Journal
INTERNATIONAL JOURNAL OF DATA MINING AND BIOINFORMATICS
Volume 3, Issue 4, Pages 409-430Publisher
INDERSCIENCE ENTERPRISES LTD
DOI: 10.1504/IJDMB.2009.029204
Keywords
network inference pipeline; protein-protein interactions; networks; MS; mass spectrometry; Bayesian
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Funding
- US Department of Energy [DE-AC06-76RL01830]
- ORNL/PNNL Microbial Protein-Protein Interactions (MiPPI) [43930]
- PNNL's William R. Wiley Environmental Molecular Science Laboratory (EMSL)
- EMSL Grand Challenge
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We present a platform for the reconstruction of protein-protein interaction networks inferred from Mass Spectrometry (MS) bait-prey data. The Software Environment for Biological Network Inference (SEBINI), an environment for the deployment of network inference algorithms that use high-throughput data, forms the platform core. Among the many algorithms available in SEBINI is the Bayesian Estimator of Probabilities of Protein-Protein Associations (BEPro3) algorithm, which is used to infer interaction networks from such MS affinity isolation data. Also, the pipeline incorporates the Collective Analysis of Biological Interaction Networks (CABIN) software. We have thus created a structured workflow for protein-protein network inference and supplemental analysis.
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