Question: How to interpret the eQTLs in cancer
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gravatar for darklings
2.2 years ago by
darklings200
darklings200 wrote:

According to the paper PancanQTL: systematic identification of cis-eQTLs and trans-eQTLs in 33 cancer types, they conducted the eQTL mapping using RNA-seq and genotype data from TCGA.

I am a bit confused about the meaning of cancer eQTL. I know that an eQTL is a locus that explains a fraction of the genetic variance of a gene expression phenotype, so the eQTLs identified from cancer (and normal?) samples are the loci that may lead to gene expression disturbance during tumor transformation and development?

eqtl snp rna-seq tcga • 913 views
ADD COMMENTlink modified 15 months ago by cao5109270 • written 2.2 years ago by darklings200

i think you are right. The paper used the tumor and matched normal data to identify somatic mutation and evaluated the effects on the tumor sample gene expression.

ADD REPLYlink written 15 months ago by cao5109270

Oh wow thanks, now I am a bit confused about why I asked this question at that time...

ADD REPLYlink written 15 months ago by darklings200
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