Question: Clinical Data Analysis, Should compared with Normal tissue?
0
gravatar for bxia
2.8 years ago by
bxia140
bxia140 wrote:

Just curious about how to compare RNA-seq data from clinical patient.

I saw an old tutorial post, which transform all data to Z-score,

Just curious, based on that conversion, we are looking at def expression genes with normal tissue, not the gene with high expression or low expression within the tumor sample.

Is it a standard that all the data should be normalized with their control sample?

Thanks

rna-seq • 793 views
ADD COMMENTlink modified 2.8 years ago • written 2.8 years ago by bxia140

It's very rare to compare RNA-seq data using Z-scores for the purposes of differential expression. Typically you'd use DESeq2, edgeR or voom (or one of a number of other similar tools), for which the input is raw read counts

ADD REPLYlink written 2.8 years ago by russhh4.3k
0
gravatar for bxia
2.8 years ago by
bxia140
bxia140 wrote:

And when we define a type cancer, let's say ER+, the conclusion we drew is solely from tumor sample, not comparison, right? Then in this case, why should we transform the data to Z-score.

ADD COMMENTlink written 2.8 years ago by bxia140
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1589 users visited in the last hour