I need to obtain RNA sequence datasets for my project. The datasets should include P21 mutation, knockout and wild type in any Colon Cancer cell lines, Preferably in the same study. I'm not sure if this particular datasets would even exist. I have looked into SRA for the datasets thoroughly, I failed to find an appropriate one for my analysis. Is there any other database I should look into? Thanks for the help.

  • 1
    $\begingroup$ Hi there, how do you know that such dataset exist? Have you tried to take a look in SRA? You can edit your question to add all the details, we like details :-). $\endgroup$ – Kamil S Jaron Feb 25 '19 at 9:28
  • $\begingroup$ @KamilSJaron thanks for the reply, I have edited the post as you suggested $\endgroup$ – user4173 Feb 27 '19 at 4:22
  • 1
    $\begingroup$ I don't have an answer, but I would recommend searching for a publication rather for data. Not all data is publicly available, I guess this will be twice the case in the competitive cancer world. Then you can contact the corresponding author. Alternatively, you can look for a mouse dataset instead of cell line data (they have all sorts of knockouts). And finally, I am not sure if there is anything like wt cancer, it's always somehow damaged, isn't it? $\endgroup$ – Kamil S Jaron Feb 27 '19 at 8:01
  • $\begingroup$ Maybe you have some reference article that you can look up or look for other groups working on similar areas to see what have they published. Did you look at the TCGA dataset? I think there is the colon cancer type, but I'm not sure if they have any sample with a P21 mutation as the samples come from humans. Also when you say knockout you refer to mouse, or rat or other animals? $\endgroup$ – llrs Feb 27 '19 at 8:15
  • $\begingroup$ @KamilSJaron I'll look into what you said, and I meant a cancer cell line with a wild type P21. Thank you $\endgroup$ – user4173 Feb 28 '19 at 3:32

Your Answer

By clicking “Post Your Answer”, you agree to our terms of service, privacy policy and cookie policy

Browse other questions tagged or ask your own question.