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Protein Complex–Based Analysis Framework for High-Throughput Data Sets

Science Signaling  26 Feb 2013:
Vol. 6, Issue 264, pp. rs5
DOI: 10.1126/scisignal.2003629

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Complexes Reveal Signaling Dynamics

Analysis of high-throughput data sets can provide information about changes in gene expression, protein abundance, and signaling pathway activity. However, current data mining approaches do not identify changes to functional protein complexes within a pathway over time, a critical aspect for network analysis. Vinayagam et al. developed an interactive Web tool called COMPLEAT, which uses raw genome-wide, RNA interference data to map protein complex dynamics during the cellular response to stimuli in humans, flies, and yeast. Using phosphorylated extracellular signal–regulated kinase as a marker for pathway activation, COMPLEAT identified the Brahma complex in the cellular response to insulin, a prediction that was validated in a Drosophila cell line.