Subnetwork analysis on proteomics data
<p>Background: I have proteomics data from seven samples (pvalue/ log-score of fold change), I want to analyze the data by network (interactome) analyses. </p>

<p>Question: I like to create an interactome of all the proteins from the data, and map the proteins to this network that have significant pvalue (compare to control), 
after that I like to create subnetwork(s); also like to add the pathways enrichments to the subnetwork(s).</p>

<p>Request: please suggest online or standalone tools (or algorithm) that fits my requirements. </p>

<p>Thanks ! </p>

<p>For creating network graphs to represent your protein-protein interactions, I would recommend taking a look at the <a href="https://networkx.github.io" rel="nofollow">networkx</a> library. You can use it to pass in some nodes (proteins of interest) and edges (interactions) and generate a graph. I believe that it can also generate subnetworks of these graphs as well.</p>

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