Question: Edge Weighting Methods In Protein-Protein Interactions
gravatar for Woa
8.7 years ago by
United States
Woa2.8k wrote:

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.



ppi protein graph graphs • 2.0k views
ADD COMMENTlink written 8.7 years ago by Woa2.8k
gravatar for Larry_Parnell
8.7 years ago by
Boston, MA USA
Larry_Parnell16k wrote:

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.

ADD COMMENTlink written 8.7 years ago by Larry_Parnell16k

Thanks Larry for the ref.

ADD REPLYlink written 8.7 years ago by Woa2.8k
gravatar for Alex Paciorkowski
8.6 years ago by
Rochester, NY USA
Alex Paciorkowski3.4k wrote:

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.

ADD COMMENTlink written 8.6 years ago by Alex Paciorkowski3.4k

Thanks Alex !!!

ADD REPLYlink written 8.6 years ago by Woa2.8k
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