Pathway analysis recommendations?

Pesto · 02-09-2011, 07:23 AM

Hello! I just started an internship with a bioinformatics group that is currently looking into clinical applications of next generation sequencing technology. One of the projects we’re working on is to sequence someone’s genome and find genes that enable susceptibility to certain diseases, such as cancer. I was wondering if you guys have a recommendation for pathway analysis software. Also, if any of you understand the mechanics of pathway analysis could you please explain to me how it works, or at least direct me to some helpful links? Thanks.

HuiXin · 03-09-2011, 02:21 AM

Hi Pesto,
I hope this will help you out a bit and it's not too late. I'm learning on this too. Just an overview on how it works

Just realized about the question, sorry for the mistake, u can try looking at this website for PathVisio
http://www.bigcat.unimaas.nl/wiki/in...thway_Analysis
Dowload available at http://www.pathvisio.org/wiki/PathVisioDownload

boetsie · 03-09-2011, 03:07 AM

Hi Pesto,

you might have a look at Genostar, i think they have pathway analysis software. You can download a trial at their website;
http://www.genostar.com/

Boetsie

bkmacy · 01-24-2012, 10:55 AM

One of the fastest most accurate pathway analysis solutions is Ingenuity iReport. Upload your NGS: RNA-Seq Cuff-Diff files at http://www.ingenuity.com/getireport/ and get a free preview of your iReport including pathways, processes, interactions, etc.

adaptivegenome · 01-24-2012, 11:25 AM

Quote:

Originally Posted by bkmacy

One of the fastest most accurate pathway analysis solutions is Ingenuity iReport. Upload your NGS: RNA-Seq Cuff-Diff files at http://www.ingenuity.com/getireport/ and get a free preview of your iReport including pathways, processes, interactions, etc.

You have only made two posts on SEQanswers and both advertise this report. Please refrain from advertising on the board via posts or your posts might get flagged in the future.

chknbio · 05-25-2012, 11:55 AM

Ingenuity looks like a great product for RNAseq pathway analysis but does any similar open course (free) program exist which provides similar analysis results?

Thanks.

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02-09-2011, 07:23 AM	#1
Pesto Junior Member Location: Boston Join Date: Feb 2011 Posts: 1	Pathway analysis recommendations? Hello! I just started an internship with a bioinformatics group that is currently looking into clinical applications of next generation sequencing technology. One of the projects we’re working on is to sequence someone’s genome and find genes that enable susceptibility to certain diseases, such as cancer. I was wondering if you guys have a recommendation for pathway analysis software. Also, if any of you understand the mechanics of pathway analysis could you please explain to me how it works, or at least direct me to some helpful links? Thanks.

03-09-2011, 02:21 AM	#2
HuiXin Junior Member Location: Malaysia Join Date: Mar 2011 Posts: 1	Hi Pesto, I hope this will help you out a bit and it's not too late. I'm learning on this too. Just an overview on how it works Just realized about the question, sorry for the mistake, u can try looking at this website for PathVisio http://www.bigcat.unimaas.nl/wiki/in...thway_Analysis Dowload available at http://www.pathvisio.org/wiki/PathVisioDownload Last edited by HuiXin; 05-02-2011 at 08:48 PM.

03-09-2011, 03:07 AM	#3
boetsie Senior Member Location: NL, Leiden Join Date: Feb 2010 Posts: 245	Hi Pesto, you might have a look at Genostar, i think they have pathway analysis software. You can download a trial at their website; http://www.genostar.com/ Boetsie

01-24-2012, 10:55 AM	#4
bkmacy Junior Member Location: San Mateo, CA Join Date: Jan 2012 Posts: 2	One of the fastest most accurate pathway analysis solutions is Ingenuity iReport. Upload your NGS: RNA-Seq Cuff-Diff files at http://www.ingenuity.com/getireport/ and get a free preview of your iReport including pathways, processes, interactions, etc.

05-25-2012, 11:55 AM	#6
chknbio Member Location: Baltimore Join Date: May 2012 Posts: 14	Ingenuity looks like a great product for RNAseq pathway analysis but does any similar open course (free) program exist which provides similar analysis results? Thanks.