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Funded Research

The Human Microbiome Project has transitioned from Common Fund support. For more information please visit https://commonfund.nih.gov/hmp.

Please note that since the Human Microbiome Project is no longer being supported by the Common Fund, the program website is being maintained as an archive and will not be updated on a regular basis.

Evaluation of Multi-‘omic Data in Understanding the Human Microbiome’s Role in Health and Disease (U54)
RFA-RM-12-021
PI NameInstitution NameTitle
BUCK, GREGORY ALLEN (contact)
JEFFERSON, KIMBERLY KAY STRAUSS, JEROME F
VIRGINIA COMMONWEALTH UNIVERSITYA Multi-omic Analysis of the Vaginal Microbiome during Pregnancy
SNYDER, MICHAEL P (contact)
WEINSTOCK, GEORGE M
STANFORD UNIVERSITYLongitudinal Multiomics Microbial Profiling in Healthy and Disease Individuals
XAVIER, RAMNIK J (contact)
HUTTENHOWER, CURTIS 
BROAD INSTITUTE, INC.Characterizing the gut microbial ecosystem for diagnosis and therapy in IBD

 

Human Microbiome Demonstration Projects (UH2/UH3) RFA-RM 08-012
PI NameInstitution NameTitle
BLASER, MARTIN JNEW YORK UNIVERSITY SCHOOL OF MEDICINEEvaluation of the cutaneous microbiome in psoriasis
BUCK, GREGORY A. (contact)
CORNELISSEN, CYNTHIA NAU
EAVES, LINDON J.
STRAUSS, JEROME FRANK
VIRGINIA COMMONWEALTH UNIVERSITYThe Vaginal Microbiome: Disease, Genetics and the Environment
FORTENBERRY, J. DENNISINDIANA UNIV-PURDUE UNIV AT INDIANAPOLISUrethral Microbiome of Adolescent Males
FRASER-LIGGETT, CLAIRE M. (contact)
SHULDINER, ALAN R.
UNIVERSITY OF MARYLAND BALTIMOREThe Thrifty Microbiome: The Role of the Gut Microbiota in Obesity in the Amish
FRASER-LIGGETT, CLAIRE M.UNIVERSITY OF MARYLAND BALTIMOREMetagenomic Analysis of the Structure and Function of the Human Gut Microbiota in Crohn's Disease
LI, ELLENWASHINGTON UNIVERSITYEffect of Crohn's Disease Risk Alleles on Enteric Microbiota
LI, HUIYINGUNIVERSITY OF CALIFORNIA LOS ANGELESMetagenomic study of the human skin microbiome associated with acne
PEI, ZHIHENG (contact)
NELSON KAREN E
NEW YORK UNIVERSITY SCHOOL OF MEDICINEForegut microbiome in development of esophageal adenocarcinoma
RAVEL, JACQUESUNIVERSITY OF MARYLAND BALTIMOREThe Microbial Ecology of Bacterial Vaginosis: A Fine Scale Resolution Metagenomic
SEGRE, JULIEU.S. NATIONAL HUMAN GENOME RESEARCH INSTAtopic Dermatitis and Immunodeficiency
STORCH, GREGORY A.WASHINGTON UNIVERSITYThe human virome in children and its relationship to febrile illness
TARR, PHILLIP I.WASHINGTON UNIVERSITYThe Neonatal Microbiome and Necrotizing Enterocolitis
VERSALOVIC, JAMESBAYLOR COLLEGE OF MEDICINEPediatric Abdominal Pain and Inflammation
WU, GARY D (contact)
BUSHMAN, FREDERIC D
LEWIS, JAMES D
UNIVERSITY OF PENNSYLVANIADiet, Genetic Factors, and Gut Microbiome in Crohns Disease
YOUNG, VINCENT B (contact)
CHANG, EUGENE B
MEYER, FOLKER
SCHMIDT, THOMAS M
SOGIN, MITCHELL L
TIEDJE, JAMES M
UNIVERSITY OF MICHIGAN AT ANN ARBORGut Microbiota in Ulcerative Colitis

 

Construction of a Reference Sequence Data Set for the Human Microbiome Project (U54) RFA-RM-08-001
PI NameInstitution NameTitle
BIRREN, BRUCE WMASSACHUSETTS INSTITUTE OF TECHNOLOGYDefining the Human Microbiome
GIBBS, RICHARD (contact)
HIGHLANDER, SARAH KATHERINE
PETROSINO, JOSEPH FRANK
BAYLOR COLLEGE OF MEDICINEA Microbial Genome Reference Platform for Metagenomics
NELSON, KAREN EJ. CRAIG VENTER INSTITUTE, INC.Construction of A Reference Sequence Data Set For The Human Microbiome ProjectARRA Logo
WEINSTOCK, GEORGEWASHINGTON UNIVERSITYSequencing the Human Microbiome

 

Studies of the Ethical, Legal, and Social Implications (ELSI) of Human Microbiome Research (R01) RFA-RM-08-030
PI NameInstitution NameTitle
CHO, MILDRED K. (contact)
SANKAR, PAMELA L.
STANFORD UNIVERSITYToward a Framework for Policy Analysis of Microbiome Research
SPICER, PAUL GUNIVERSITY OF OKLAHOMA NORMANIndigenous Communities and Human Microbiome Research
HOFFMANN, DIANE E.UNIVERSITY OF MARYLAND BALTIMOREFederal Regulation of Probiotics: An Analysis of Existing Regulatory Framework
MCGUIRE, AMY LYNNBAYLOR COLLEGE OF MEDICINEEthical, Legal, and Social Dimensions of Human Microbiome Research
RHODES, ROSAMONDMOUNT SINAI SCHOOL OF MEDICINE OF NYUHuman Microbiome Research and the Social Fabric

 

Studies of the Ethical, Legal, and Social Implications (ELSI) of Human Microbiome Research (R01) RFA-RM-08-006
PI NameInstitution NameTitle
FARRELL, RUTH
SHARP, RICHARD R (contact)
CLEVELAND CLINIC LERNER COL/MED-CWRUPatient perceptions of bioengineered probiotics and clinical metagenomics

 

A Data Analysis & Coordination Center (DACC) for the Human Microbiome Project (U01) RFA-RM-08-007
PI NameInstitution NameTitle
WHITE, OWEN RUNIVERSITY OF MARYLAND BALTIMOREA Quality Assurance, Coordination and Analysis Center for HMP

 

Development of New tools for Computational Analysis of Human Microbiome Project Data (R01) RFA-RM-09-020
PI NameInstitution NameTitle
FREDRICKS, DAVID NEALFRED HUTCHINSON CANCER RESEARCH CENTERNovel Computational Tools for Studying the Human Microbiome
HUTTENHOWER, CURTISHARVARD UNIVERSITY (SCH OF PUBLIC HLTH)Functional Activity and Inter-Organismal Interactions in the Human Microbiome
LI, WEIZHONGUNIVERSITY OF CALIFORNIA SAN DIEGONovel Methods for Effective Analysis, Assembly and Comparison of HMP Sequences
SCHLOSS, PATRICK DAVIDUNIVERSITY OF MICHIGAN AT ANN ARBORIdentifying Population-Level Variation in Cross-Sectional and Longitudinal HMP Studies

 

Development of New Tools for Computational Analysis of Human Microbiome Project Data (R21) RFA-RM-09-021
PI NameInstitution NameTitle
PACE, NORMAN RUNIVERSITY OF COLORADO AT BOULDERHigh Performance Validation and Classification of Metagenomic Ribosomal-RNA Sequences
STORMO, GARY DWASHINGTON UNIVERSITY AT ST. LOUISExploiting Microbiome Seqeunces for Improved Models of Protein-DNA Interactions

 

Development of New Technologies Needed for Studying the Human Microbiome (R01) RFA-RM-09-008
PI NameInstitution NameTitle
FREDRICKS, DAVID NEALFREDRICKS, DAVID NEALNovel cultivation methods for the domestication of vaginal bacteria
ISMAGILOV, RUSTEM FUNIVERSITY OF CHICAGOConfining single cells to enhance and target cultivation of human microbiome
LEWIS, KIMNORTHEASTERN UNIVERSITYCulturing uncultivatable gut microorganisms

 

Development of New Technologies Needed for Studying the Human Microbiome (R21) RFA-RM-09-009
PI NameInstitution NameTitle
ALLEN-VERCOE, EMMAUNIVERSITY OF GUELPHFACS-MABE: a method to sort and enrich the as-yet uncultured bacterial species from the human distal gut
DAVIS, RONALD WAYNESTANFORD UNIVERSITYIsolation, selection, and polony amplification of single cells in a gel matrix
LIN, XIAOXIAUNIVERSITY OF MICHIGAN AT ANN ARBORMetagenomic dissection of the gut microbiota
NELSON, JOHNGENERAL ELECTRIC GLOBAL RESEARCH CTRTools for human microbiome studies

 

Development of New Technologies Needed for Studying the Human Microbiome (R01) RFA-RM 08-026
PI NameInstitution NameTitle
BRADBURY, ANDREW (contact)
HAN, CLIFF
LOS ALAMOS NAT SECTY-LOS ALAMOS NAT LABSpecies-by-Species Dissection of Microbiomes using Phage Display and Flow Sorting
PODAR, MIRCEAUT-BATTELLE, LLC-OAK RIDGE NATIONAL LABTargeted genomic characterization of uncultured bacteria from the human microbiot
SINGH, ANUP KSANDIA CORP-SANDIA NATIONAL LABORATORIESFISH 'N' Chips: A Microfluidic Processor for Isolating and Analyzing Microbes

 

Development of New Technologies Needed for Studying the Human Microbiome (R21) RFA-RM 08-027
PI NameInstitution NameTitle
DOKTYCZ, MITCHELUT-BATTELLE, LLC-OAK RIDGE NATIONAL LABFunctional Sorting of Microbial Cells From Complex Microbiota
WORTHEN G. SCOTTCHILDREN'S HOSPITAL OF PHILADELPHIAMulti-Dimensional Separation of Bacteria

 

Development of New tools for Computational Analysis of Human Microbiome Project Data (R01) RFA-RM-08-008
PI NameInstitution NameTitle
HAFT, DANIEL HJ. CRAIG VENTER INSTITUTE, INCAlgorithmically-Tuned Protein Families, Rule_Base and Characterized Proteins
KNIGHT, ROBINUNIVERSITY OF COLORADO AT BOULDERNew Tools for Understanding the Composition and Dynamics of Microbial Communities
POP, MIHAIUNIVERSITY OF MARYLAND COLLEGE PK CAMPUSAssembly and analysis software for exploring the human microbiome
YE, YUZHENINDIANA UNIVERSITY BLOOMINGTONFragment assembly and metabolic/species diversity analysis for Human microbiome

 

Development of New Technologies Needed for Studying the Human Microbiome (R01) RFA-RM-08-010
PI NameInstitution NameTitle
LO, YU-HWA
ZHANG, KUN (contact)
UNIVERSITY OF CALIFORNIA SAN DIEGOAn Integrated lab-on-chip system for genome sequencing of single microbial cells
MARZIALI, ANDREBOREAL GENOMICS INC.SCODA DNA extraction to normalize species representation
RELMAN, DAVID ASTANFORD UNIVERSITYOptimization of a microfluidic device for single bacterial cell genomics
SCHMIDT, THOMAS MITCHELL (contact)
YOUNG, VINCENT B
MICHIGAN STATE UNIVERSITYCultivation and Characterization of Microaerobes from the Human Microbiome

 

Development of New Technologies Needed for Studying the Human Microbiome (R21) RFA-RM-08-011
PI NameInstitution NameTitle
CHANG, EUGENE BUNIVERSITY OF CHICAGOTechnologies for the discovery of novel human colonic mucosal-associated microbes

This page last reviewed on April 12, 2024