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BioPAX is a collaborative effort to create a data exchange format for biological pathway data. The goal of the BioPAX group is to develop a common exchange format for biological pathways data. The BioPAX project began at the Fourth BioPathways Consortium Meeting, a satellite of the ISMB'02 ... [More]
This project hosts source code related to the Pathway Commons project. Pathway Commons is a collection of publicly available pathways from multiple organisms. It provides researchers with convenient access to a comprehensive collection of pathways from multiple sources represented in a common ... [More]
iNA is a computational tool for quantitative analysis of fluctuations in biochemical reaction networks. Such fluctuations, also known as intrinsic noise, arise due to the stochastic nature of chemical reactions and cannot be ignored for when some molecules are present only in very low copy numbers ... [More]
The aim of this project is to take an open and collaborative approach to investigating the evolution of proteins based on the biosynthetic cost of amino acids. A more details description can be found on the wiki while current progress can be tracked by following current issues.
WelcomePhy.net is collection of classes which implement many of the most widely known phylogenetic and bioinformatic search tools available. A full roster of its current implementation is available from the Project Specification. Mission Overview: Gene AlignmentNeedleman-Wunsch Smith-Waterman ... [More]
This is an effort for finding a better and efficient method for finding Consensus for a set of binding sites for a protein. This would be helpful for finding potential binding sites.
This project implements four algorithms that maps short reads to one reference sequence or a set of reference sequences. The primary objective is to measure the performance of the algorithms. However, the code and result can be easily adopted and used in other projects.
Pathway Commons is a convenient point of access to biological pathway information collected from public pathway databases, which you can browse or search. Biologists can browse and search Pathway Commons pathways. Computational biologists can download all pathways in BioPAX format for global ... [More]
This site keeps track of the open source projects that are being submitted to Google Summer of Code 2009. The Informatics Core at the Institute for Systems Biology is the mentoring organization.