PINA v2.0: mining interactome modules
By M. Cowley, M. Pinese, K. Kassahn, N. Waddell, J. Pearson, Sean M. Grimmond, A. Biankin, S. Hautaniemi, Jianmin Wu. Nucleic Acids Res., 2011
350 citations recorded by the source corpus.
The Protein Interaction Network Analysis (PINA) platform is a comprehensive web resource, which includes a database of unified protein–protein interaction data integrated from six manually curated public databases, and a set of built-in tools for network construction, filtering, analysis and visualization. The second version of PINA enhances its utility for studies of protein interactions at a network level, by including multiple collections of interaction modules identified by different clustering approaches from the whole network of protein interactions (‘interactome’) for six model organisms. All identified modules are fully annotated by enriched Gene Ontology terms, KEGG pathways, Pfam domains and the chemical and genetic perturbations collection from MSigDB. Moreover, a new tool is provided for module enrichment analysis in addition to simple query function. The interactome data are also available on the web site for further bioinformatics analysis. PINA is freely accessible at http://cbg.garvan.unsw.edu.au/pina/.
Subfields: Molecular Biology
View Paper: https://www.semanticscholar.org/paper/b461751452e6b4bb6de8786953a77d1e891fe75b
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Citations in the corpus
- Drug repositioning: a machine-learning approach through data integration (2013, methodology): “To cope with the scarce granularity of this measure, we also defined a finer dissimilarity measure KTAR based on on the PPI database [40,41] as follows.”
- Structure and dynamics of molecular networks: A novel paradigm of drug discovery: A comprehensive review (2012, background): “…interaction and signaling data http://PathwayLinker.org Farkas et al., 2012 PINA Interactome analysis http://cbg.garvan.unsw.edu.au/pina Wu et al., 2009b; Cowley et al., 2012 PIPs Human protein–protein interaction prediction http://www.compbio.dundee.ac.uk/www-pips McDowall et al., 2009…”