Question

Methods For Identifying If Set Of Genes Is Enriched For Protein-Protein Interactions?

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11.1 years ago

tulipmania ▴ 30

Hi,

Does anyone know of any tools and/or methods for identifying if set of genes is enriched for protein-protein interactions?

So, given a list of all "known" protein-protein interactions in a genome and a subset of genes from the genome- what is the chance that this subset has X or more protein-protein interactions than would be expected by chance alone?

ppi interaction enrichment clustering • 2.7k views

ADD COMMENT • link updated 7.8 years ago by Biostar 20 • written 11.1 years ago by tulipmania ▴ 30

score 3 · Answer 1 · 2013-04-16

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11.0 years ago

mlongo ▴ 40

One online tool is http://www.bioprofiling.de/.

ADD COMMENT • link 11.0 years ago by mlongo ▴ 40

score 3 · Answer 2 · 2013-06-10

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10.9 years ago

enunvillafer ▴ 100

hi, you can use DAVID tool

ADD COMMENT • link 10.9 years ago by enunvillafer ▴ 100

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I use DAVID quite a bit (http://david.abcc.ncifcrf.gov/) and find it quite effective. Not the most statistically rigorous method out there but great for exploratory analyses and hypothesis generation I think. Also allows for more than just PPI's but also Pathways, GO term enrichment, etc.

ADD REPLY • link 10.9 years ago by DG 7.3k