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Protein Protein Interaction Prediction For Orthologue Proteins

Hi all, What are the existing methods (stand alone tools) available for protein protein interaction prediction for orthologue proteins ? I know that STRING has some interaction data from homology modeling and I am working on a species with very little interaction data, so I did not have much success with any other databases. For ppi prediction from orthologs I came across this perl module and InteroPorc stand alone tool. But does someone has any other suggestions or experience with such stand alone tools for ppi prediction for orthologs ?

Thank you

ppi
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updated by Paul Denny • Paul Denny • written by Sudeep Sudeep

2 answers

Try Perl module described in this paper: "Bio::Homology::InterologWalk - A Perl module to build putative protein-protein interaction networks through interolog mapping" http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3161927/?tool=pubmed It accepts as input a list of Ensembl gene accession numbers from any of the vertebrate or metazoan genomes in Ensembl, which includes Bos taurus.

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written by Paul Denny • Paul Denny

Homologous pairs of protein interactions across different organisms are called as interologs.

Information about interologs will enable annotation transfer between genomes and may also help to derive evolutionarily conserved interaction modules.

Please check following databases:

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written by Khader Shameer Khader Shameer

Thank you (for the articles and databases). Interolog/Regulog Database is only dealing with "model organisms", so I am leaving that out completely.

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written by Sudeep Sudeep

its actually cattle

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written by Sudeep Sudeep

That's a vague description for an "organism" name in the context of biological. Can you please give the species/sub-species name ?

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written by Khader Shameer Khader Shameer

to define it clearly it is Bos taurus (or commonly cattle)

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written by Sudeep Sudeep

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