SteinerNet: a web server for integrating 'omic' data to discover hidden components of response pathways.

TitleSteinerNet: a web server for integrating 'omic' data to discover hidden components of response pathways.
Publication TypeJournal Article
Year of Publication2012
AuthorsTuncbag, N, McCallum, S, Huang, S-SC, Fraenkel, E
JournalNucleic Acids Res
IssueWeb Server issue
Date Published2012 Jul
KeywordsAnimals, Caenorhabditis elegans, Drosophila melanogaster, Gene Expression Profiling, Gene Regulatory Networks, Humans, Internet, Mice, Proteomics, Signal Transduction, Software, Yeasts

High-throughput technologies including transcriptional profiling, proteomics and reverse genetics screens provide detailed molecular descriptions of cellular responses to perturbations. However, it is difficult to integrate these diverse data to reconstruct biologically meaningful signaling networks. Previously, we have established a framework for integrating transcriptional, proteomic and interactome data by searching for the solution to the prize-collecting Steiner tree problem. Here, we present a web server, SteinerNet, to make this method available in a user-friendly format for a broad range of users with data from any species. At a minimum, a user only needs to provide a set of experimentally detected proteins and/or genes and the server will search for connections among these data from the provided interactomes for yeast, human, mouse, Drosophila melanogaster and Caenorhabditis elegans. More advanced users can upload their own interactome data as well. The server provides interactive visualization of the resulting optimal network and downloadable files detailing the analysis and results. We believe that SteinerNet will be useful for researchers who would like to integrate their high-throughput data for a specific condition or cellular response and to find biologically meaningful pathways. SteinerNet is accessible at

Alternate JournalNucleic Acids Res.
PubMed ID22638579
PubMed Central IDPMC3394335
Grant ListR01 GM089903 / GM / NIGMS NIH HHS / United States
R01-GM089903 / GM / NIGMS NIH HHS / United States
U54 CA112967 / CA / NCI NIH HHS / United States
U54-CA112967 / CA / NCI NIH HHS / United States