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Funding Update: NIH Bioinformatics Grants Awarded Sept. 4 — Oct. 3, 2012

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Project Title: Bayesian Variable Selection Methods for Matched Case-Control Studies
Principal Investigator: Asafu-Adjei, Josephine
Organization: Harvard University School of Public Health
Project Start Date: Sept. 16, 2012
Project End Date: Sept. 15, 2014
Funding Institute: NINDS
FY Total Cost: $47,114


Project Title: Structure Based Prediction of the Interactome
Principal Investigator: Berger, Bonnie
Organization: Massachusetts Institute of Technology
Project Start Date: April 1, 2008
Project End Date: May 31, 2016
Funding Institute: NIGMS
FY Total Cost: $320,254


Project Title: Removing Statistical Bottlenecks in Data Analysis for the ENCODE Consortium
Principal Investigator: Bickel, Peter J.
Organization: University of California, Berkeley
Project Start Date: Sept. 17, 2012
Project End Date: June 30, 2015
Funding Institute: NHGRI
FY Total Cost: $425,000


Project Title: CRCNS: Data Sharing: the EM Open Connectome Project
Principal Investigator: Burns, Randal
Organization: Johns Hopkins University
Project Start Date: Sept. 10, 2012
Project End Date: Aug. 31, 2015
Funding Institute: NIBIB
FY Total Cost: $279,484


Project Title: Computational Design of Specific Binding Proteins Using Leave-One-Out
Principal Investigator: Bystroff, Christopher
Organization: Rensselaer Polytechnic Institute
Project Start Date: Sept. 20, 2012
Project End Date: July 31, 2017
Funding Institute: NIGMS
FY Total Cost: $384,309


Project Title: Integrated Bioinformatics Analysis Suite for Deep, Targeted Amplicon Sequencing
Principal Investigator: Choudhary, Ashish
Organization: Asuragen
Project Start Date: Sept. 25, 2012
Project End Date: Aug 31, 2013
Funding Institute: NHGRI
FY Total Cost: $242,940


Project Title: Association Analysis Software for Mining Clinical Next-Gen Sequencing
Principal Investigator: Durfee, Timothy J.
Organization: DNAStar
Project Start Date: Sept. 25, 2012
Project End Date: March 24, 2013
Funding Institute: NHGRI
FY Total Cost: $150,000


Project Title: Integrated Genome Discovery at Single Base Pair Resolution
Principal Investigator: Gifford, David K.
Organization: Massachusetts Institute of Technology
Project Start Date: Sept. 17, 2012
Project End Date: June 30, 2015
Funding Institute: NHGRI
FY Total Cost: $483,798


Project Title: GPU Accelerated Protein Docking Software with Flexible Refinement
Principal Investigator: Herbordt, Martin C.
Organization: Acpharis
Project Start Date: Sept. 28, 2012
Project End Date: Sept. 27, 2013
Funding Institute: NIGMS
FY Total Cost: $104,898


Project Title: Accelerating Curation of GWAS Catalog by Automatic Text Mining
Principal Investigator: Hsu, Chun-Nan
Organization: University of Southern California
Project Start Date: Sept. 24, 2012
Project End Date: June 30, 2015
Funding Institute: NHGRI
FY Total Cost: $247,879


Project Title: Statistical and Computational Tools for Next Generation ChiP-seq Applications
Principal Investigator: Ji, Hongkai
Organization: Johns Hopkins University
Project Start Date: Sept. 12, 2012
Project End Date: May 31, 2015
Funding Institute: NHGRI
FY Total Cost: $324,000


Project Title: Bayesian Models for Cancer Prognosis by Integrating Diverse Types of Data
Principal Investigator: Ji, Yuan
Organization: Northshore University Health System
Project Start Date: Sept. 15, 2008
Project End Date: July 31, 2013
Funding Institute: NCI
FY Total Cost: $192,146


Project Title: Bioinformatics Data ‘Cleaning’ for Immune Repertoire Sequencing
Principal Investigator: Johnson, David Scott
Organization: Gigagen
Project Start Date: Sept. 24, 2012
Project End Date: April 30, 2013
Funding Institute: NCI
FY Total Cost: $205,650


Project Title: Ontology-Based Knowledge and Belief Management System
Principal Investigator: Kabuka, Mansur R.
Organization: Infotech Soft
Project Start Date: Sept. 15, 2012
Project End Date: Aug. 31, 2013
Funding Institute: NIGMS
FY Total Cost: $150,000


Project Title: Statistical Methods for Annotating Repetitive Genomic Regions through ENCODE-derived Data
Principal Investigator: Keles, Sunduz
Organization: University of Wisconsin, Madison
Project Start Date: Sept. 17, 2012
Project End Date: June 30, 2015
Funding Institute: NHGRI
FY Total Cost: $382,136

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Project Title: The UCSC Genome Browser
Principal Investigator: Kent, William James
Organization: University of California, Santa Cruz
Project Start Date: July 12, 2001
Project End Date: June 30, 2017
Funding Institute: NHGRI
FY Total Cost: $3,380,016


Project Title: Byologic: Software for Mass Spectrometric Protein Drug Assays
Principal Investigator: Kil, Yong Joo
Organization: Protein Metrics
Project Start Date: Sept. 11, 2012
Project End Date: Sept. 10, 2013
Funding Institute: NIGMS
FY Total Cost: $188,800


Project Title: Linking Disease-Associated Variants to Transcriptional Regulation Using ENCODE
Principal Investigator: Klein, Robert J.
Organization: Sloan-Kettering Institute for Cancer Research
Project Start Date: Sept. 17, 2012
Project End Date: June 30, 2015
Funding Institute: NHGRI
FY Total Cost: $505,830


Project Title: Statistical Methods for Genomics and Proteomic Data in Population-based Studies
Principal Investigator: Lin, Xihong
Organization: Harvard University School of Public Health
Project Start Date: Not Listed
Project End Date: Not Listed
Funding Institute: Not Listed
FY Total Cost: $133,936


Project Title: Statistical Informatics for Cancer Research
Principal Investigator: Lin, Xihong
Organization: Harvard University School of Public Health
Project Start Date: Sept. 10, 2008
Project End Date: Aug. 31, 2013
Funding Institute: NCI
FY Total Cost: $614,635


Project Title: COPASI Software for Modeling and Simulation of Biochemical Networks
Principal Investigator: Mendes, Pedro
Organization: Virginia Polytechnic Institute
Project Start Date: Sept. 1, 2007
Project End Date: May 31, 2016
Funding Institute: NIGMS
FY Total Cost: $343,463


Project Title: IDASH: Integrating Data for Analysis, Anonymization, and Sharing
Principal Investigator: Ohno-Machado, Lucila
Organization: University of California, San Diego
Project Start Date: Sept. 20, 2010
Project End Date: June 30, 2015
Funding Institute: NHLBI
FY Total Cost: $1,663,772


Project Title: Metrics and Methods for Cross-Population Fine Mapping
Principal Investigator: Pasaniuc, Bogdan
Organization: University of California, Los Angeles
Project Start Date: Sept. 12, 2012
Project End Date: Aug. 31, 2014
Funding Institute: NCI
FY Total Cost: $77,000


Project Title: Developing the Untargeted Metabolomic Workflow for High-Throughput Analyses
Principal Investigator: Patti, Gary Joseph
Organization: Washington University
Project Start Date: Sept. 15, 2012
Project End Date: June 30, 2017
Funding Institute: NIEHS
FY Total Cost: $368,600


Project Title: Search Algorithms for Drug Combinations: Extending Approved Cancer Therapies
Principal Investigator: Piermarocchi, Carlo
Organization: Salgomed
Project Start Date: Sept. 25, 2012
Project End Date: Aug. 31, 2013
Funding Institute: NCI
FY Total Cost: $209,739


Project Title: Pathway Commons: A Public Library of Biological Pathways
Principal Investigator: Sander, Chris
Organization: Sloan-Kettering Institute for Cancer Research
Project Start Date: Sept. 22, 2012
Project End Date: June 30, 2015
Funding Institute: NHGRI
FY Total Cost: $1,000,000


Project Title: Multiscale Molecular Systems Biology: Reconstruction and Model Optimization
Principal Investigator: Saunders, Michael Alan
Organization: Stanford University
Project Start Date: Sept. 15, 2012
Project End Date: Aug. 31, 2017
Funding Institute: NIGMS
FY Total Cost: $373,328


Project Title: Computational Genome-wide RNA Profiling Using Next Generation Sequencing
Principal Investigator: Wang, Li-San
Organization: University of Pennsylvania
Project Start Date: Sept. 14, 2012
Project End Date: May 31, 2017
Funding Institute: NIGMS
FY Total Cost: $312,000


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