Enrichment analysis with DAVID tool - question

ComputGuy · 09-23-2013, 09:03 AM

Hi All,

I am still new in the field and I have a question please.

I have a dataset of gene expressions and I am running biclustering methods over them. The dataset is colon cancer dataset, When I get the new biclusters I want to do biological validation; enrichment analysis to find how many genes are enriched in each bicluster. I want to use DAVID tool for that.
My question is when I upload my gene set to DAVID tool, I choose "Functional Annotation Clustering" then I have set of clusters for the set of genes that I uploaded with different gene enrichment score. How can I find "Proportion of biclusters significantly enriched" as it has been done in Figure 3 of this paper "A systematic comparison and evaluation of biclustering methods
for gene expression data"
http://bioinformatics.oxfordjournals....full.pdf+html

Any help please? Any hint really appreciated.

Could anyone with experience direct me please.
Thanks!

Similar Threads
Thread	Thread Starter	Forum	Replies	Last Post
searching tool for ChIP-seq analysis of histone modification analysis	tujchl	Epigenetics	5	03-13-2013 10:00 AM
about David, why one gene is calculated 3 times ?	zslee	Bioinformatics	5	02-16-2010 03:52 AM
Best tool for the job (noob question)	bre	Bioinformatics	4	01-05-2010 11:56 AM
PubMed: FindPeaks 3.1: A Tool for Identifying Areas of Enrichment from Massively Para	Newsbot!	Literature Watch	2	07-10-2008 11:33 AM

09-23-2013, 09:03 AM	#1
ComputGuy Junior Member Location: Michigan Join Date: Sep 2013 Posts: 1	Enrichment analysis with DAVID tool - question Hi All, I am still new in the field and I have a question please. I have a dataset of gene expressions and I am running biclustering methods over them. The dataset is colon cancer dataset, When I get the new biclusters I want to do biological validation; enrichment analysis to find how many genes are enriched in each bicluster. I want to use DAVID tool for that. My question is when I upload my gene set to DAVID tool, I choose "Functional Annotation Clustering" then I have set of clusters for the set of genes that I uploaded with different gene enrichment score. How can I find "Proportion of biclusters significantly enriched" as it has been done in Figure 3 of this paper "A systematic comparison and evaluation of biclustering methods for gene expression data" http://bioinformatics.oxfordjournals....full.pdf+html Any help please? Any hint really appreciated. Could anyone with experience direct me please. Thanks! Last edited by ComputGuy; 09-23-2013 at 12:23 PM.