Go Back   SEQanswers > Applications Forums > RNA Sequencing

Similar Threads
Thread Thread Starter Forum Replies Last Post
Detection of somatic structutal variants in paired genome data Jane M Bioinformatics 2 06-05-2014 02:05 PM
Detection of somatic mutations in normal & tumour paired NGS data Jane M Bioinformatics 16 10-11-2013 10:49 AM
Can VarScan be used to find out Somatic Mutations in RNA seq Data ? swapnil2188 RNA Sequencing 1 12-10-2012 08:13 AM
Somatic mutation profiling from 454 tumor-normal paired data pravee1216 Bioinformatics 0 05-12-2012 04:38 AM
Paired-sample (tumor/normal) somatic mutation detection software alexischr Bioinformatics 1 04-14-2011 05:56 AM

Thread Tools
Old 08-29-2017, 02:31 AM   #1
Junior Member
Location: Uppsala, Sweden

Join Date: Mar 2017
Posts: 4
Default detection of somatic mutations using RNA seq data for tumor samples paired with WES

i have WES data for normal and I have RNA seq only for tumor. I want to use the RNA seq data to detect somatic driver mutations and I want to pair it with the normal WES data in order to be able to effectively filter the false positive somatic mutations. Is there a way to do that ? I have read a few method papers that use RNA seq for detection of somatic mutations but it is either that the RNA seq has paired normal and tumor samples or the others use unpaired RNA seq data to detect somatic mutations but I haven't found any paper which paired tumor and normal samples using RNA seq and WES data so I don't know if thats possible or not.
SaraYones is offline   Reply With Quote
Old 08-29-2017, 10:53 AM   #2
Brian Bushnell
Super Moderator
Location: Walnut Creek, CA

Join Date: Jan 2014
Posts: 2,707

It's certainly possible, to an extent. Call variations in WES, call variations in RNA-seq, subtract WES mutations from RNA-seq mutations, and look at what's left. You'll miss a lot due to the uneven expression of RNA, but then, you miss 98% of mutations already with WES.
Brian Bushnell is offline   Reply With Quote

rna-seq, somatic mutations, wes

Thread Tools

Posting Rules
You may not post new threads
You may not post replies
You may not post attachments
You may not edit your posts

BB code is On
Smilies are On
[IMG] code is On
HTML code is Off

All times are GMT -8. The time now is 12:38 AM.

Powered by vBulletin® Version 3.8.9
Copyright ©2000 - 2021, vBulletin Solutions, Inc.
Single Sign On provided by vBSSO