we identified multiple mutations (vus) in human genes that we believe have a protecting effect against cancer.
is there any database or web tool that can be used to detect the function (and generate survival curves) of VUS in cancer patients? for example by generate survival curves of people harboring the mutation?
Hi
what you can do is to analyze the prediction consequences of each variants (with soft as SIFT...) and construct pseudo haplotypes for each of your patients, following them in the time build curves. but I can't see how you could predict survival curves.
fred
Depending on the prevalence of the mutations, you could check the TCGA database. However: If you want to get information about germline variants of the respective patients you need to apply for access (since this part is restricted). I've never gone through this process but I've heard people complaining about the length and amount of work. But ultimately you should get survival data and the respective germline data.
This might be your starting point: https://gdc.cancer.gov/
Thank you Frederic Lepretre and Peter Ulz for the answers !!
we are still try to figure out how to handle all the predictions we have
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