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Funding Update: Sep 9, 2011

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NIH bioinformatics grants awarded Aug. 11 — Sept. 9, 2011

Project Title: Reverse Engineering of Direct Versus Indirect Effects in Biological Pathways
Principal Investigator: Bleris, Leonidas
Organization: University of Texas, Dallas
Project Start Date: Sept. 1, 2011
Project End Date: Aug. 31, 2013
Funding Institute: NIGMS
FY Total Cost: $184,750


Project Title: Biocomputation Across Distributed Private Datasets to Enhance Drug Discovery
Principal Investigator: Bunin, Barry A.
Organization: Collaborative Drug Discovery
Project Start Date: Sept. 1, 2011
Project End Date: May 31, 2012
Funding Institute: NLM
FY Total Cost: $149,999


Project Title: Incorporating Gene Ontology and Pathway Knowledge into Over Representation Analysis
Principal Investigator: Cao, Jing
Organization: Southern Methodist University
Project Start Date: Aug. 17, 2011
Project End Date: July 31, 2014
Funding Institute: NHGRI
FY Total Cost: $277,097


Project Title: UniProt: A Centralized Protein Sequence and Function Resource
Principal Investigator: Apweiler, Rolf
Organization: European Molecular Biology Laboratory
Project Start Date: Sept. 27, 2010
Project End Date: July 31, 2013
Funding Institute: NHGRI
FY Total Cost: $6,172,032


Project Title: Integrative Methods for High-Dimensional Genomics Data
Principal Investigator: Baladandayuthapani, Veerabhadran
Organization: University of Texas, MD Anderson Cancer Center
Project Start Date: Aug. 23, 2011
Project End Date: June 30, 2015
Funding Institute: NCI
FY Total Cost: $327,850


Project Title: Algorithmic Assignment of Probable Function to Proteins of Previously Unknown Function
Principal Investigator: Bernstein, Herbert J.
Organization: Dowling College
Project Start Date: Aug. 1, 2006
Project End Date: Aug. 31, 2014
Funding Institute: NIGMS
FY Total Cost: $437,100


Project Title: Development of Trans-Proteomics Pipeline, An Analysis Suite for Mass Spectrometry
Principal Investigator: Boyle, John
Organization: Institute for Systems Biology
Project Start Date: Sept. 1, 2010
Project End Date: Aug. 31, 2013
Funding Institute: NIGMS
FY Total Cost: $566,534


Project Title: Data Management and Statistical Analysis Core
Principal Investigator: Burchinal, Margaret
Organization: University of North Carolina, Chapel Hill
Funding Institute: NICHHD
FY Total Cost: $529,952


Project Title: Proteome Characterization Center: A Genoproteomics Pipeline for Cancer Biomarkers
Principal Investigator: Chan, Daniel Wanyui
Organization: Johns Hopkins University
Project Start Date: Aug. 29, 2011
Project End Date: July 31, 2014
Funding Institute: NCI
FY Total Cost: $1, 962,728


Project Title: High Performance Computing Instrumentation for Yale University Biomedical HPC Center
Principal Investigator: Colangelo, Christopher Michael
Organization: Yale University
Project Start Date: Sept. 1, 2011
Project End Date: Aug. 31, 2012
Funding Institute: NCRR
FY Total Cost: $587,958


Project Title: Repurposing Electronic Health Data for Serendipitous Therapy Discovery
Principal Investigator: Fusaro, Vincent A.
Organization: Harvard University
Project Start Date: Sept. 1, 2011
Project End Date: Aug. 31, 2013
Funding Institute: NLM
FY Total Cost: $127,326


Project Title: Data Structures, Algorithms and Tools for Ontological Discovery
Principal Investigator: Chesler, Elissa J.
Organization: Jackson Laboratory
Project Start Date: Sept. 25, 2010
Project End Date: Aug 31, 2014
Funding Institute: NIAAA
FY Total Cost: $511,090


Project Title: Flexible Statistical Methods for Biomedical Data
Principal Investigator: Davidian, Marie
Organization: North Carolina State University, Raleigh
Project Start Date: May 1, 2000
Project End Date: May 31, 2015
Funding Institute: NCI
FY Total Cost: $218,638


Project Title: Pathway-Guide: A Novel Tool for the Analysis of Signaling and Metabolic Pathways
Principal Investigator: Draghici, Sorin
Organization: Advaita
Project Start Date: Mar 1, 2009
Project End Date: May 31, 2014
Funding Institute: NIGMS
FY Total Cost: $749,578


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Project Title: Commercial Software for Modeling of G Protein-Coupled Receptors
Principal Investigator: Farid, Ramy
Organization: Schrodinger
Project Start Date: Jan. 1, 2007
Project End Date: Aug. 31, 2013
Funding Institute: NIGMS
FY Total Cost: $389,097


Project Title: A Joint Linkage/Association Strategy to Interrogate AMD Genetic Susceptibility
Principal Investigator: Francis, Peter J.
Organization: Oregon Health and Science University
Project Start Date: Sept. 1, 2011
Project End Date: Aug. 31, 2015
Funding Institute: NEI
FY Total Cost: $693,369


Project Title: Structural Analysis of Macromolecular Assembly
Principal Investigator: Frank, Joachim
Organization: Columbia University Health Sciences
Project Start Date: April 1, 1982
Project End Date: Aug. 31, 2012
Funding Institute: NIGMS
FY Total Cost: $158,174


Project Title: Neurogenomics/Bioinformatics Core
Principal Investigator: Geschwind, Daniel
Organization: University of California, Los Angeles
Funding Institute: NICHHD
FY Total Cost: $143,038


Project Title: Developing Proteogenomic Mapping for Human Genome Annotation
Principal Investigator: Giddings, Morgan Corinne
Organization: Boise State University
Project Start Date: Sept. 16, 2005
Project End Date: Aug. 31, 2012
Funding Institute: NHGRI
FY Total Cost: $797,678


Project Title: Poet-2: High-Performance Computing for Advanced Clinical Narrative Preprocessing
Principal Investigator: Hurdle , John F.
Organization: University of Utah
Project Start Date: Sept. 1, 2011
Project End Date: Aug 31, 2014
Funding Institute: NLM
FY Total Cost: $325,163


Project Title: Preprocessing and Analysis Tools for Contemporary Microarray Applications
Principal Investigator: Irizarry, Rafael Angel
Organization: Johns Hopkins University
Project Start Date: Sept. 24, 2007
Project End Date: Aug. 31, 2012
Funding Institute: NIGMS
FY Total Cost: $299,445


Project Title: Center for Integrative Biomedical Computing
Principal Investigator: Johnson, Christopher R.
Organization: University of Utah
Project Start Date: Sept. 1, 2000
Project End Date: July 31, 2015
Funding Institute: NCRR
FY Total Cost: $1,040,368


Project Title: Semantic Data Integration for Integrative Cancer Biology Research
Principal Investigator: Kabuka, Mansur R.
Organization: Infotech Soft
Project Start Date: Sept. 21, 2007
Project End Date: Aug. 31, 2012
Funding Institute: NCI
FY Total Cost: $477,280


Project Title: Development and Support of the Pathway Tools Software
Principal Investigator: Karp, Peter D.
Organization: SRI International
Project Start Date: April 1, 2005
Project End Date: March 31, 2012
Funding Institute: NIGMS
FY Total Cost: $168,219


Project Title: Advances in Computational Gene Finding
Principal Investigator: Korf, Ian F.
Organization: University of California, Davis
Project Start Date: Sept 1, 2007
Project End Date: June 30, 2012
Funding Institute: NHGRI
FY Total Cost: $313,824


Project Title: Rosetta: An Integrated Macromolecular Modeling Suite
Principal Investigator: Kuhlman, Brian A.
Organization: University of North Carolina, Chapel Hill
Project Start Date: March 1, 2005
Project End Date: Aug. 31, 2013
Funding Institute: NIGMS
FY Total Cost: $566,587


Project Title: Developing Statistical Methods for Disease Gene Discovery
Principal Investigator: Li, Chun
Organization: Vanderbilt University
Project Start Date: Sept. 19, 2008
Project End Date: July 31, 2013
Funding Institute: NHGRI
FY Total Cost: $380,638


Project Title: Design and Analysis of Sequencing-Based Studies for Complex Human Traits
Principal Investigator: Li, Yun
Organization: University of North Carolina, Chapel Hill
Project Start Date: Aug. 23, 2011
Project End Date: May 31, 2016
Funding Institute: NHGRI
FY Total Cost: $366,946


Project Title: Statistical Informatics for Cancer Research
Principal Investigator: Lin, Xihong
Organization: Harvard University
Project Start Date: Sept. 10, 2008
Project End Date: Aug. 31, 2013
Funding Institute: NCI
FY Total Cost: $635,114


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Project Title: Technologies to Enable Privacy in Biomedical Databanks
Principal Investigator: Malin, Bradley A.
Organization: Vanderbilt University
Project Start Date: Sept. 1, 2009
Project End Date: Aug. 31, 2015
Funding Institute: NLM
FY Total Cost: $261,469


Project Title: GenomeSpace: A Community Web Environment for Integrative Genomic Analysis
Principal Investigator: Mesirov, Jill P.
Organization: Broad Institute
Project Start Date: Sept. 11, 2009
Project End Date: June 30, 2013
Funding Institute: NHGRI
FY Total Cost: $2,010,096


Project Title: Epigenomics Data Analysis and Coordination Center at Baylor College of Medicine
Principal Investigator: Milosavljevic, Aleksandar
Organization: Baylor College of Medicine
Project Start Date: Sept. 20, 2008
Project End Date: July 31, 2013
Funding Institute: NIDA
FY Total Cost: $50,000


Project Title: Stochastic Dynamics for Multiscale Biology
Principal Investigator: Mjolsness, Eric D.
Organization: University of California, Irvine
Project Start Date: Sept. 1, 2008
Project End Date: Aug. 31, 2012
Funding Institute: NIGMS
FY Total Cost: $297,497


Project Title: Evolutionary Analysis of Bacterial Genomes: High-Throughput Computational Tools
Principal Investigator: Nakhleh, Luay
Organization: Rice University
Project Start Date: Aug. 15, 2008
Project End Date: Aug. 14, 2013
Funding Institute: NLM
FY Total Cost: $249,834


Project Title: A Computational Approach to Developing Heterochiral Peptide Therapeutics
Principal Investigator: Nanda, Vikas
Organization: University of Medicine and Dentistry of New Jersey; Robert Wood Johnson Medical School
Project Start Date: Sept. 1, 2010
Project End Date: Aug. 31, 2015
Funding Institute: NIGMS
FY Total Cost: $308,880


Project Title: Computational Tools for Mass Spectrometry-Based Interactome Data
Principal Investigator: Nesvizhskii, Alexey I
Organization: University of Michigan, Ann Arbor
Project Start Date: Sept. 1, 2010
Project End Date: Aug. 31, 2014
Funding Institute: NIGMS
FY Total Cost: $282,968


Project Title: The MEME Suite of Motif-Based Sequence Analysis Tools
Principal Investigator: Noble, William Stafford
Organization: University of Washington
Project Start Date: Sept. 28, 2009
Project End Date: Aug. 31, 2013
Funding Institute: NCRR
FY Total Cost: $325,929


Project Title: A New Model of Peptide Fragmentation for Improved Protein Identification
Principal Investigator: Old, William Marland
Organization: University of Colorado, Boulder
Project Start Date: Sept. 1, 2011
Project End Date: July 31, 2016
Funding Institute: NCI
FY Total Cost: $314,363


Project Title: Methods for the Analysis of RNA-Seq and Related Sequence Census-Based Experiments
Principal Investigator: Pachter, Lior S.
Organization: University of California, Berkeley
Project Start Date: Aug. 19, 2011
Project End Date: May 31, 2014
Funding Institute: NHGRI
FY Total Cost: $372,651


Project Title: Statistical Analysis of Gene Expression Quantitative Trait Loci (EQTL)
Principal Investigator: Pritchard, Jonathan K.
Organization: University of Chicago
Project Start Date: Sept. 17, 2010
Project End Date: July 31, 2012
Funding Institute: NIMH
FY Total Cost: $334,704


Project Title: Biostatistics and Bioinformatics Core
Principal Investigator: Putt, Mary E.
Organization: Children's Hospital of Philadelphia
Budget Start Date: July 1, 2011
Budget End Date: June 30, 2012
Funding Institute: NICHHD
FY Total Cost: $194,235


Project Title: Visual Programming Tool for Integrated Gene/Protein Networks in Cancer Research
Principal Investigator: Sasinowski, Maciek
Organization: Incogen
Project Start Date: Jan. 1, 2007
Project End Date: Aug. 31, 2012
Funding Institute: NCI
FY Total Cost: $730,407


Project Title: Computational Studies of In Vitro Selection of RNAs
Principal Investigator: Schlick, Tamar
Organization: New York University
Project Start Date: Sept. 1, 2009
Project End Date: Aug. 31, 2013
Funding Institute: NIGMS
FY Total Cost: $310,795


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Project Title: Genomics GPUs and Next Generation Computational Statistics
Principal Investigator: Sobel, Eric
Organization: University of California, Los Angeles
Project Start Date: Aug. 26, 2011
Project End Date: June 30, 2015
Funding Institute: NHGRI
FY Total Cost: $359,971


Project Title: WormBase: A Core Data Resource for C. elegans and Other Nematodes
Principal Investigator: Sternberg, Paul Warren
Organization: California Institute of Technology
Project Start Date: July 20, 2000
Project End Date: July 31, 2013
Funding Institute: NHGRI
FY Total Cost: $2,818,076


Project Title: Statistical Methods for Cancer Genetic Association Studies with Hidden Population
Principal Investigator: Thornton, Timothy Alvin
Organization: University of Washington
Project Start Date: Sept. 28, 2010
Project End Date: Aug. 31, 2015
Funding Institute: NCI
FY Total Cost: $138,924


Project Title: Integrative Pipeline for Analysis & Translational Application of TCGA Data (GDAC)
Principal Investigator: Weinstein, John N.
Organization: University of Texas MD Anderson Cancer Center
Project Start Date: Sept. 29, 2009
Project End Date: July 31, 2014
Funding Institute: NCI
FY Total Cost: $1,438,358


Project Title: Statistical Analysis of Exon Arrays
Principal Investigator: Wong, Wing H.
Organization: Stanford University
Project Start Date: Sept. 18, 2008
Project End Date: June 30, 2012
Funding Institute: NHGRI
FY Total Cost: $347,672


Project Title: MapGen KnowledgeBase and Coordination Center
Principal Investigator: Zhou, Xianghong Jasmine
Organization: University of Southern California
Project Start Date: Aug. 25, 2011
Project End Date: June 30, 2016
Funding Institute: NHLBI
FY Total Cost: $1,051,734


Project Title: Robust Methods for Complex Trait Mapping with Collaborative Cross
Principal Investigator: Zou, Fei
Organization: University of North Carolina, Chapel Hill
Project Start Date: April 1, 2006
Project End Date: Aug. 31, 2015
Funding Institute: NIGMS
FY Total Cost: $220,676


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Sleep-Related Variants Show Low Penetrance in Large Population Analysis

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Researchers Develop Polygenic Risk Scores for Dozens of Disease-Related Exposures

With genetic data from two large population cohorts and summary statistics from prior genome-wide association studies, researchers came up with 27 exposure polygenic risk scores in the American Journal of Human Genetics.