How many mutations in WTSS

Stephanbio · 12-20-2010, 04:51 AM

I'm a novel student bioinformatics and I am working on a transcriptome dataset of 4 cancer patients.

I've read a lot of articles about RNA-Seq. But none of the articles explains how many mutations you typically find in Rna sequencing of humans.
I have a list of 5.000 mutations that occur in all the 4 patients at same position. (and more that only occurs in 1 or 2 patients) they spand 2000 known genes.
dataset is alreay filtered for know Snp's
Isn't that too much?? How many would you typically find ? Globally ?
can't see the wood for trees

RockChalkJayhawk · 12-20-2010, 06:50 AM

That all depends on the pipeline you used. What is your protocol for generating this SNP list?

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12-20-2010, 04:51 AM	#1
Stephanbio Junior Member Location: Netherlands Join Date: Dec 2010 Posts: 5	How many mutations in WTSS I'm a novel student bioinformatics and I am working on a transcriptome dataset of 4 cancer patients. I've read a lot of articles about RNA-Seq. But none of the articles explains how many mutations you typically find in Rna sequencing of humans. I have a list of 5.000 mutations that occur in all the 4 patients at same position. (and more that only occurs in 1 or 2 patients) they spand 2000 known genes. dataset is alreay filtered for know Snp's Isn't that too much?? How many would you typically find ? Globally ? can't see the wood for trees Last edited by Stephanbio; 12-20-2010 at 05:17 AM.

12-20-2010, 06:50 AM	#2
RockChalkJayhawk Senior Member Location: Rochester, MN Join Date: Mar 2009 Posts: 191	That all depends on the pipeline you used. What is your protocol for generating this SNP list?