From Where Can One Download Protein Known Clusters?

Question

[Sirus]

Hello every body. I have a Y11K protein-protein interaction network and I have used some methods to cluster it, I want to compare it with some known clusters to see the number of exact matches, could any one point me from where can I download them.

Thanks in advance.

[User 59]

It's not clear what you want to do. Are you interested in topologically similar clusters? Overlaps with other clusters?

[Sirus]

I am interested in the overlap with other clusters, I mean with known clusters

Answer 1

[Spitshine]

Conceptually, clusters in protein-protein interaction networks, particular of physical interactions, are protein complexes.

For yeast data, you can find a good dataset starting in this paper from the Wodak group.

The reference for human data is probably HPRD these days.

[Sirus]

Are there other sources?

[Spitshine]

What do you mean, other sources? Different organisms, experimental information, other reference data sets, reference methods for clustering (MCL)?

[Sirus]

Yeah, I mean other organizmes data sets and may be other Yeast complexes resources.