SEQanswers

Go Back   SEQanswers > Applications Forums > RNA Sequencing



Similar Threads
Thread Thread Starter Forum Replies Last Post
How to identify the contamination of the genome from the RNA seq data? tianyub836 Bioinformatics 17 03-03-2013 09:44 PM
RNA-Seq: SOAPsplice: Genome-Wide ab initio Detection of Splice Junctions from RNA-Seq Newsbot! Literature Watch 0 02-04-2012 03:00 AM
RNA-seq assembly and reference genome lfaino Bioinformatics 3 04-13-2011 08:05 AM
RNA-Seq: ENCODE whole-genome data in the UCSC genome browser (2011 update). Newsbot! Literature Watch 1 11-24-2010 02:08 PM
RNA-Seq: Scaffolding a Caenorhabditis nematode genome with RNA-seq. Newsbot! Literature Watch 0 10-29-2010 03:00 AM

Reply
 
Thread Tools
Old 10-24-2010, 12:56 AM   #1
dror
Member
 
Location: T"A

Join Date: May 2010
Posts: 18
Default RNA-SEQ with no genome

Can i do RNA SEQUENCING without having the genome?
dror is offline   Reply With Quote
Old 10-24-2010, 01:42 AM   #2
kopi-o
Senior Member
 
Location: Stockholm, Sweden

Join Date: Feb 2008
Posts: 319
Default

Yes, you can.
kopi-o is offline   Reply With Quote
Old 10-24-2010, 01:53 AM   #3
dror
Member
 
Location: T"A

Join Date: May 2010
Posts: 18
Default

Can you recommend me where to begin?
dror is offline   Reply With Quote
Old 10-24-2010, 01:58 AM   #4
kopi-o
Senior Member
 
Location: Stockholm, Sweden

Join Date: Feb 2008
Posts: 319
Default

It's hard to be specific without knowing what you want to do, but generic advice wouild be to start by reading this review paper:

http://www.ncbi.nlm.nih.gov/sites/en...earch=19015660

Then go on to more specialized papers, or search this forum, for more information about "transcriptome assembly".
kopi-o is offline   Reply With Quote
Old 10-24-2010, 07:01 AM   #5
protist
Senior Member
 
Location: Ireland

Join Date: Jan 2009
Posts: 101
Default RNA-SEQ with no genome

Two recent papers discuss methodology and strategy:

De novo assembly and analysis of RNA-seq data - Nature Methods 2010
http://www.nature.com/nmeth/journal/...meth.1517.html

and a News & Views Article from Nature Biotechnology 2010
Advancing RNA-Seq analysis - New methods for analyzing RNA-Seq data enable de novo reconstruction of the transcriptome
http://www.nature.com/nbt/journal/v2...t0510-421.html
protist is offline   Reply With Quote
Old 10-26-2010, 06:36 AM   #6
dror
Member
 
Location: T"A

Join Date: May 2010
Posts: 18
Default

thanks mates!
dror is offline   Reply With Quote
Reply

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 12:10 AM.


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