiac Remodeling and Heart Failure. | Oppman, Alexis M; Gardner, Richard N; Martins, Ines; Minerath, Rachel A; Hall, Duane D; Grueter, Chad E | FASEB journal : official publication of the Federation of American Societies for Experimental Biology | 35553110 | 2022 May |
Orphan G-Protein Coupled Receptor GPRC5B Is Critical for Lymphatic Development. | Xu, Wenjing; Nelson-Maney, Nathan P; Bálint, László; Kwon, Hyouk-Bum; Davis, Reema B; Dy, Danielle C M; Dunleavey, James M; St Croix, Brad; Caron, Kathleen M | International journal of molecular sciences | 35628521 | 2022 May 20 |
Calcium Channels in Retinal Function and Disease. | Williams, Brittany; Maddox, J Wesley; Lee, Amy | Annual review of vision science | 35650675 | 2022 09 15 |
Host Kinase CSNK2 is a Target for Inhibition of Pathogenic SARS-like β-Coronaviruses. | Yang, Xuan; Dickmander, Rebekah J; Bayati, Armin; Taft-Benz, Sharon A; Smith, Jeffery L; Wells, Carrow I; Madden, Emily A; Brown, Jason W; Lenarcic, Erik M; Yount Jr, Boyd L; Chang, Edcon; Axtman, Alison D; Baric, Ralph S; Heise, Mark T; McPherson, Peter S; Moorman, Nathaniel J; Willson, Timothy M | ACS chemical biology | 35723434 | 2022 Jul 15 |
Autophagy and Herpesvirus: A collaboration Contributing to Alzheimer's Disease. | Nafchi, Amir R; Esmaeili, Mona; Myers, Orrin; Oprea, Tudor; Bearer, Elane L | FASEB journal : official publication of the Federation of American Societies for Experimental Biology | 35723876 | 2022 05 |
On-Chip Preconcentration Microchip Capillary Electrophoresis Based CE-PRM-LIVE for High-Throughput Selectivity Profiling of Deubiquitinase Inhibitors. | Zhu, He; Mellors, J Scott; Chan, Wai Cheung; Thompson, J Will; Ficarro, Scott B; Tavares, Isidoro; Bratt, Ariana S; Decker, Jens; Krause, Michael; Kruppa, Gary; Buhrlage, Sara J; Marto, Jarrod A | Analytical chemistry | 35729701 | 2022 07 12 |
Temozolomide-induced guanine mutations create exploitable vulnerabilities of guanine-rich DNA and RNA regions in drug-resistant gliomas. | Tiek, Deanna M; Erdogdu, Beril; Razaghi, Roham; Jin, Lu; Sadowski, Norah; Alamillo-Ferrer, Carla; Hogg, J Robert; Haddad, Bassem R; Drewry, David H; Wells, Carrow I; Pickett, Julie E; Song, Xiao; Goenka, Anshika; Hu, Bo; Goldlust, Samuel A; Zuercher, William J; Pertea, Mihaela; Timp, Winston; Cheng, Shi-Yuan; Riggins, Rebecca B | Science advances | 35731869 | 2022 06 24 |
Numb-associated kinases are required for SARS-CoV-2 infection and are cellular targets for antiviral strategies. | Karim, Marwah; Saul, Sirle; Ghita, Luca; Sahoo, Malaya Kumar; Ye, Chengjin; Bhalla, Nishank; Lo, Chieh-Wen; Jin, Jing; Park, Jun-Gyu; Martinez-Gualda, Belén; East, Michael Patrick; Johnson, Gary L; Pinsky, Benjamin A; Martinez-Sobrido, Luis; Asquith, Christopher R M; Narayanan, Aarthi; De Jonghe, Steven; Einav, Shirit | Antiviral research | 35738348 | 2022 08 |
Evaluation of a Selective Chemical Probe Validates That CK2 Mediates Neuroinflammation in a Human Induced Pluripotent Stem Cell-Derived Microglial Model. | Mishra, Swati; Kinoshita, Chizuru; Axtman, Alison D; Young, Jessica E | Frontiers in molecular neuroscience | 35774866 | 2022 |
CACHE (Critical Assessment of Computational Hit-finding Experiments): A public-private partnership benchmarking initiative to enable the development of computational methods for hit-finding. | Ackloo, Suzanne; Al-Awar, Rima; Amaro, Rommie E; Arrowsmith, Cheryl H; Azevedo, Hatylas; Batey, Robert A; Bengio, Yoshua; Betz, Ulrich A K; Bologa, Cristian G; Chodera, John D; Cornell, Wendy D; Dunham, Ian; Ecker, Gerhard F; Edfeldt, Kristina; Edwards, Aled M; Gilson, Michael K; Gordijo, Claudia R; Hessler, Gerhard; Hillisch, Alexander; Hogner, Anders; Irwin, John J; Jansen, Johanna M; Kuhn, Daniel; Leach, Andrew R; Lee, Alpha A; Lessel, Uta; Morgan, Maxwell R; Moult, John; Muegge, Ingo; Oprea, Tudor I; Perry, Benjamin G; Riley, Patrick; Rousseaux, Sophie A L; Saikatendu, Kumar Singh; Santhakumar, Vijayaratnam; Schapira, Matthieu; Scholten, Cora; Todd, Matthew H; Vedadi, Masoud; Volkamer, Andrea; Willson, Timothy M | Nature reviews. Chemistry | 35783295 | 2022 Apr |
The potassium channel auxiliary subunit Kvβ2 (Kcnab2) regulates Kv1 channels and dopamine neuron firing. | Yee, Joshua X; Rastani, Ariana; Soden, Marta E | Journal of neurophysiology | 35788155 | 2022 07 01 |
Overexpressing the hydroxycarboxylic acid receptor 1 in mouse brown adipose tissue restores glucose tolerance and insulin sensitivity in diet-induced obese mice. | Min, Hyeon-Young; Hwang, Jiyeon; Choi, Yuna; Jo, Young-Hwan | American journal of physiology. Endocrinology and metabolism | 35830691 | 2022 Sep 01 |
Inactive and active state structures template selective tools for the human 5-HT5A receptor. | Zhang, Shicheng; Chen, He; Zhang, Chengwei; Yang, Ying; Popov, Petr; Liu, Jing; Krumm, Brian E; Cao, Can; Kim, Kuglae; Xiong, Yan; Katritch, Vsevolod; Shoichet, Brian K; Jin, Jian; Fay, Jonathan F; Roth, Bryan L | Nature structural & molecular biology | 35835867 | 2022 07 |
TRUPATH: An Open-Source Biosensor Platform for Interrogating the GPCR Transducerome. | DiBerto, Jeffrey F; Olsen, Reid H J; Roth, Bryan L | Methods in molecular biology (Clifton, N.J.) | 35836068 | 2022 |
Getting Started with LINCS Datasets and Tools. | Xie, Zhuorui; Kropiwnicki, Eryk; Wojciechowicz, Megan L; Jagodnik, Kathleen M; Shu, Ingrid; Bailey, Allison; Clarke, Daniel J B; Jeon, Minji; Evangelista, John Erol; V Kuleshov, Maxim; Lachmann, Alexander; Parigi, Abhijna A; Sanchez, Jose M; Jenkins, Sherry L; Ma'ayan, Avi | Current protocols | 35876555 | 2022 Jul |
A Superfolder Green Fluorescent Protein-Based Biosensor Allows Monitoring of Chloride in the Endoplasmic Reticulum. | Shariati, Kaavian; Zhang, Yaohuan; Giubbolini, Simone; Parra, Riccardo; Liang, Steven; Edwards, Austin; Hejtmancik, J Fielding; Ratto, Gian Michele; Arosio, Daniele; Ku, Gregory | ACS sensors | 35951356 | 2022 Aug 26 |
Production of Eukaryotic Glycoproteins for Structural and Functional Studies Using Expi293F Cells. | Greven, Jessica A; Brett, Tom J | Current protocols | 35998009 | 2022 Aug |
Magel2 knockdown in hypothalamic POMC neurons innervating the medial amygdala reduces susceptibility to diet-induced obesity. | Choi, Yuna; Min, Hyeon-Young; Hwang, Jiyeon; Jo, Young-Hwan | Life science alliance | 36007929 | 2022 11 |
Transforming L1000 profiles to RNA-seq-like profiles with deep learning. | Jeon, Minji; Xie, Zhuorui; Evangelista, John E; Wojciechowicz, Megan L; Clarke, Daniel J B; Ma'ayan, Avi | BMC bioinformatics | 36100892 | 2022 Sep 13 |
Identification and Utilization of a Chemical Probe to Interrogate the Roles of PIKfyve in the Lifecycle of β-Coronaviruses. | Drewry, David H; Potjewyd, Frances M; Bayati, Armin; Smith, Jeffery L; Dickmander, Rebekah J; Howell, Stefanie; Taft-Benz, Sharon; Min, Sophia M; Hossain, Mohammad Anwar; Heise, Mark; McPherson, Peter S; Moorman, Nathaniel J; Axtman, Alison D | Journal of medicinal chemistry | 36111834 | 2022 10 13 |
RIOK3 and Its Alternatively Spliced Isoform Have Disparate Roles in the Innate Immune Response to Rift Valley Fever Virus (MP12) Infection. | Bisom, Thomas C; White, Luke A; Lanchy, Jean-Marc; Lodmell, J Stephen | Viruses | 36146870 | 2022 09 17 |
Agent-based modeling predicts RAC1 is critical for ovarian cancer metastasis. | Rivera, Melanie; Toledo-Jacobo, Leslie; Romero, Elsa; Oprea, Tudor I; Moses, Melanie E; Hudson, Laurie G; Wandinger-Ness, Angela; Grimes, Martha M | Molecular biology of the cell | 36200848 | 2022 Dec 01 |
A PKA inhibitor motif within SMOOTHENED controls Hedgehog signal transduction. | Happ, John T; Arveseth, Corvin D; Bruystens, Jessica; Bertinetti, Daniela; Nelson, Isaac B; Olivieri, Cristina; Zhang, Jingyi; Hedeen, Danielle S; Zhu, Ju-Fen; Capener, Jacob L; Bröckel, Jan W; Vu, Lily; King, C C; Ruiz-Perez, Victor L; Ge, Xuecai; Veglia, Gianluigi; Herberg, Friedrich W; Taylor, Susan S; Myers, Benjamin R | Nature structural & molecular biology | 36202993 | 2022 Oct |
CLIC4 localizes to mitochondrial-associated membranes and mediates cardioprotection. | Ponnalagu, Devasena; Hamilton, Shanna; Sanghvi, Shridhar; Antelo, Diego; Schwieterman, Neill; Hansra, Inderjot; Xu, Xianyao; Gao, Erhe; Edwards, John C; Bansal, Shyam S; Wold, Loren E; Terentyev, Dmitry; Janssen, Paul M L; Hund, Thomas J; Khan, Mahmood; Kohut, Andrew R; Koch, Walter J; Singh, Harpreet | Science advances | 36269835 | 2022 Oct 21 |
Ligand recognition and allosteric modulation of the human MRGPRX1 receptor. | Liu, Yongfeng; Cao, Can; Huang, Xi-Ping; Gumpper, Ryan H; Rachman, Moira M; Shih, Sheng-Luen; Krumm, Brian E; Zhang, Shicheng; Shoichet, Brian K; Fay, Jonathan F; Roth, Bryan L | Nature chemical biology | 36302898 | 2023 Apr |
TTBK2 controls cilium stability by regulating distinct modules of centrosomal proteins. | Nguyen, Abraham; Goetz, Sarah C | Molecular biology of the cell | 36322399 | 2023 Jan 01 |
Multiplexed and reproducible high content screening of live and fixed cells using Dye Drop. | Mills, Caitlin E; Subramanian, Kartik; Hafner, Marc; Niepel, Mario; Gerosa, Luca; Chung, Mirra; Victor, Chiara; Gaudio, Benjamin; Yapp, Clarence; Nirmal, Ajit J; Clark, Nicholas; Sorger, Peter K | Nature communications | 36376301 | 2022 Nov 14 |
Beyond PI3Ks: targeting phosphoinositide kinases in disease. | Burke, John E; Triscott, Joanna; Emerling, Brooke M; Hammond, Gerald R V | Nature reviews. Drug discovery | 36376561 | 2022 Nov 14 |
Molecular basis for selective activation of DREADD-based chemogenetics. | Zhang, Shicheng; Gumpper, Ryan H; Huang, Xi-Ping; Liu, Yongfeng; Krumm, Brian E; Cao, Can; Fay, Jonathan F; Roth, Bryan L | Nature | 36450989 | 2022 Dec |
Protein kinase inhibitor selectivity "hinges" on evolution. | Shrestha, Safal; Bendzunas, George; Kannan, Natarajan | Structure (London, England : 1993) | 36459973 | 2022 Dec 01 |
Cellular and molecular effects of PNCK, a non-canonical kinase target in renal cell carcinoma. | Essegian, Derek J; Chavez, Valery; Bustamante, Floritza; Schürer, Stephan C; Merchan, Jaime R | iScience | 36465101 | 2022 Dec 22 |
DrugCentral 2023 extends human clinical data and integrates veterinary drugs. | Avram, Sorin; Wilson, Thomas B; Curpan, Ramona; Halip, Liliana; Borota, Ana; Bora, Alina; Bologa, Cristian G; Holmes, Jayme; Knockel, Jeffrey; Yang, Jeremy J; Oprea, Tudor I | Nucleic acids research | 36484092 | 2022 Dec 09 |
Evolutionary and cellular analysis of the 'dark' pseudokinase PSKH2. | Byrne, Dominic P; Shrestha, Safal; Daly, Leonard A; Marensi, Vanessa; Ramakrishnan, Krithika; Eyers, Claire E; Kannan, Natarajan; Eyers, Patrick A | The Biochemical journal | 36520605 | 2023 Jan 31 |
Seeing spermine blocking of K+ ion movement through inward rectifier Kir2.2 channels. | Lee, Sun-Joo; Nichols, Colin G | The Journal of general physiology | 36524992 | 2023 Feb 06 |
Centering on synaptic vesicle release. | Young Jr, Samuel M | Cell calcium | 36527762 | 2023 Jan |
Activation of amygdala prokineticin receptor 2 neurons drives the anorexigenic activity of the neuropeptide PK2. | Yin, Terry C; Mittal, Ayushi; Buscaglia, Paul; Li, Wenxian; Sebag, Julien A | The Journal of biological chemistry | 36539034 | 2023 Jan |
Leveraging biochemical reactions to unravel functional impacts of cancer somatic variants affecting protein interaction interfaces. | Raimondi, Francesco; Burkhart, Joshua G; Betts, Matthew J; Russell, Robert B; Wu, Guanming | F1000Research | 36569594 | 2021 |
SARS-CoV-2 replication in airway epithelia requires motile cilia and microvillar reprogramming. | Wu, Chien-Ting; Lidsky, Peter V; Xiao, Yinghong; Cheng, Ran; Lee, Ivan T; Nakayama, Tsuguhisa; Jiang, Sizun; He, Wei; Demeter, Janos; Knight, Miguel G; Turn, Rachel E; Rojas-Hernandez, Laura S; Ye, Chengjin; Chiem, Kevin; Shon, Judy; Martinez-Sobrido, Luis; Bertozzi, Carolyn R; Nolan, Garry P; Nayak, Jayakar V; Milla, Carlos; Andino, Raul; Jackson, Peter K | Cell | 36580912 | 2023 Jan 05 |
Synthesis and pharmacological validation of a novel radioligand for the orphan GPR88 receptor. | Decker, Ann M; Rahman, Md Toufiqur; Kormos, Chad M; Hesk, David; Darcq, Emmanuel; Kieffer, Brigitte L; Jin, Chunyang | Bioorganic & medicinal chemistry letters | 36587872 | 2023 Jan 15 |
Pharos 2023: an integrated resource for the understudied human proteome. | Kelleher, Keith J; Sheils, Timothy K; Mathias, Stephen L; Yang, Jeremy J; Metzger, Vincent T; Siramshetty, Vishal B; Nguyen, Dac-Trung; Jensen, Lars Juhl; Vidović, Dušica; Schürer, Stephan C; Holmes, Jayme; Sharma, Karlie R; Pillai, Ajay; Bologa, Cristian G; Edwards, Jeremy S; Mathé, Ewy A; Oprea, Tudor I | Nucleic acids research | 36624666 | 2023 Jan 06 |
An atlas of substrate specificities for the human serine/threonine kinome. | Johnson, Jared L; Yaron, Tomer M; Huntsman, Emily M; Kerelsky, Alexander; Song, Junho; Regev, Amit; Lin, Ting-Yu; Liberatore, Katarina; Cizin, Daniel M; Cohen, Benjamin M; Vasan, Neil; Ma, Yilun; Krismer, Konstantin; Robles, Jaylissa Torres; van de Kooij, Bert; van Vlimmeren, Anne E; Andrée-Busch, Nicole; Käufer, Norbert F; Dorovkov, Maxim V; Ryazanov, Alexey G; Takagi, Yuichiro; Kastenhuber, Edward R; Goncalves, Marcus D; Hopkins, Benjamin D; Elemento, Olivier; Taatjes, Dylan J; Maucuer, Alexandre; Yamashita, Akio; Degterev, Alexei; Uduman, Mohamed; Lu, Jingyi; Landry, Sean D; Zhang, Bin; Cossentino, Ian; Linding, Rune; Blenis, John; Hornbeck, Peter V; Turk, Benjamin E; Yaffe, Michael B; Cantley, Lewis C | Nature | 36631611 | 2023 Jan |
SGC-CAMKK2-1: A Chemical Probe for CAMKK2. | Wells, Carrow; Liang, Yi; Pulliam, Thomas L; Lin, Chenchu; Awad, Dominik; Eduful, Benjamin; O'Byrne, Sean; Hossain, Mohammad Anwar; Catta-Preta, Carolina Moura Costa; Ramos, Priscila Zonzini; Gileadi, Opher; Gileadi, Carina; Couñago, Rafael M; Stork, Brittany; Langendorf, Christopher G; Nay, Kevin; Oakhill, Jonathan S; Mukherjee, Debarati; Racioppi, Luigi; Means, Anthony R; York, Brian; McDonnell, Donald P; Scott, John W; Frigo, Daniel E; Drewry, David H | Cells | 36672221 | 2023 Jan 11 |
Multiplexed kinase interactome profiling quantifies cellular network activity and plasticity. | Golkowski, Martin; Lius, Andrea; Sapre, Tanmay; Lau, Ho-Tak; Moreno, Taylor; Maly, Dustin J; Ong, Shao-En | Molecular cell | 36736316 | 2023 Mar 02 |
Accelerating inhibitor discovery for deubiquitinating enzymes. | Chan, Wai Cheung; Liu, Xiaoxi; Magin, Robert S; Girardi, Nicholas M; Ficarro, Scott B; Hu, Wanyi; Tarazona Guzman, Maria I; Starnbach, Cara A; Felix, Alejandra; Adelmant, Guillaume; Varca, Anthony C; Hu, Bin; Bratt, Ariana S; DaSilva, Ethan; Schauer, Nathan J; Jaen Maisonet, Isabella; Dolen, Emma K; Ayala, Anthony X; Marto, Jarrod A; Buhrlage, Sara J | Nature communications | 36754960 | 2023 Feb 08 |
TTBK2 mutations associated with spinocerebellar ataxia type 11 disrupt peroxisome dynamics and ciliary localization of SHH signaling proteins. | Muñoz-Estrada, Jesús; Nguyen, Abraham V; Goetz, Sarah C | bioRxiv : the preprint server for biology | 36778451 | 2023 Feb 01 |
A Potent and Selective CDKL5/GSK3 Chemical Probe is Neuroprotective. | Ong, Han Wee; Liang, Yi; Richardson, William; Lowry, Emily R; Wells, Carrow I; Chen, Xiangrong; Silvestre, Margaux; Dempster, Kelvin; Silvaroli, Josie A; Smith, Jeffery L; Wichterle, Hynek; Pabla, Navjot S; Ultanir, Sila K; Bullock, Alex N; Drewry, David H; Axtman, Alison D | bioRxiv : the preprint server for biology | 36798313 | 2023 Feb 10 |
Kinome inhibition states and multiomics data enable prediction of cell viability in diverse cancer types. | Berginski, Matthew E; Joisa, Chinmaya U; Golitz, Brian T; Gomez, Shawn M | PLoS computational biology | 36809237 | 2023 Feb |
The ion channel CALHM6 controls bacterial infection-induced cellular cross-talk at the immunological synapse. | Danielli, Sara; Ma, Zhongming; Pantazi, Eirini; Kumar, Amrendra; Demarco, Benjamin; Fischer, Fabian A; Paudel, Usha; Weissenrieder, Jillian; Lee, Robert J; Joyce, Sebastian; Foskett, J Kevin; Bezbradica, Jelena S | The EMBO journal | 36861806 | 2023 Apr 03 |
Reversal of Lactate and PD-1-mediated Macrophage Immunosuppression Controls Growth of PTEN/p53-deficient Prostate Cancer. | Chaudagar, Kiranj; Hieromnimon, Hanna M; Khurana, Rimpi; Labadie, Brian; Hirz, Taghreed; Mei, Shenglin; Hasan, Raisa; Shafran, Jordan; Kelley, Anne; Apostolov, Eva; Al-Eryani, Ghamdan; Harvey, Kate; Rameshbabu, Srikrishnan; Loyd, Mayme; Bynoe, Kaela; Drovetsky, Catherine; Solanki, Ani; Markiewicz, Erica; Zamora, Marta; Fan, Xiaobing; Schürer, Stephan; Swarbrick, Alex; Sykes, David B; Patnaik, Akash | Clinical cancer research : an official journal of the American Association for Cancer Research | 36862086 | 2023 May 15 |
lncHUB2: aggregated and inferred knowledge about human and mouse lncRNAs. | Marino, Giacomo B; Wojciechowicz, Megan L; Clarke, Daniel J B; Kuleshov, Maxim V; Xie, Zhuorui; Jeon, Minji; Lachmann, Alexander; Ma'ayan, Avi | Database : the journal of biological databases and curation | 36869839 | 2023 Mar 04 |
The structure, function, and pharmacology of MRGPRs. | Cao, Can; Roth, Bryan L | Trends in pharmacological sciences | 36870785 | 2023 Apr |
PrismEXP: gene annotation prediction from stratified gene-gene co-expression matrices. | Lachmann, Alexander; Rizzo, Kaeli A; Bartal, Alon; Jeon, Minji; Clarke, Daniel J B; Ma'ayan, Avi | PeerJ | 36874981 | 2023 |
Zinc finger protein 24-dependent transcription factor SOX9 up-regulation protects tubular epithelial cells during acute kidney injury. | Kim, Ji Young; Silvaroli, Josie A; Martinez, Gabriela Vasquez; Bisunke, Bijay; Luna Ramirez, Alanys V; Jayne, Laura A; Feng, Mei Ji He Ho; Girotra, Bhavya; Acosta Martinez, Shirely M; Vermillion, Corynne R; Karel, Isaac Z; Ferrell, Nicholas; Weisleder, Noah; Chung, Sangwoon; Christman, John W; Brooks, Craig R; Madhavan, Sethu M; Hoyt, Kari R; Cianciolo, Rachel E; Satoskar, Anjali A; Zepeda-Orozco, Diana; Sullivan, Jennifer C; Davidson, Alan J; Bajwa, Amandeep; Pabla, Navjot Singh | Kidney international | 36921719 | 2023 Jun |
Subunit gating resulting from individual protonation events in Kir2 channels. | Maksaev, Grigory; Bründl-Jirout, Michael; Stary-Weinzinger, Anna; Zangerl-Plessl, Eva-Maria; Lee, Sun-Joo; Nichols, Colin G | Research square | 36993294 | 2023 Mar 16 |
Dissection of a down syndrome-associated trisomy to separate the gene dosage-dependent and -independent effects of an extra chromosome. | Xing, Zhuo; Li, Yichen; Cortes-Gomez, Eduardo; Jiang, Xiaoling; Gao, Shuang; Pao, Annie; Shan, Jidong; Song, Yinghui; Perez, Amanda; Yu, Tao; Highsmith, Max R; Boadu, Frimpong; Conroy, Jeffrey M; Singh, Prashant K; Bakin, Andrei V; Cheng, Jianlin; Duan, Zhijun; Wang, Jianmin; Liu, Song; Tycko, Benjamin; Yu, Y Eugene | Human molecular genetics | 37014740 | 2023 Apr 04 |
SARS-CoV-2 ORF3A interacts with the Clic-like chloride channel-1 (CLCC1) and triggers an unfolded protein response. | Gruner, Hannah N; Zhang, Yaohuan; Shariati, Kaavian; Yiv, Nicholas; Hu, Zicheng; Wang, Yuhao; Hejtmancik, J Fielding; McManus, Michael T; Tharp, Kevin; Ku, Gregory | PeerJ | 37033725 | 2023 |
Development of Cell Permeable NanoBRET Probes for the Measurement of PLK1 Target Engagement in Live Cells. | Yang, Xuan; Smith, Jeffery L; Beck, Michael T; Wilkinson, Jennifer M; Michaud, Ani; Vasta, James D; Robers, Matthew B; Willson, Timothy M | Molecules (Basel, Switzerland) | 37049713 | 2023 Mar 25 |
Using the Reactome Database. | Rothfels, Karen; Milacic, Marija; Matthews, Lisa; Haw, Robin; Sevilla, Cristoffer; Gillespie, Marc; Stephan, Ralf; Gong, Chuqiao; Ragueneau, Eliot; May, Bruce; Shamovsky, Veronica; Wright, Adam; Weiser, Joel; Beavers, Deidre; Conley, Patrick; Tiwari, Krishna; Jassal, Bijay; Griss, Johannes; Senff-Ribeiro, Andrea; Brunson, Timothy; Petryszak, Robert; Hermjakob, Henning; D'Eustachio, Peter; Wu, Guanming; Stein, Lincoln | Current protocols | 37053306 | 2023 Apr |
Modulation of tau tubulin kinases (TTBK1 and TTBK2) impacts ciliogenesis. | Bashore, Frances M; Marquez, Ariana B; Chaikuad, Apirat; Howell, Stefanie; Dunn, Andrea S; Beltran, Alvaro A; Smith, Jeffery L; Drewry, David H; Beltran, Adriana S; Axtman, Alison D | Scientific reports | 37059819 | 2023 Apr 14 |
Discovery of a Potent and Selective Naphthyridine-Based Chemical Probe for Casein Kinase 2. | Davis-Gilbert, Zachary W; Krämer, Andreas; Dunford, James E; Howell, Stefanie; Senbabaoglu, Filiz; Wells, Carrow I; Bashore, Frances M; Havener, Tammy M; Smith, Jeffery L; Hossain, Mohammad A; Oppermann, Udo; Drewry, David H; Axtman, Alison D | ACS medicinal chemistry letters | 37077385 | 2023 Apr 13 |
Computational screen to identify potential targets for immunotherapeutic identification and removal of senescence cells. | Deng, Eden Z; Fleishman, Reid H; Xie, Zhuorui; Marino, Giacomo B; Clarke, Daniel J B; Ma'ayan, Avi | Aging cell | 37082798 | 2023 Jun |
Discovery of a Potent and Selective CDKL5/GSK3 Chemical Probe That Is Neuroprotective. | Ong, Han Wee; Liang, Yi; Richardson, William; Lowry, Emily R; Wells, Carrow I; Chen, Xiangrong; Silvestre, Margaux; Dempster, Kelvin; Silvaroli, Josie A; Smith, Jeffery L; Wichterle, Hynek; Pabla, Navjot S; Ultanir, Sila K; Bullock, Alex N; Drewry, David H; Axtman, Alison D | ACS chemical neuroscience | 37084253 | 2023 May 03 |
Proteomic approaches to study ubiquitinomics. | Sahu, Indrajit; Zhu, He; Buhrlage, Sara J; Marto, Jarrod A | Biochimica et biophysica acta. Gene regulatory mechanisms | 37121501 | 2023 Jun |
Editorial: The next generation of tools and technologies for studying human neurons in a dish. | Durcan, Thomas M; Axtman, Alison D | Frontiers in cellular neuroscience | 37124399 | 2023 |
Illuminating the druggable genome through patent bioactivity data. | Magariños, Maria P; Gaulton, Anna; Félix, Eloy; Kiziloren, Tevfik; Arcila, Ricardo; Oprea, Tudor I; Leach, Andrew R | PeerJ | 37151295 | 2023 |
Single-molecule imaging in the primary cilium. | Weiss, Lucien E; Love, Julia F; Yoon, Joshua; Comerci, Colin J; Milenkovic, Ljiljana; Kanie, Tomoharu; Jackson, Peter K; Stearns, Tim; Gustavsson, Anna-Karin | Methods in cell biology | 37164543 | 2023 |
GeneRanger and TargetRanger: processed gene and protein expression levels across cells and tissues for target discovery. | Marino, Giacomo B; Ngai, Michael; Clarke, Daniel J B; Fleishman, Reid H; Deng, Eden Z; Xie, Zhuorui; Ahmed, Nasheath; Ma'ayan, Avi | Nucleic acids research | 37166966 | 2023 Jul 05 |
Enrichr-KG: bridging enrichment analysis across multiple libraries. | Evangelista, John Erol; Xie, Zhuorui; Marino, Giacomo B; Nguyen, Nhi; Clarke, Daniel J B; Ma'ayan, Avi | Nucleic acids research | 37166973 | 2023 Jul 05 |
Oxidation Driven Reversal of PIP2-dependent Gating in GIRK2 Channels. | Lee, Sun-Joo; Maeda, Shoji; Gao, Jian; Nichols, Colin G | Function (Oxford, England) | 37168492 | 2023 |
VIGET: A web portal for study of vaccine-induced host responses based on Reactome pathways and ImmPort data. | Brunson, Timothy; Sanati, Nasim; Huffman, Anthony; Masci, Anna Maria; Zheng, Jie; Cooke, Michael F; Conley, Patrick; He, Yongqun; Wu, Guanming | Frontiers in immunology | 37180100 | 2023 |
AI-Assisted chemical probe discovery for the understudied Calcium-Calmodulin Dependent Kinase, PNCK. | Essegian, Derek J; Chavez, Valery; Khurshid, Rabia; Merchan, Jaime R; Schürer, Stephan C | PLoS computational biology | 37235579 | 2023 May |
Development and evaluation of helper dependent adenoviral vectors for inner ear gene delivery. | Tarabichi, Osama; Correa, Tatiana; Kul, Emre; Phillips, Stacia; Darkazanly, Bahaa; Young Jr, Samuel M; Hansen, Marlan R | Hearing research | 37276687 | 2023 Aug |
Optimization of 3-Cyano-7-cyclopropylamino-pyrazolo[1,5-a]pyrimidines Toward the Development of an In Vivo Chemical Probe for CSNK2A. | Yang, Xuan; Ong, Han Wee; Dickmander, Rebekah J; Smith, Jeffery L; Brown, Jason W; Tao, William; Chang, Edcon; Moorman, Nathaniel J; Axtman, Alison D; Willson, Timothy M | bioRxiv : the preprint server for biology | 37292607 | 2023 Jul 23 |
Illuminating Dark Proteins using Reactome Pathways. | Brunson, Timothy; Sanati, Nasim; Matthews, Lisa; Haw, Robin; Beavers, Deidre; Shorser, Solomon; Sevilla, Cristoffer; Viteri, Guilherme; Conley, Patrick; Rothfels, Karen; Hermjakob, Henning; Stein, Lincoln; D'Eustachio, Peter; Wu, Guanming | bioRxiv : the preprint server for biology | 37333417 | 2023 Jun 05 |
KG-Hub-building and exchanging biological knowledge graphs. | Caufield, J Harry; Putman, Tim; Schaper, Kevin; Unni, Deepak R; Hegde, Harshad; Callahan, Tiffany J; Cappelletti, Luca; Moxon, Sierra A T; Ravanmehr, Vida; Carbon, Seth; Chan, Lauren E; Cortes, Katherina; Shefchek, Kent A; Elsarboukh, Glass; Balhoff, Jim; Fontana, Tommaso; Matentzoglu, Nicolas; Bruskiewich, Richard M; Thessen, Anne E; Harris, Nomi L; Munoz-Torres, Monica C; Haendel, Melissa A; Robinson, Peter N; Joachimiak, Marcin P; Mungall, Christopher J; Reese, Justin T | Bioinformatics (Oxford, England) | 37389415 | 2023 Jul 01 |
Combined CDK4/6 and ERK1/2 Inhibition Enhances Antitumor Activity in NF1-Associated Plexiform Neurofibroma. | Flint, Alyssa C; Mitchell, Dana K; Angus, Steven P; Smith, Abbi E; Bessler, Waylan; Jiang, Li; Mang, Henry; Li, Xiaohong; Lu, Qingbo; Rodriguez, Brooke; Sandusky, George E; Masters, Andi R; Zhang, Chi; Dang, Pengtao; Koenig, Jenna; Johnson, Gary L; Shen, Weihua; Liu, Jiangang; Aggarwal, Amit; Donoho, Gregory P; Willard, Melinda D; Bhagwat, Shripad V; Clapp, D Wade; Rhodes, Steven D | Clinical cancer research : an official journal of the American Association for Cancer Research | 37406085 | 2023 Sep 01 |
Illuminate the Functions of Dark Proteins Using the Reactome-IDG Web Portal. | Beavers, Deidre; Brunson, Timothy; Sanati, Nasim; Matthews, Lisa; Haw, Robin; Shorser, Solomon; Sevilla, Cristoffer; Viteri, Guilherme; Conley, Patrick; Rothfels, Karen; Hermjakob, Henning; Stein, Lincoln; D'Eustachio, Peter; Wu, Guanming | Current protocols | 37467006 | 2023 Jul |
Discovery and characterization of a specific inhibitor of serine-threonine kinase cyclin-dependent kinase-like 5 (CDKL5) demonstrates role in hippocampal CA1 physiology. | Castano, Anna; Silvestre, Margaux; Wells, Carrow I; Sanderson, Jennifer L; Ferrer, Carla A; Ong, Han Wee; Lang, Yi; Richardson, William; Silvaroli, Josie A; Bashore, Frances M; Smith, Jeffery L; Genereux, Isabelle M; Dempster, Kelvin; Drewry, David H; Pabla, Navlot S; Bullock, Alex N; Benke, Tim A; Ultanir, Sila K; Axtman, Alison D | eLife | 37490324 | 2023 Jul 25 |
Subunit gating resulting from individual protonation events in Kir2 channels. | Maksaev, Grigory; Bründl-Jirout, Michael; Stary-Weinzinger, Anna; Zangerl-Plessl, Eva-Maria; Lee, Sun-Joo; Nichols, Colin G | Nature communications | 37507406 | 2023 Jul 28 |
Alternative Splicing of RIOK3 Engages the Noncanonical NFκB Pathway during Rift Valley Fever Virus Infection. | Bisom, Thomas Charles; Smelser, Hope; Lanchy, Jean-Marc; Lodmell, J Stephen | Viruses | 37515252 | 2023 Jul 18 |
A novel homeostatic mechanism tunes PI(4,5)P2-dependent signaling at the plasma membrane. | Wills, Rachel C; Doyle, Colleen P; Zewe, James P; Pacheco, Jonathan; Hansen, Scott D; Hammond, Gerald R V | Journal of cell science | 37534432 | 2023 Aug 15 |
Temporal scaling of dopamine neuron firing and dopamine release by distinct ion channels shape behavior. | Juarez, Barbara; Kong, Mi-Seon; Jo, Yong S; Elum, Jordan E; Yee, Joshua X; Ng-Evans, Scott; Cline, Marcella; Hunker, Avery C; Quinlan, Meagan A; Baird, Madison A; Elerding, Abigail J; Johnson, Mia; Ban, Derek; Mendez, Adriana; Goodwin, Nastacia L; Soden, Marta E; Zweifel, Larry S | Science advances | 37566654 | 2023 Aug 11 |
Gα Protein Signaling Bias at Serotonin 1A Receptor. | Alabdali, Rana; Franchini, Luca; Orlandi, Cesare | Molecular pharmacology | 37567783 | 2023 Nov |
A peroxiredoxin-P38 MAPK scaffold increases MAPK activity by MAP3K-independent mechanisms. | Cao, Min; Day, Alison M; Galler, Martin; Latimer, Heather R; Byrne, Dominic P; Foy, Thomas W; Dwyer, Emilia; Bennett, Elise; Palmer, Jeremy; Morgan, Brian A; Eyers, Patrick A; Veal, Elizabeth A | Molecular cell | 37572670 | 2023 Sep 07 |
Combined kinome inhibition states are predictive of cancer cell line sensitivity to kinase inhibitor combination therapies. | Joisa, Chinmaya U; Chen, Kevin A; Beville, Samantha; Stuhlmiller, Timothy; Berginski, Matthew E; Okumu, Denis; Golitz, Brian T; Johnson, Gary L; Gomez, Shawn M | bioRxiv : the preprint server for biology | 37577663 | 2023 Aug 03 |
A Hybrid Structure-Based Machine Learning Approach for Predicting Kinase Inhibition by Small Molecules. | Liu, Changchang; Kutchukian, Peter; Nguyen, Nhan D; AlQuraishi, Mohammed; Sorger, Peter K | Journal of chemical information and modeling | 37595065 | 2023 Sep 11 |
A proteogenomics data-driven knowledge base of human cancer. | Liao, Yuxing; Savage, Sara R; Dou, Yongchao; Shi, Zhiao; Yi, Xinpei; Jiang, Wen; Lei, Jonathan T; Zhang, Bing | Cell systems | 37619559 | 2023 Sep 20 |
Investigation of the Host Kinome Response to Coronavirus Infection Reveals PI3K/mTOR Inhibitors as Betacoronavirus Antivirals. | Fritch, Ethan J; Mordant, Angie L; Gilbert, Thomas S K; Wells, Carrow I; Yang, Xuan; Barker, Natalie K; Madden, Emily A; Dinnon 3rd, Kenneth H; Hou, Yixuan J; Tse, Longping V; Castillo, Izabella N; Sims, Amy C; Moorman, Nathaniel J; Lakshmanane, Premkumar; Willson, Timothy M; Herring, Laura E; Graves, Lee M; Baric, Ralph S | Journal of proteome research | 37634194 | 2023 Oct 06 |
Stereotactic Delivery of Helper-dependent Adenoviral Viral Vectors at Distinct Developmental Time Points to Perform Age-dependent Molecular Manipulations of the Mouse Calyx of Held. | Keine, Christian; Al-Yaari, Mohammed; Radulovic, Tamara; Young Jr, Samuel M | Bio-protocol | 37638292 | 2023 Aug 20 |
How many kinases are druggable? A review of our current understanding. | Anderson, Brian; Rosston, Peter; Ong, Han Wee; Hossain, Mohammad Anwar; Davis-Gilbert, Zachary W; Drewry, David H | The Biochemical journal | 37642371 | 2023 Aug 30 |
Molecular Complexity: You Know It When You See It. | Oprea, Tudor I; Bologa, Cristian | Journal of medicinal chemistry | 37675804 | 2023 Sep 28 |
Sex and Racial Disparities in Peripheral Artery Disease. | Divakaran, Sanjay; Krawisz, Anna K; Secemsky, Eric A; Kant, Shashi | Arteriosclerosis, thrombosis, and vascular biology | 37706319 | 2023 Nov |
Exploring DrugCentral: from molecular structures to clinical effects. | Halip, Liliana; Avram, Sorin; Curpan, Ramona; Borota, Ana; Bora, Alina; Bologa, Cristian; Oprea, Tudor I | Journal of computer-aided molecular design | 37707619 | 2023 Dec |
Targeted Proteomic Quantitation of NRF2 Signaling and Predictive Biomarkers in HNSCC. | Wamsley, Nathan T; Wilkerson, Emily M; Guan, Li; LaPak, Kyle M; Schrank, Travis P; Holmes, Brittany J; Sprung, Robert W; Gilmore, Petra Erdmann; Gerndt, Sophie P; Jackson, Ryan S; Paniello, Randal C; Pipkorn, Patrik; Puram, Sidharth V; Rich, Jason T; Townsend, Reid R; Zevallos, José P; Zolkind, Paul; Le, Quynh-Thu; Goldfarb, Dennis; Major, Michael B | Molecular & cellular proteomics : MCP | 37716475 | 2023 Nov |
To block or not to block: Targeting SK channels in diseased hearts. | Terentyev, Dmitry; Belevych, Andriy E; Choi, Bum-Rak; Hamilton, Shanna | Journal of molecular and cellular cardiology | 37742783 | 2023 Oct |
KSFinder-a knowledge graph model for link prediction of novel phosphorylated substrates of kinases. | Anandakrishnan, Manju; Ross, Karen E; Chen, Chuming; Shanker, Vijay; Cowart, Julie; Wu, Cathy H | PeerJ | 37818330 | 2023 |
Biophysical characterization of chloride intracellular channel 6 (CLIC6). | Loyo-Celis, Veronica; Patel, Devendra; Sanghvi, Shridhar; Kaur, Kamalpreet; Ponnalagu, Devasena; Zheng, Yang; Bindra, Sahej; Bhachu, Harmeet Rireika; Deschenes, Isabelle; Gururaja Rao, Shubha; Singh, Harpreet | The Journal of biological chemistry | 37838179 | 2023 Nov |
Dynamic regulation of pancreatic β cell function and gene expression by the SND1 coregulator in vitro. | Kanojia, Sukrati; Davidson, Rebecca K; Conley, Jason M; Xu, Jerry; Osmulski, Meredith; Sims, Emily K; Ren, Hongxia; Spaeth, Jason M | Islets | 37838950 | 2023 Dec 31 |
Confocal Imaging and 3D Reconstruction to Determine How Genetic Perturbations Impact Presynaptic Morphology at the Mouse Calyx of Held. | Keine, Christian; Radulovic, Tamara; Al-Yaari, Mohammed; Young Jr, Samuel M | Bio-protocol | 37849785 | 2023 Sep 05 |
Predicting protein and pathway associations for understudied dark kinases using pattern-constrained knowledge graph embedding. | Salcedo, Mariah V; Gravel, Nathan; Keshavarzi, Abbas; Huang, Liang-Chin; Kochut, Krzysztof J; Kannan, Natarajan | PeerJ | 37868056 | 2023 |
Drosophila tweety facilitates autophagy to regulate mitochondrial homeostasis and bioenergetics in Glia. | Leung, Ho Hang; Mansour, Christina; Rousseau, Morgan; Nakhla, Anwar; Kiselyov, Kirill; Venkatachalam, Kartik; Wong, Ching-On | Glia | 37870193 | 2024 Feb |
Measuring conformational equilibria in allosteric proteins with time-resolved tmFRET. | Zagotta, William N; Evans, Eric G B; Eggan, Pierce; Tessmer, Maxx H; Shaffer, Kyle D; Petersson, E James; Stoll, Stefan; Gordon, Sharona E | bioRxiv : the preprint server for biology | 37873384 | 2023 Oct 11 |
Long-distance tmFRET using bipyridyl- and phenanthroline-based ligands. | Gordon, Sharona E; Evans, Eric G B; Otto, Shauna C; Tessmer, Maxx H; Shaffer, Kyle D; Gordon, Moshe T; Petersson, E James; Stoll, Stefan; Zagotta, William N | bioRxiv : the preprint server for biology | 37873407 | 2023 Oct 12 |
Optimization of 3-Cyano-7-cyclopropylamino-pyrazolo[1,5-a]pyrimidines toward the Development of an In Vivo Chemical Probe for CSNK2A. | Yang, Xuan; Ong, Han Wee; Dickmander, Rebekah J; Smith, Jeffery L; Brown, Jason W; Tao, William; Chang, Edcon; Moorman, Nathaniel J; Axtman, Alison D; Willson, Timothy M | ACS omega | 37901516 | 2023 Oct 24 |
Inflammatory stress-mediated chromatin changes underlie dysfunction in endothelial cells. | Liu, Haibo; Caliz, Amada D; Learnard, Heather; Koupenova, Milka; Keaney, John F; Kant, Shashi; Zhu, Lihua Julie; Vertii, Anastassiia | bioRxiv : the preprint server for biology | 37905100 | 2023 Oct 16 |
Development of a covalent cereblon-based PROTAC employing a fluorosulfate warhead. | Nowak, Radosław P; Ragosta, Leah; Huerta, Fidel; Liu, Hu; Ficarro, Scott B; Cruite, Justin T; Metivier, Rebecca J; Donovan, Katherine A; Marto, Jarrod A; Fischer, Eric S; Zerfas, Breanna L; Jones, Lyn H | RSC chemical biology | 37920397 | 2023 Nov 01 |
The ChEMBL Database in 2023: a drug discovery platform spanning multiple bioactivity data types and time periods. | Zdrazil, Barbara; Felix, Eloy; Hunter, Fiona; Manners, Emma J; Blackshaw, James; Corbett, Sybilla; de Veij, Marleen; Ioannidis, Harris; Lopez, David Mendez; Mosquera, Juan F; Magarinos, Maria Paula; Bosc, Nicolas; Arcila, Ricardo; Kizilören, Tevfik; Gaulton, Anna; Bento, A Patrícia; Adasme, Melissa F; Monecke, Peter; Landrum, Gregory A; Leach, Andrew R | Nucleic acids research | 37933841 | 2024 Jan 05 |
The Reactome Pathway Knowledgebase 2024. | Milacic, Marija; Beavers, Deidre; Conley, Patrick; Gong, Chuqiao; Gillespie, Marc; Griss, Johannes; Haw, Robin; Jassal, Bijay; Matthews, Lisa; May, Bruce; Petryszak, Robert; Ragueneau, Eliot; Rothfels, Karen; Sevilla, Cristoffer; Shamovsky, Veronica; Stephan, Ralf; Tiwari, Krishna; Varusai, Thawfeek; Weiser, Joel; Wright, Adam; Wu, Guanming; Stein, Lincoln; Hermjakob, Henning; D'Eustachio, Peter | Nucleic acids research | 37941124 | 2024 Jan 05 |
Dissecting the biophysics and biology of intrinsically disordered proteins. | Banerjee, Priya R; Holehouse, Alex S; Kriwacki, Richard; Robustelli, Paul; Jiang, Hao; Sobolevsky, Alexander I; Hurley, Jennifer M; Mendell, Joshua T | Trends in biochemical sciences | 37949765 | 2023 Nov 08 |
Dex-Benchmark: datasets and code to evaluate algorithms for transcriptomics data analysis. | Xie, Zhuorui; Chen, Clara; Ma'ayan, Avi | PeerJ | 37953774 | 2023 |
Covalent Stapling of the Cereblon Sensor Loop Histidine Using Sulfur-Heterocycle Exchange. | Cruite, Justin T; Nowak, Radosław P; Donovan, Katherine A; Ficarro, Scott B; Huang, Huang; Liu, Hu; Liu, Yingpeng; Marto, Jarrod A; Metivier, Rebecca J; Fischer, Eric S; Jones, Lyn H | ACS medicinal chemistry letters | 37974938 | 2023 Nov 09 |
A small molecule exerts selective antiviral activity by targeting the human cytomegalovirus nuclear egress complex. | Chen, Han; Lye, Ming F; Gorgulla, Christoph; Ficarro, Scott B; Cuny, Gregory D; Scott, David A; Wu, Fan; Rothlauf, Paul W; Wang, Xiaoou; Fernandez, Rosio; Pesola, Jean M; Draga, Sorin; Marto, Jarrod A; Hogle, James M; Arthanari, Haribabu; Coen, Donald M | PLoS pathogens | 37976321 | 2023 Nov |
ChatGPT usage in the Reactome curation process. | Tiwari, Krishna; Matthews, Lisa; May, Bruce; Shamovsky, Veronica; Orlic-Milacic, Marija; Rothfels, Karen; Ragueneau, Eliot; Gong, Chuqiao; Stephan, Ralf; Li, Nancy; Wu, Guanming; Stein, Lincoln; D'Eustachio, Peter; Hermjakob, Henning | bioRxiv : the preprint server for biology | 37986970 | 2023 Nov 08 |
SGC-CLK-1: A chemical probe for the Cdc2-like kinases CLK1, CLK2, and CLK4. | Tiek, Deanna; Wells, Carrow I; Schröder, Martin; Song, Xiao; Alamillo-Ferrer, Carla; Goenka, Anshika; Iglesia, Rebeca; Lu, Minghui; Hu, Bo; Kwarcinski, Frank; Sintha, Parvathi; de Silva, Chandi; Hossain, Mohammad Anwar; Picado, Alfredo; Zuercher, William; Zutshi, Reena; Knapp, Stefan; Riggins, Rebecca B; Cheng, Shi-Yuan; Drewry, David H | Current research in chemical biology | 38009092 | 2023 |
Identification of Cellular Interactions in the Tumor Immune Microenvironment Underlying CD8 T Cell Exhaustion. | Klocke, Christopher; Moran, Amy; Adey, Andrew; McWeeney, Shannon; Wu, Guanming | bioRxiv : the preprint server for biology | 38014233 | 2023 Nov 13 |
Integrated single-dose kinome profiling data is predictive of cancer cell line sensitivity to kinase inhibitors. | Joisa, Chinmaya U; Chen, Kevin A; Berginski, Matthew E; Golitz, Brian T; Jenner, Madison R; Herrera Loeza, Gabriela; Yeh, Jen Jen; Gomez, Shawn M | PeerJ | 38025707 | 2023 |
Genome-wide prediction of pathogenic gain- and loss-of-function variants from ensemble learning of a diverse feature set. | Stein, David; Kars, Meltem Ece; Wu, Yiming; Bayrak, Çiğdem Sevim; Stenson, Peter D; Cooper, David N; Schlessinger, Avner; Itan, Yuval | Genome medicine | 38037155 | 2023 Nov 30 |
pH-sensing G protein-coupled orphan receptor GPR68 is expressed in human cartilage and correlates with degradation of extracellular matrix during OA progression. | Khan, Nazir M; Diaz-Hernandez, Martha E; Martin, William N; Patel, Bhakti; Chihab, Samir; Drissi, Hicham | PeerJ | 38077417 | 2023 |
Dark kinase annotation, mining, and visualization using the Protein Kinase Ontology. | Soleymani, Saber; Gravel, Nathan; Huang, Liang-Chin; Yeung, Wayland; Bozorgi, Elika; Bendzunas, Nathaniel G; Kochut, Krzysztof J; Kannan, Natarajan | PeerJ | 38077442 | 2023 |
Detection of neoplastic-immune hybrid cells with metastatic properties in uveal melanoma. | Anderson, Ashley N; Conley, Patrick; Klocke, Christopher D; Sengupta, Sidharth K; Pang, Amara; Farley, Hannah C; Gillingham, Abigail R; Dawson, Aubrey D; Fan, Yichen; Jones, Jocelyn A; Gibbs, Summer L; Skalet, Alison H; Wu, Guanming; Wong, Melissa H | Research square | 38106024 | 2023 Dec 06 |
Identification of 4-(6-((2-methoxyphenyl)amino)pyrazin-2-yl)benzoic acids as CSNK2A inhibitors with antiviral activity and improved selectivity over PIM3. | Galal, Kareem A; Krämer, Andreas; Strickland, Benjamin G; Smith, Jeffery L; Dickmander, Rebekah J; Moorman, Nathaniel J; Willson, Timothy M | bioRxiv : the preprint server for biology | 38106118 | 2023 Dec 05 |
CaV 2.1 α1 subunit motifs that control presynaptic CaV 2.1 subtype abundance are distinct from CaV 2.1 preference. | Li, Jianing; Veeraraghavan, Priyadharishini; Young Jr, Samuel M | The Journal of physiology | 38155373 | 2023 Dec 28 |
GRAPE for fast and scalable graph processing and random-walk-based embedding. | Cappelletti, Luca; Fontana, Tommaso; Casiraghi, Elena; Ravanmehr, Vida; Callahan, Tiffany J; Cano, Carlos; Joachimiak, Marcin P; Mungall, Christopher J; Robinson, Peter N; Reese, Justin; Valentini, Giorgio | Nature computational science | 38177435 | 2023 Jun |
Illuminating function of the understudied druggable kinome. | Gomez, Shawn M; Axtman, Alison D; Willson, Timothy M; Major, Michael B; Townsend, Reid R; Sorger, Peter K; Johnson, Gary L | Drug discovery today | 38218213 | 2024 Jan 11 |
Overview of the Knowledge Management Center for Illuminating the Druggable Genome. | Oprea, Tudor I; Bologa, Cristian; Holmes, Jayme; Mathias, Stephen; Metzger, Vincent T; Waller, Anna; Yang, Jeremy J; Leach, Andrew R; Jensen, Lars Juhl; Kelleher, Keith J; Sheils, Timothy K; Mathé, Ewy; Avram, Sorin; Edwards, Jeremy S | Drug discovery today | 38218214 | 2024 Mar |
Alternative splicing of latrophilin-3 controls synapse formation. | Wang, Shuai; DeLeon, Chelsea; Sun, Wenfei; Quake, Stephen R; Roth, Bryan L; Südhof, Thomas C | Nature | 38233523 | 2024 Feb |
Gpr149 is involved in energy homeostasis in the male mouse. | Wyler, Steven; Surbhi; Cao, Newton; Merchant, Warda; Bookout, Angie; Gautron, Laurent | PeerJ | 38282864 | 2024 |
Electrically silent KvS subunits associate with native Kv2 channels in brain and impact diverse properties of channel function. | Ferns, Michael; van der List, Deborah; Vierra, Nicholas C; Lacey, Taylor; Murray, Karl; Kirmiz, Michael; Stewart, Robert G; Sack, Jon T; Trimmer, James S | bioRxiv : the preprint server for biology | 38328147 | 2024 Jan 25 |
Pan-cancer proteogenomics characterization of tumor immunity. | Petralia, Francesca; Ma, Weiping; Yaron, Tomer M; Caruso, Francesca Pia; Tignor, Nicole; Wang, Joshua M; Charytonowicz, Daniel; Johnson, Jared L; Huntsman, Emily M; Marino, Giacomo B; Calinawan, Anna; Evangelista, John Erol; Selvan, Myvizhi Esai; Chowdhury, Shrabanti; Rykunov, Dmitry; Krek, Azra; Song, Xiaoyu; Turhan, Berk; Christianson, Karen E; Lewis, David A; Deng, Eden Z; Clarke, Daniel J B; Whiteaker, Jeffrey R; Kennedy, Jacob J; Zhao, Lei; Segura, Rossana Lazcano; Batra, Harsh; Raso, Maria Gabriela; Parra, Edwin Roger; Soundararajan, Rama; Tang, Ximing; Li, Yize; Yi, Xinpei; Satpathy, Shankha; Wang, Ying; Wiznerowicz, Maciej; González-Robles, Tania J; Iavarone, Antonio; Gosline, Sara J C; Reva, Boris; Robles, Ana I; Nesvizhskii, Alexey I; Mani, D R; Gillette, Michael A; Klein, Robert J; Cieslik, Marcin; Zhang, Bing; Paulovich, Amanda G; Sebra, Robert; Gümüş, Zeynep H; Hostetter, Galen; Fenyö, David; Omenn, Gilbert S; Cantley, Lewis C; Ma'ayan, Avi; Lazar, Alexander J; Ceccarelli, Michele; Wang, Pei; Clinical Proteomic Tumor Analysis Consortium | Cell | 38359819 | 2024 Feb 29 |
Bioinformatic analysis of human ZPR1 gene pathogenic exome mutations. | Abok, Jeremiah I; Garver, William S; Edwards, Jeremy S | bioRxiv : the preprint server for biology | 38464185 | 2024 Mar 01 |
Kinome-Wide Virtual Screening by Multi-Task Deep Learning. | Hu, Jiaming; Allen, Bryce K; Stathias, Vasileios; Ayad, Nagi G; Schürer, Stephan C | International journal of molecular sciences | 38473785 | 2024 Feb 22 |
Synthesis of 5-Benzylamino and 5-Alkylamino-Substituted Pyrimido[4,5-c]quinoline Derivatives as CSNK2A Inhibitors with Antiviral Activity. | Asressu, Kesatebrhan Haile; Smith, Jeffery L; Dickmander, Rebekah J; Moorman, Nathaniel J; Wellnitz, James; Popov, Konstantin I; Axtman, Alison D; Willson, Timothy M | Pharmaceuticals (Basel, Switzerland) | 38543092 | 2024 Feb 27 |
The BKCa (slo) channel regulates the cardiac function of Drosophila. | Gururaja Rao, Shubha; Lam, Alexander; Seeley, Sarah; Park, Jeniffer; Aruva, Shriya; Singh, Harpreet | Physiological reports | 38561252 | 2024 Apr |
Utilizing Low-Dimensional Molecular Embeddings for Rapid Chemical Similarity Search. | Kirchoff, Kathryn E; Wellnitz, James; Hochuli, Joshua E; Maxfield, Travis; Popov, Konstantin I; Gomez, Shawn; Tropsha, Alexander | Advances in information retrieval : ... European Conference on IR Research, ECIR ... proceedings. European Conference on IR Research | 38585224 | 2024 Mar |