What’s the answer? (tumor suppressor/oncogene databases)

BioStar is a site for asking, answering and discussing bioinformatics questions. We are members of the community and find it very useful. Often questions and answers arise at BioStar that are germane to our readers (end users of genomics resources). Every Thursday we will be highlighting one of those questions and answers here in this thread. You can ask questions in this thread, or you can always join in at BioStar.

This week’s highlighted question (abbreviated):

Database of tumor suppressors and/or oncogenes

Does anyone know of a good source of human genes that act as a tumor suppressor or oncogene? The source can be a database or data mining approach that queries a more general database.

Some possible features of a ‘good’ source:

  • More than just a list of ‘cancer genes’. One abstract with the name of the gene and the word cancer in it does not make it a convincing cancer gene. But a more sophisticated text-mining based approach would be acceptable
  • The gene will be annotated as a tumor suppressor or oncogene with additional information on how this classification is justified
  • Other relevant annotation such as whether the gene is involved in DNA repair, apoptosis, etc.
  • Up to date. A spreadsheet from 10 years ago is less useful than a routinely updated source.
  • Free and open source. Although if you know of commercial options please suggest them.


The original poster added a few that they had found, so the question is longer–but I want to lure you over to BioStar to have a look at those. And please join us over there if you have other good suggestions. We’ve heard a number of requests for cancer databases and resources in the workshops we do.