Question: Somatic Mutations In Microrna Genes
0
gravatar for nro
6.6 years ago by
nro0
nro0 wrote:

HI,

I have matched tumor-normal samples for targeted sequencing of miRNAs. I wanted to know what are the best filters that I can use to call somatic mutations? What I have planned is, 1. Intersect with germline mutations to retain somatic calls 2. subtract 1000 genomes data 3. Prioritize based on position in miRNA 4. Find out recurrence across samples.

I was wondering, 1. Are their any more filters for biological annotations? 2. What is the best way to get rid of polymorphisms?

Thanks

somatic mirna • 2.2k views
ADD COMMENTlink modified 6.6 years ago by Chris Miller21k • written 6.6 years ago by nro0
2
gravatar for Chris Miller
6.6 years ago by
Chris Miller21k
Washington University in St. Louis, MO
Chris Miller21k wrote:

You should probably use a somatic mutation caller, rather than calling tumor and normal separately, then trying to filter out germline events. Varscan, Somatic Sniper, GATK, Strelka, and many other tools will do this.

ADD COMMENTlink written 6.6 years ago by Chris Miller21k
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