Question: Compare RNAseq data and find correlation between studies
0
gravatar for ifudontmind_plzz
3.5 years ago by
Netherlands
ifudontmind_plzz110 wrote:

Hi,

I  have RNAseq data (raw read counts) from mouse lung cancer model(singe end, Formalin Fixed Paraffin Embedded). I dont have any replicates or controls. I only have few tumor samples.I would like to see if our mouse model generated from my lab show some correlation with human  lung cancer in terms of the gene expression data. I could find many Tumor-normal matched human lung cancer samples in TCGA data base. 

rna-seq tcga • 1.2k views
ADD COMMENTlink written 3.5 years ago by ifudontmind_plzz110
1

If there are no controls the comparison is very hard/impossible. Only thing I can think of is compare which genes are actually expressed above a certain threshold in both cases.

I would advise you to repeat the experiment, and include some controls

ADD REPLYlink written 3.5 years ago by roy.granit790
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