Welcome to OmicsIntegrator
Forest takes protein data, maps it onto a large interactome network, and then uses the Prize-Collecting Steiner Forest algorithm to identify a high-confidence subnetwork relevant to your data. This can help identify cellular pathways and other proteins that are involved in your experimental system.
OmicsIntegrator web version has been taken down for maintenance. Please visit the GitHub link below if you need to use the software.
References:
Network-Based Interpretation of Diverse High-Throughput Datasets through the Omics Integrator Software Package. N Tuncbag, SJC Gosline, AJ Kedaigle, AR Soltis, A Gitter, E Fraenkel. PLoS Computational Biology, 2016; 12(4).For more advanced control over your run, and to use the Garnet tool, you can run Omics Integrator on your own computer.
Version 1: https://github.com/fraenkel-lab/OmicsIntegrator
Protocol paper for version 1: Discovering altered regulation and signaling through network-based integration of transcriptomic, epigenomic and proteomic tumor data. Kedaigle A, and Fraenkel E. Cancer Systems Biology: Methods in Molecular Biology, 2018.
Version 2: https://github.com/fraenkel-lab/OmicsIntegrator2