SEBINI: Software Environment for BIological Network Inference.

Ronald C Taylor; Anuj Shah; Charles Treatman; Meridith Blevins

doi:10.1093/bioinformatics/btl444

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SEBINI: Software Environment for BIological Network Inference.

Ronald C Taylor·Anuj Shah·Charles Treatman·Meridith Blevins

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Abstract

UNLABELLED: The Software Environment for BIological Network Inference (SEBINI) has been created to provide an interactive environment for the deployment and evaluation of algorithms used to reconstruct the structure of biological regulatory and interaction networks. SEBINI can be used to compare and train network inference methods on artificial networks and simulated gene expression perturbation data. It also allows the analysis within the same framework of experimental high-throughput expression data using the suite of (trained) inference methods; hence SEBINI should be useful to software developers wishing to evaluate, compare, refine or combine inference techniques, and to bioinformaticians analyzing experimental data. SEBINI provides a platform that aids in more accurate reconstruction of biological networks, with less effort, in less time. AVAILABILITY: A demonstration website is located at https://www.emsl.pnl.gov/NIT/NIT.html. The Java source code and PostgreSQL database schema are available freely for non-commercial use.

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Algorithms Cell Physiological Phenomena Computer Simulation Information Storage and Retrieval Models, Biological Programming Languages Signal Transduction Software Systems Biology User-Computer Interface Journal Article Research Support, Non-U.S. Gov't Research Support, U.S. Gov't, Non-P.H.S.

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Ronald C Taylor, Anuj Shah, Charles Treatman, Meridith Blevins. 2006-09-05. SEBINI: Software Environment for BIological Network Inference.. https://doi.org/10.1093/bioinformatics%2Fbtl444

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