Question: project tophits onto a public PPI (protein-protein interaction) dbase to identify neighbours
gravatar for Abhishek Pratap
3.0 years ago by
United States
Abhishek Pratap170 wrote:

I want to project the identified tophits genes(RNA-Seq) and proteins(proteomics MS/MS) onto a network of protein-protein interaction dbase and zoom into regions that are 1-2 degree away from our search proteins.  I am pretty positive this should be a solved problem in BioC space. Before I spend too much time I thought I will check here.

What have I done so far?

1. got the dbase of PPI from . Is there a better and updated resource for human PPI

2. explored igraph package for doing the analysis. However, I did not find tutorials that showed how to search a giant PPI network for some proteins and zoom into sub-network 1-2 degrees from search proteins.

Appreciate any pointers. 


PS: I posted a similar question on biostars


network analysis igraph ppi • 392 views
ADD COMMENTlink modified 3.0 years ago • written 3.0 years ago by Abhishek Pratap170
Please log in to add an answer.


Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 16.09
Traffic: 129 users visited in the last hour