NEW

StarNet2 Now StarNet includes coverage of mouse data and 9 additional species: Human, Rat, Chicken, Zebrafish, Drosophila, C. elegans, S. cerevisiae, Arabidoposis, and Rice. Human, mouse, rat, and Drosophila also have developmental cohorts available.The user can now select any two cohorts for comparison, with interspecies gene mapping made via Homologene group membership. The new HeatSeeker module allows the user to view false color maps of correlation distances generated from the union of the gene lists from two correlation networks, thus allowing for a comparison that is not biased by the way the networks are constructed. A total of over 12,600 arrays provide data for this tool, encompassing approximately 5% of the entries in GEO (as of August 2008).

NEW

TreeHugger A novel test for Gene Ontology enrichment. Enter a list of 'interesting' Entrez Gene IDs as the foreground, and a list of 'uninteresting' Entrez Gene IDs as the background.

Jupiter, D., Sahutoglu, J., and VanBuren, V.. TreeHugger: A New Test for Enrichment of Gene Ontology Terms. Informs Journal on Computing. DOI: 10.1287/ijoc.1090.0356 [Link to Abstract] [Link to PDF - requires subscription] [Link to TreeHugger]

StarNet The orginal StarNet application with coverage for mouse full cohort data (2145 arrays) and mouse cardiac cohort data (239 arrays). Visualize correlation networks, get known interactions involving genes from those networks, and test the correlation networks for Gene Ontology enrichment.

Jupiter, D.C. and VanBuren, V. A Visual Data Mining Tool that Facilitates Reconstruction of Transcription Regulatory Networks. PLoS ONE 3(3): e1717 doi:10.1371/journal.pone.0001717 [Link to Article] [Link to StarNet]