Gene enrichment on cuffdiff output

[Parharn]

Hi every body,
I have mapped my seqs with Toxedo pipeline and have my diff_out file out of cuffdiff. Now I want to do some gene enrichment analysis on it. I need some help on what to do and how to do. A bit of more detailed help since it is my first time. Any more information you need please let me know.

Thanks,
Parham

[Roger Z]

Hi every body,
I have mapped my seqs with Toxedo pipeline and have my diff_out file out of cuffdiff. Now I want to do some gene enrichment analysis on it. I need some help on what to do and how to do. A bit of more detailed help since it is my first time. Any more information you need please let me know.

Thanks,
Parham

Hi,Parharn,have you solved the problem?

[Parharn]

Hi Roger, Yes I managed to do some GO enrichment analysis and pathway analysis on it! Thanks for asking. Do you suggest anything else?

[Roger Z]

Hi Roger, Yes I managed to do some GO enrichment analysis and pathway analysis on it! Thanks for asking. Do you suggest anything else?

Hi,Parham. I am also using cufflinks output to do GO and kegg pathway enrichment analysis, but I encounter with some difficulties. You can see it here:

http://seqanswers.com/forums/showthread.php?t=47806

Thanks,