A Software Infrastructure for Computational Biol- ogy and Physics. Start date: Nov. 1, 2003. Expires: Oct. 31, 2006. Amount: $404,145. Principal investigator: Lawrence Rauchwerger. Sponsor: Texas Engineering Experimental Station.
Project to extend STAPL (the Standard Template Adaptive Parallel Library), a parallel C++ library designed as a superset of the ANSI C++ Standard Template Library that executes on uni- or multi- processors. The project will extend the STAPL library, redesign the STAPL run-time system, and build a compiler to allow source-level optimizations for adaptive algorithms and lower-level optimizations.
Feedback from Multi-Source Data Mining to Experimentation for Gene Network Discovery. Start date: Oct. 15, 2003. Expires: Sept. 30, 2007. Amount: $1,700,000. Principal investigator: Raymond Mooney. Sponsor: University of Texas at Austin.
Project to develop and apply data mining methods that analyze multiple sources of multiple experimental data types in order to discover gene networks for human and yeast genes. The project will disseminate new algorithms via its website (http://bioinformatics icmb.utexas.edu) and will submit newly derived gene functions to public databases like BIND and DIP.
A Computational Capability for Fast and Reliable Characterization of Protein Complexes. Start date: Aug. 1, 2003. Expires: July 31, 2004. Amount: $804,234. Principal investigator: Ying Xu. Sponsor: University of Georgia Research Foundation.
Supports development of an integrated computational capability for characterization of protein complexes in a cell by analyzing mass spectrometry data and chemical cross-linking information along with protein docking prediction. The project’s specific aims include improved computational methods for locating and identifying cross-links from mass spectrometry data; methods for the identification of protein complexes and their component proteins; and methods identifying for protein docking.