SEQanswers

Go Back   SEQanswers > Bioinformatics > Bioinformatics



Similar Threads
Thread Thread Starter Forum Replies Last Post
Database of tumor-normal reads desmo Bioinformatics 2 03-27-2014 11:21 AM
Detection of somatic mutations in normal & tumour paired NGS data Jane M Bioinformatics 16 10-11-2013 10:49 AM
UnifiedGenotyper between tumor and normal kasthuri Bioinformatics 3 07-21-2012 09:47 AM
Paired-sample (tumor/normal) somatic mutation detection software alexischr Bioinformatics 1 04-14-2011 05:56 AM
known indel database for detecting somatic lesions in tumor csoong Bioinformatics 0 01-05-2011 09:04 AM

Reply
 
Thread Tools
Old 05-12-2012, 04:38 AM   #1
pravee1216
Member
 
Location: India

Join Date: Aug 2010
Posts: 35
Default Somatic mutation profiling from 454 tumor-normal paired data

Hello All,

I would be interested to do somatic mutation discovery from 454 tumor-normal paired data. Since I have handled many projects on Illumina and SOLiD project on the same requirements, but want to streamline the pipeline for 454, as the longer reads should be perfectly aligned and variants called with less false positives. I have seen BWA-sw+samtools+varscan/somaticsnipper/Joint-snvmix is one approach. But I would like to know from all what's your suggestion(s) on this. (Unfortunately I dont have access to GS Mapper s/w otherwise it would have been a nice option for mapping)

Best,

Praveen.
pravee1216 is offline   Reply With Quote
Reply

Tags
somatic 454 tumor variant

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 12:06 AM.


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