Go Back   SEQanswers > Bioinformatics > Bioinformatics

Similar Threads
Thread Thread Starter Forum Replies Last Post
CisGenome Issue Nicholas_ Bioinformatics 0 10-10-2011 01:24 AM
quantitative measure of coverage and reference genome issue sara_ General 1 03-14-2011 07:37 PM
low 454 coverage combined with high solexa coverage strob Bioinformatics 7 10-07-2010 10:14 AM
Samtools pileup coverage issue colindaven Bioinformatics 2 06-11-2010 07:49 AM
trimming issue malatorr 454 Pyrosequencing 3 01-25-2010 11:16 PM

Thread Tools
Old 03-18-2009, 10:17 PM   #1
Junior Member
Location: india

Join Date: Feb 2009
Posts: 9
Default Coverage issue

I have a small query regarding the whole genome re-sequencing of a human genome using SOLiD system from ABI. We have very little amount of DNA and we are able to only make 2 mate pair libraries form it(25 microgram each). Our main interest is to detect genetic variations. We are planning to run 4 slides from one library,pulling it form 8 ePCRs(we will club 2 ePCR products to make one slide) so that we utilize maximum number of beads. We are expecting 8x-10x coverage after running both the libraries. Now I would like to know, is is sufficient coverage to determine true variants and other variation like indel? If it is sufficient coverage what is suggested threshold to call SNPs?
hersh is offline   Reply With Quote

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 11:13 AM.

Powered by vBulletin® Version 3.8.9
Copyright ©2000 - 2020, vBulletin Solutions, Inc.
Single Sign On provided by vBSSO