Protein-protein interaction databases

From OpenWetWare
Revision as of 02:08, 23 September 2011 by Jakob Suckale (talk | contribs)
Jump to: navigation, search
Name Description Link
String 3stars.png database of experimental and predicted interactions
IntAct 2stars.png interactions derived from literature curation or direct user submissions
MIPS 0stars.png Mammalian Protein-Protein Interaction Database (didn't work when tested in Sept '11)
cell 1 cell 2 cell 3
cell 1 cell 2 cell 3
cell 1 cell 2 cell 3


  • collects evidence from genomic Context, high-throughput experiments, conserved coexpression, and text mining
  • created by CPR, EMBL, SIB, KU, TUD, and UZH
  • latest references: [1], [2]

Opinion: easy to use, great graphical interaction map, detailed explanation of evidence


  • data from the literature or from direct data depositions by expert curators
  • <300k binary interactions in 2011
  • developed by the EBI's Proteomics Services Team

Opinion: The default is an oversized results table (>2 screen widths on a 13"). Use "Change table presets" to compact. Separate columns for links/alias/pubID could be integrated or hover over to make the default table easier on the eye. Overall, the presentation of results seems to be more geared towards bioinformaticians than users with the table full of codes instead of names (Do you know what 9606 is?). Also, no easy species selection and, more importantly, no graphical overview.

See also

On OpenWetWare

  • The Prince lab present on OWW works on protein-protein interactions.
  • OWW's Keating lab also works on protein-protein interactions.

Related literature searches

  • search PubMed for MeSH term Protein Interaction Mapping [3], major topic [4], and reviews only [5]

Recent reviews: