Finding isoform expression in RNA-Seq
Hi friends
I have a big problem in my project to understand gene expression among isoforms, in fact all sequences with high similarity, I know that Tophat and Cufflink can correct them, but what's the best way to distinguish expression in isoforms? And how it could be possible?
Thanks
2 answers
If you're looking for transcript quantification and differential transcript expression, I'd consider Kallisto for the quantification (very quick), and Sleuth for modelling your differential tests.
• 0 views
•
link
updated
by
Ram
•
written
by
andrew.j.skelton73
•
written
by
andrew.j.skelton73
You might also consider Salmon or the updated Sailfish (also both very quick, and both now usable with Sleuth for modeling differential tests).
Log in to answer this question.
More posts like this
-
Can I perform differential gene expression with samples from Poly-A and Ribo-deplation ?
written by dganiewich
-
How to distinguish level of expression in pooled-like samples?
written by ahmad mousavi
-
Is it possible to analyze together rna seq outputs from cufflinks and rsem?
written by SandraGarcia •
-
Augustus gene on forward and reverse strain
written by ciemanek
-
How to treat with high mismatch reads in whole genome studies?
written by Whoknows
-
Grouping\Clustering miRNAs in non-overlapped groups
written by Na Sed
-
Guidance for a personal medicine data center
written by Whoknows
-
how to compare the expression of homology genes between different organisms?
written by wuzongze001 •
-
Problem in analyzing Rice RNA-Seq data
written by Whoknows
-
Is It Normal For Cufflinks Produce Different Results In Multiple Runs
written by Superligang •
