I'm working on Protein complex detections on human PPI network. Kindly suggest where to find flat files containing protein complexe benchmarks. CORUM doesn't provide flat files with all complexes.
Eg. a file containing protein complexes where each row is a complex and contain the collection gene names that corresponds to the complex. Like those available in SGD, MIPS databases etc
such as: YGR216C YDR437W YPL175W YPL096C-A YNL038W YPL076W YIL071C YOL117W YMR025W YDR179C YDL216C YJR084W
•
written
by
keretsu •
2 answers
Look at Reactome data here. The protein-protein interaction data has interaction types including direct complex and indirect complex. Check the definitions in the associated README file.
There are more dbs:
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3521179/
This one is probably the same as above:
PCDq_Human_protein_complex_database_with_quality_index_which_summarizes_different_levels_of_evidences_of_protein_complexes_predicted_from_H-Invitational_protein-protein_interactions_integrative_datase
Or this one:
Log in to answer this question.
IntAct Molecular Interaction Database at the EMBL-EBI provides access to publicly available interaction data. Perhaps they would provide the files you are after? Check their FTP or contact them for more details.