associate EBV to cancer
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23 months ago
JACKY ▴ 130

I am trying to do an analysis over Epstein Barr Virus (EBV) in R. This infection causes malignant diseases, I'm trying to associate it to some cancer type. I seek to find a gene that is required for cancer cell proliferation and/or survival.

Depmap seemed an option, I read the guide and how to use it, but I don't think it's the suitable choice for the task.

So, any suggestions for libraries in R for the job?

EBV r depmap • 479 views
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You make it sound so simple... a while back I transitioned from biotechnology to cancer diagnostics and I'm still at the tip of the iceberg in terms of understanding. If there was an option to pin down a single gene, the war on cancer had been won many years ago.

I'll reference some MSKCC resources because I used and know them

Beginning to define "some cancer" for example OncoTree lets you choose "884 tumor types from 32 tissues"

With regard to genes, feel free to choose among a curated list of 1066 genes at the time of writing

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You're right but I need to find some association, using R. The goal is not to find new groud breaking discoveries, it's for a project so any results would do.

I'm not sure how to use this OncoTree you mentioned.

Any analysis would help, whether it's depmap, cBioPortal, really anything.

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