Question: Patterns within groups with RNA-seq
gravatar for gaiusjaugustus
2.3 years ago by
United States
gaiusjaugustus170 wrote:

I have RNA-Seq data from patients with different stage cancer, and have done a differential expression analysis comparing stages to each other and stages to normal tissue.

However, what I'd like to do is look for expression signatures WITHIN one stage (late stage) of the cancer.

Any suggestions for the best way to do this?

Thanks in advance for any help.

rna-seq chip-seq • 725 views
ADD COMMENTlink modified 2.3 years ago by Hussain Ather940 • written 2.3 years ago by gaiusjaugustus170
gravatar for Hussain Ather
2.3 years ago by
Hussain Ather940
National Institutes of Health, Bethesda, MD
Hussain Ather940 wrote:

Is there a way to divide up the late stage into different categories and find the differential expression between them?

ADD COMMENTlink written 2.3 years ago by Hussain Ather940

Yes, there is. I could divide it by certain covariates (survival, mutated genes, etc). But I want a more machine learning (clustering) sort of way that isn't limited by the covariates that I have available or think of.

ADD REPLYlink written 2.3 years ago by gaiusjaugustus170
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