Hello All,
I am hoping to work on publicly-available cell lines with the IC50 data in order to generate biological hypotheses based on the specific genetic abnormalities of the cancer cell lines.
I want to generate hypothesis or build a model which suggests a particular genetic mutations/changes linked to disease and IC50 data has some role in it.
Kindly let me know if any process available or any method for doing this work. I appreciate any suggestions.
Thanks a lot for your valuable time and Help.
-Ateeq Khaliq
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written
by
David_emir
1 answer
A bit of off-topic, but a very interesting paper on your question: Inconsistency in large pharmacogenomic studies. So basically you need not only a high number of cell lines, but reproducible IC50 data for each cell line. The paper also contains references to datasets.
Good luck!
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written
by
mikhail.shugay
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the data is from gene expression profile of cell line panel (CCLE) (h133...) Affy platform
A simple approach is to compare presence/absence of mutation to IC50 on a per-gene basis. This will not get you far, but you will likely find the true positives (eg., BRAF and vemurafenib).