PINOT: an intuitive resource for integrating protein-protein interactions.

Cell Communication and Signaling : CCS
James E TomkinsClaudia Manzoni

Abstract

The past decade has seen the rise of omics data for the understanding of biological systems in health and disease. This wealth of information includes protein-protein interaction (PPI) data derived from both low- and high-throughput assays, which are curated into multiple databases that capture the extent of available information from the peer-reviewed literature. Although these curation efforts are extremely useful, reliably downloading and integrating PPI data from the variety of available repositories is challenging and time consuming. We here present a novel user-friendly web-resource called PINOT (Protein Interaction Network Online Tool; available at http://www.reading.ac.uk/bioinf/PINOT/PINOT_form.html) to optimise the collection and processing of PPI data from IMEx consortium associated repositories (members and observers) and WormBase, for constructing, respectively, human and Caenorhabditis elegans PPI networks. Users submit a query containing a list of proteins of interest for which PINOT extracts data describing PPIs. At every query submission PPI data are downloaded, merged and quality assessed. Then each PPI is confidence scored based on the number of distinct methods used for interaction detection and the number o...Continue Reading

References

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Citations

May 4, 2021·Annals of Neurology·Dongbing LaiTatiana Foroud
May 23, 2021·Neurobiology of Disease·James E Tomkins, Claudia Manzoni

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Methods Mentioned

BETA
Profiler
two-hybrid
imaging techniques

Software Mentioned

Linux
Protein Interaction Network Online Tool ( PINOT )
STRING
MIST
Molecular Interaction Search Tool ( MIST
Cytoscape
HIPPIE
Proteomics Standard Initiative Common Query Interface ( PSICQU...
: Profiler
Human Integrated Protein - Protein Interaction Reference ( HIPPIE

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