I need a ppi network of cancer and it should have 200k to 300k proteins (nodes) As the web inteface don't allow more than 2000 proteins to be visualized . I have downloaded the protein_links of homosapiens from the download section . It has 11353058 link which means 11353058 interaction . The downloaded file is a .txt How do we do to extract cancer interaction from this huge set ? What are the different ways to manipulate this file .

  • $\begingroup$ I dare say it's outside of my realm to do network analyses, but I also don't believe it's possible to just say cancer and pull out a network. This is especially so since melanoma will differ widely from renal-cell carcinoma, lung cancer and so forth. Perhaps this paper will help you (ref). $\endgroup$ – CKM May 24 '17 at 19:31
  • $\begingroup$ Actually I don't really care about the type of cancer ,as far as I'm concerned with the data , the amount of data I need a network of 200k of whatever type of cancer or any other disease from that file that's all I'm asking for And thank you for the paper @CMosychuk $\endgroup$ – A M May 24 '17 at 19:42
  • $\begingroup$ It is more of data necessity than it is of biological , proteomics need $\endgroup$ – A M May 24 '17 at 19:43

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