Hello fellow bioinformatics enthusiasts,
I am currently working on a project that requires information on the genetic background of commonly used human cell lines, such as HEK293, Jurkat, K562, and others. I am in search of a well-curated and well-annotated database that would provide me with detailed information on key oncogenes (e.g., P53, KRAS) and their mutational status, as well as other relevant genetic characteristics, like homozygosity, ploidy, and so on.
I am aware that the DepMap (Cancer Dependency Map) project is an obvious answer, but I have checked their latest release and, unfortunately, did not find the level of detail I am looking for.
Specifically, I am interested in the following information:
- Mutations in key oncogenes and tumor suppressor genes, along with their zygosity (homozygous or heterozygous).
- Ploidy of the cell line and any associated chromosomal aberrations.
- Other relevant genetic alterations that might influence the behavior of the cell line or its response to experimental treatments.
- Any additional metadata or annotations that would aid in the interpretation of the genetic data, such as growth characteristics or known functional consequences of the mutations.
I would greatly appreciate it if you could point me towards any databases, resources, or tools other than DepMap that could provide this level of detail for the cell lines I mentioned, or any others that are commonly used in biomedical research. If you have any tips or recommendations on how to approach this, please feel free to share them as well.
Thank you in advance for your help!
Have you looked at
cellosaurus(LINK)?