SEQanswers

Go Back   SEQanswers > Bioinformatics > Bioinformatics



Similar Threads
Thread Thread Starter Forum Replies Last Post
SOLiD Accuracy Enhancement Tool (SAET) multicore and ref genome size questions KevinLam Bioinformatics 11 08-31-2012 09:54 AM
Ovation RNA-Seq kit with SOLiD? phiS SOLiD 2 03-01-2012 09:15 AM
Custom SOLID Adapters for RNA-Seq nbogard SOLiD 2 12-01-2011 07:19 PM
where can I get ref seq hg18 culmen Bioinformatics 2 07-20-2010 01:28 PM
SOCS: Efficient mapping of Applied Biosystems SOLiD sequence data to a ref genome... ECO Literature Watch 0 10-20-2008 08:53 PM

Reply
 
Thread Tools
Old 06-02-2010, 08:45 PM   #1
KevinLam
Senior Member
 
Location: SEA

Join Date: Nov 2009
Posts: 203
Default what can be done with micro rna seq from SOLiD of an organism with no ref?

Out of curiosity,
what can be done with micro rna seq from SOLiD of an organism with no reference?
Not very well acquainted with the field. But I presume the SOLiD 50bp is more than enough to cover the mature seq of the micro RNA.

without a reference genome, Can I still run microRNA prediction programs to verify the authencity?

can I still try to map this miRNA to a closely related species?

given that this is a novel organism, I guess any info is good enough so I probably can escape with sequencing at low coverage? (for discovery of 'novel' miRNA)

food for thought.
KevinLam 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 10:05 AM.


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