SEQanswers

Go Back   SEQanswers > Sequencing Technologies/Companies > Illumina/Solexa



Similar Threads
Thread Thread Starter Forum Replies Last Post
Do I need to change tophat parameter if reads length distribution is odd? super0925 RNA Sequencing 6 08-20-2014 03:42 PM
< Script to compute distribution length of sequences > Giorgio C Bioinformatics 8 08-23-2012 02:29 AM
Illumina fragment length distribution delphi_ote Genomic Resequencing 3 05-18-2012 01:59 AM
Plotting length distribution of contigs? kga1978 Bioinformatics 2 01-16-2012 01:22 AM
Chromosome distribution of RNA seq data lintianfeng Bioinformatics 1 09-30-2011 07:05 AM

Reply
 
Thread Tools
Old 08-19-2014, 06:55 PM   #1
leejimmy93
Junior Member
 
Location: Auburn

Join Date: Apr 2012
Posts: 9
Default abnormal length distribution of small RNA data

Hi everyone,

I have six libraries of small RNA sequences from illumina platform, among them 5 show normal length distribution (24nt sRNAs are the most abundant followed by 21, 22, and 23nt sRNAs, while the rest very short (17-20nt) and longer ones (25-28nt) are of low abundance) after mapping to reference genome sequences and removing rRNA, tRNA, snoRNA, and snRNA sequences. But one library show abnormal length distribution, with 17nt sRNAs as the most abundant ones and less and less abundant as their length increase. Has anyone ever seen such length distribution for sRNAs? If I still want to use this library for differential expression especially miRNAs, dose anyone have any idea of how to normalize the data?
Length distribution of the one sRNA library attached below
Attached Files
File Type: pdf Untitled.png copy.pdf (214.9 KB, 15 views)

Last edited by leejimmy93; 08-19-2014 at 06:58 PM.
leejimmy93 is offline   Reply With Quote
Reply

Tags
length distribution, normalize, srna

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 07:41 PM.


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