Protein-Protein Interactions, Networks and Pathways - Chagall

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Reliability of PPI• PPI interactions are identified by variousexperimental techniques with varying degreesof accuracies.• High-throughput interactions are inherently‘noisy’. Large variations betweenexperiments, sparse overlap with knowninteractions.• Many abundant ‘sticky’ proteins (e.gRibosome, chaperones).• Experimental techniques are continuouslyimproving. New datasets are more reliable.• References - vonMering et al., 2002; Sprinzak et al., 2003;Bader et al. 2002; Siato et al., 2003; Jansen et al.; 2003, Denget al.; 2003; Bader et al., 2004; Gandhi et al.,2006 and more…
How to assess reliability?• Repeated observations by multiple experimentsby different groups by different techniques.Limitation: interactions are not likely to bepublished twice, especially by the sametechnique.• Similar annotation - Similar GO Biologicalfunction (with some limitation), similar cellularcompartment.• Correlated gene expression profile.• Genetic interactions - Suppressions, syntheticlethality.• Homologous interaction - homologous interactingin other species.• Network characteristics and neighboringinteractions.
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Protein-Protein Interactions, Networks and Pathways - Chagall

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