Protein-protein interaction and pathway databases, a graphical review

Brief Bioinform. 2011 Nov;12(6):702-13. doi: 10.1093/bib/bbq064. Epub 2010 Sep 17.

Abstract

The amount of information regarding protein-protein interactions (PPI) at a proteomic scale is constantly increasing. This is paralleled with an increase of databases making information available. Consequently there are diverse ways of delivering information about not only PPIs but also regarding the databases themselves. This creates a time consuming obstacle for many researchers working in the field. Our survey provides a valuable tool for researchers to reduce the time necessary to gain a broad overview of PPI-databases and is supported by a graphical representation of data exchange. The graphical representation is made available in cooperation with the team maintaining www.pathguide.org and can be accessed at http://www.pathguide.org/interactions.php in a new Cytoscape web implementation. The local copy of Cytoscape cys file can be downloaded from http://bio.icm.edu.pl/~darman/ppi web page.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Binding Sites
  • Computational Biology
  • Databases, Factual*
  • Databases, Protein
  • Protein Interaction Mapping
  • Proteins / chemistry*
  • Proteins / metabolism
  • Proteomics / methods*
  • User-Computer Interface

Substances

  • Proteins