This page lists resources available to the public for learning more about this project's science and technology, and for researchers to facilitate their work.
A Database consolidating publicly available yeast pathway data. Features a web-services interface in addition to a web interface. Maintained by the Yeast Integrative Biology Project. Currently contains data derived from SGD's Yeast Biochemical Pathways project.
A Database consolidating publicly available yeast interaction data. Features a web-services interface in addition to a web interface. Maintained by the Yeast Integrative Biology Project. Currently contains data derived from Biogrid.
GOSlimmer is a cytoscape plugin which enables interactive creation of custom GO Slim term sets. Users can pare down the full GO Ontology tree to a subset which maintains meaningful coverage of their user gene set of interest, and export the slim set or a remapped GO annotation file for use in other applications. The above webstart link allows the user to download and run a version of Cytoscape bundled with the GOSlimmer plugin. Requires Java Runtime Environment version 1.5+
YIOS allows one to search sets of yeast interactions against the interactions contained in the CCBR Yeast Interaction Database. Unlike many other interaction search engines which only allow single queries, YIOS is designed to make large batch searches easy, and provides sophisticated identifier resolution functionality.
The synthetic genetic array (SGA) project aims to map all genetic interactions in the yeast Saccharomyces cerevisiae. The GID website provides access to published and raw data from the SGA project.
The Yeast Tandem Affinity Purification (TAP) Project is aimed at elucidating the entire network of protein-protein interactions in the yeast Saccharomyces cerevisiae. The TAP website provides access to published and raw data from the project.
Cytoscape is freely available, open-source network visualization and analysis software, developed by a large community of researchers. We are helping develop Cytoscape and using it to visualize and analyze the yeast genetic and molecular interaction networks that we discover.
cPath is free open-source pathway database software developed by us in collaboration with the Computational Biology Center at Memorial Sloan-Kettering Cancer Center. We are using cPath to collect, organize and query our yeast genetic and molecular interaction network information.
BioPAX and PSI-MI are community developed, standard data exchange formats for biological pathway and network information. We are making our data available in these standard formats to make them maximally accessible to researchers.