Question: How to interpret the eQTLs in cancer
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gravatar for darklings
21 months ago by
darklings90
darklings90 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 • 786 views
ADD COMMENTlink modified 9 months ago by cao5109270 • written 21 months ago by darklings90

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 9 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 9 months ago by darklings90
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