Edge Weighting Methods In Protein-Protein Interactions

Question

[Woa]

Is there any comprehensive review available for the methods available for weighting edges in protein-protein interaction networks?

I know a few based on GO-similarity or clustering coefficient of the adjacent nodes etc.The methods might be different according to the purpose and I'll be more than happy if you share your methodologies.

Thanks

WoA

Answer 1

[Larry_Parnell]

I know there is some relevant work in edge weighting done by Vidal and Barabasi, but the exact citations escape me at the moment. You should look at this Vidal paper: Molecular Systems Biology 5; Article number 321; doi:10.1038/msb.2009.80 by Zhong, Simonis, et al.

[Woa]

Thanks Larry for the ref.

Answer 2

[Alex Paciorkowski]

You may already know this one -- (and already from 2006!) Brohee & van Helden's comparative study of several clustering algorithms.

Another good reference is Mason & Verwoerd's "Graph theory and networks in biology". However, I'm surprised there hasn't been a more recent review.

[Woa]

Thanks Alex !!!