Go Back   SEQanswers > Bioinformatics > Bioinformatics

Similar Threads
Thread Thread Starter Forum Replies Last Post
Pathway analysis recommendations? Pesto Bioinformatics 5 05-25-2012 11:55 AM
Assembling bacterial genome de novo Noa Bioinformatics 27 03-05-2012 02:22 AM
de novo assembling, please help cli Bioinformatics 3 07-30-2011 04:37 AM
De novo assembling taking into account base quality richenlaw Bioinformatics 1 03-12-2011 05:31 AM
Assembling de novo a fragment with Velvet MariaP Bioinformatics 0 03-09-2011 08:43 AM

Thread Tools
Old 06-21-2012, 01:03 AM   #1
Location: china

Join Date: Dec 2011
Posts: 48
Question de novo assembling sequences to do go or pathway analysis

hi! here is my problem: i have some sequence assembled by trinity ,with raw data and downstream Trinity scripts ,a list of Differencial Expression seqs were collected. i wanna do GO and Kegg analysis with those sequences and i have no idea on how to do it cause there is no reference genome .so can anyone give me some advice or recommand some software to do this? thanks!
zinky is offline   Reply With Quote
Old 09-28-2012, 02:51 AM   #2
Junior Member
Location: Norway

Join Date: Sep 2012
Posts: 3
Default De novo sequence analyses

Hi! I am using Blast2GO ( for my de novo analyses. You just have to upload your sequences in a fasta format and first blast them against the online database before getting any GO terms for your sequences. You can also get the information in which pathways your annotated genes are represented through KEGG. I hope that helps!! I do not know yet about any other programme, which can do GO and KEGG for de novo analyses.
Good luck!
Anemone is offline   Reply With Quote

de novo, pathway

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 04:42 PM.

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