This is a test version of Biostars. For the public version, visit https://www.biostars.org.
Edge Weighting Methods In Protein-Protein Interactions

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

ppi graphs graph protein
• 3,741 views • link
updated by Alex Paciorkowski Alex Paciorkowski • written by Woa Woa

2 answers

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.

• 0 views • link
written by Larry_Parnell Larry_Parnell

Thanks Larry for the ref.

• 0 views • link
written by Woa Woa

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.

• 0 views • link
written by Alex Paciorkowski Alex Paciorkowski

Thanks Alex !!!

• 0 views • link
written by Woa Woa

Log in to answer this question.

More posts like this