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Funding Update: Aug 27, 2010

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NIH bioinformatics grants awarded July 27 — Aug. 25, 2010 (part one of two)

Project Title: Quant[itative] Methods for Systems-Level Analyses of Regulation & Signaling Dynamics
Principal Investigator: Airoldi, Edoardo Maria
Organization: Harvard University
Project Start Date: Aug. 1, 2010
Project End Date: July 31, 2015
RFA/PA: PA-10-607
Funding Institute: NIGMS
FY Total Cost: $219,976


Project Title: Delphi: Software for Electrostatic Modeling of Biomolecules and Objects
Principal Investigator: Alexov, Emil Georgiev
Organization: Clemson University
Project Start Date: Aug. 10, 2010
Project End Date: July 31, 2015
RFA/PA: PAR-08-010
Funding Institute: NIGMS
FY Total Cost: $420,605


Project Title: Tensor Computations for Modeling Large-Scale Molecular Biological Data
Principal Investigator: Alter, Orly
Organization: University of Texas Austin
Project Start Date: Aug. 23, 2007
Project End Date: May 31, 2012
RFA/PA: PAR-06-410
Funding Institute: NHGRI
FY Total Cost: $297,009


Project Title: Algorithms and Software for Protein-Family De Novo Sequencing
Principal Investigator: Bern, Marshall Wayne
Organization: Palo Alto Research Center
Project Start Date: Aug. 1, 2010
Project End Date: June 30, 2012
RFA/PA: PAR-09-219
Funding Institute: NIGMS
FY Total Cost: $305,205


Project Title: Open Mx: Multipurpose Software for Statistical Modeling
Principal Investigator: Boker, Steven
Organization: University of Virginia Charlottesville
Project Start Date: Sept. 26, 2007
Project End Date: July 31, 2011
RFA/PA: RFA-RM-07-004
Funding Institute: OD
FY Total Cost: $266,075


Project Title: Predicting Protein-DNA Interactions with Structural Models
Principal Investigator: Bradley, Philip
Organization: Fred Hutchinson Cancer Research Center
Project Start Date: Aug. 10, 2009
Project End Date: July 31, 2014
RFA/PA: PAR-07-344
Funding Institute: NIGMS
FY Total Cost: $329,314


Project Title: An Integrated Systems Pharmacology Platform for Pharmacogenomic Research
Principal Investigator: Brennan, Richard John
Organization: GeneGo
Project Start Date: July 1, 2009
Project End Date: June 30, 2011
RFA/PA: PAR-07-160
Funding Institute: NIGMS
FY Total Cost: $143,710


Project Title: New Tools for the Characterization of Gene Predictions in Prokaryote Genomes
Principal Investigator: Brocchieri, Luciano
Organization: University of Florida
Project Start Date: Aug. 5, 2010
Project End Date: July 31, 2015
RFA/PA: PA-07-070
Funding Institute: NIGMS
FY Total Cost: $282,734


Project Title: Comprehensive Characterization of the Drosophila Transcriptome
Principal Investigator: Celniker, Susan
Organization: University of California/-Lawrence Berkeley Lab
Project Start Date: Aug. 6, 2010
Project End Date: July 31, 2011
RFA/PA: RFA-HG-06-006
Funding Institute: NHGRI
FY Total Cost: $560,194


Project Title: Genomic Database for the Yeast Saccharomyces
Principal Investigator: Cherry, Joe Michael
Organization: Stanford University
Project Start Date: Sept. 30, 1995
Project End Date: July 31, 2011
RFA/PA: NA
Funding Institute: NHGRI
FY Total Cost: $2,871,828


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Project Title: The Cancer Genome Atlas Data Analysis Center
Principal Investigator: Chin, Lynda
Organization: Broad Institute
Project Start Date: Sept. 29, 2009
Project End Date: July 31, 2014
RFA/PA: RFA-CA-09-010
Funding Institute: NCI
FY Total Cost: $2,582,202


Project Title: The Odie Toolkit - Software for Information Extraction and Biomedical Ontology De[velopment]
Principal Investigator: Crowley, Rebecca
Organization: University of Pittsburgh at Pittsburgh
Project Start Date: Sept. 27, 2007
Project End Date: July 31, 2011
RFA/PA: PAR-07-249
Funding Institute: NCI
FY Total Cost: $427,872


Project Title: Efficient Software and Algorithms for Analyzing Markers Data on General Pedigree
Principal Investigator: Dechter, Rina
Organization: University of California Irvine
Project Start Date: Aug. 1, 2010
Project End Date: July 31, 2011
RFA/PA: NA
Funding Institute: NHGRI
FY Total Cost: $99,989


Project Title: A Core Database of Interacting Proteins
Principal Investigator: Eisenberg, David
Organization: University of California Los Angeles
Project Start Date: July 1, 2004
Project End Date: June 30, 2014
RFA/PA: PAR-09-218
Funding Institute: NIGMS
FY Total Cost: $618,688


Project Title: Resource for Biocomputing, Visualization, and Informatics
Principal Investigator: Ferrin, Thomas
Organization: University of California San Francisco
Project Start Date: July 15, 1997
Project End Date: June 30, 2012
RFA/PA: NA
Funding Institute: NCRR
FY Total Cost: $1,156,110


Project Title: Informatics Center for Neurogenetics and Neurogenomics
Principal Investigator: Freimer, Nelson
Organization: University of California Los Angeles
Project Start Date: Aug. 1, 2009
Project End Date: June 30, 2014
RFA/PA: PAR-08-116
Funding Institute: NINDS
FY Total Cost: $769,535


Project Title: Virtual Machines and Cloud Computing for Automated and Portable Sequence Analysis
Principal Investigator: Fricke, W. Florian
Organization: University of Maryland Baltimore
Project Start Date: Sept. 30, 2009
Project End Date: June 30, 2011
RFA/PA: RFA-OD-09-004
Funding Institute: NHGRI
FY Total Cost: $689,826


Project Title: Filing the Data Processing Gap for Exon-Region Specific Data from 1000 Genomes
Principal Investigator: Gibbs, Richard
Organization: Baylor College of Medicine
Project Start Date: Sept. 18, 2009
Project End Date: June 30, 2011
RFA/PA: RFA-HG-09-001
Funding Institute: NHGRI
FY Total Cost: $521,149


Project Title: Nonparametric Analysis of Reverse-Phase Protein Lysate Array Data
Principal Investigator: He, Xuming
Organization: University of Texas MD Anderson Cancer Center
Project Start Date: Aug. 1, 2009
Project End Date: July 31, 2011
RFA/PA: PAR-06-411
Funding Institute: NCI
FY Total Cost: $201,344


Project Title: Study Protein Folding Mechanism Using a Roadmap-Based Approach
Principal Investigator: Huo, Shuanghong
Organization: Clark University
Project Start Date: Aug. 1, 2009
Project End Date: July 31, 2014
RFA/PA: PA-07-070
Funding Institute: NIGMS
FY Total Cost: $249,797


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Project Title: Analysis Tools and Software for Second Generation Sequencing Data
Principal Investigator: Irizarry, Rafael Angel
Organization: Johns Hopkins University
Project Start Date: Aug. 11, 2010
Project End Date: May 31, 2013
RFA/PA: PA-07-070
Funding Institute: NHGRI
FY Total Cost: $410,000


Project Title: Extended Thermodynamic Database for Modified Oligonucleotides
Principal Investigator: Kennelly, William
Organization: DNA Software
Project Start Date: Feb. 1, 2009
Project End Date: Jan. 31, 2011
RFA/PA: PA-08-050
Funding Institute: NIGMS
FY Total Cost: $218,093


Project Title: Algorithms and Image Analysis Software Tool for Automated Recognition and Identif[ication]
Principal Investigator: Kovacevic, Jelena
Organization: Carnegie-Mellon University
Project Start Date: Aug. 1, 2009
Project End Date: July 31, 2011
RFA/PA: PA-06-180
Funding Institute: NIBIB
FY Total Cost: $70,336


Project Title: Training Grant in Genomic Analysis and Interpretation
Principal Investigator: Lange, Kenneth
Organization: University of California Los Angeles
Project Start Date: July 1, 2002
Project End Date: June 30, 2012
RFA/PA: PA-06-468
Funding Institute: NHGRI
FY Total Cost: $443,436


Project Title: An Ontology of Qualities for the Annotation of Biomedical Data
Principal Investigator: Lewis, Suzanna
Organization: University of California/Lawrence Berkeley Lab
Project Start Date: Sept. 30, 2009
Project End Date: June 30, 2012
RFA/PA: PAR-07-425
Funding Institute: NHGRI
FY Total Cost: $538,932


Project Title: CD-Hit: a Fast Program to Cluster and Compare Large Sets of Biological Sequences
Principal Investigator: Li, Weizhong
Organization: University of California San Diego
Project Start Date: Sept. 1, 2008
Project End Date: June 30, 2011
RFA/PA: PAR-07-235
Funding Institute: NCRR
FY Total Cost: $252,376


Project Title: A Computational Genotyping System for Improved Influenza Surveillance
Principal Investigator: Lu, Guoqing
Organization: University of Nebraska Omaha
Project Start Date: Aug. 1, 2009
Project End Date: July 31, 2011
RFA/PA: PAR-08-080
Funding Institute: NLM
FY Total Cost: $377,187


Project Title: Effective Clustering Penalized Methods for Genomic Biomarker Selection
Principal Investigator: Ma, Shuangge
Organization: Yale University
Project Start Date: Aug. 1, 2009
Project End Date: July 31, 2011
RFA/PA: PA-06-180
Funding Institute: NLM
FY Total Cost: $78,429


Project Title: Software Tools for Next-Generation Sequencer Data
Principal Investigator: Marth, Gabor
Organization: Boston College
Project Start Date: Sept. 1, 2008
Project End Date: June 30, 2012
RFA/PA: PA-07-070
Funding Institute: NHGRI
FY Total Cost: $666,447


Project Title: Modular Software for Sequence Data Quality Checking Alignment & Variant-Calling
Principal Investigator: Marth, Gabor
Organization: Boston College
Project Start Date: Sept. 22, 2009
Project End Date: July 31, 2011
RFA/PA: RFA-OD-09-004
Funding Institute: NHGRI
FY Total Cost: $1,157,137


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