[BioC] How to categorize genes to different functional groups based on their GO id.

Thomas Hampton Thomas.H.Hampton at Dartmouth.EDU
Thu Oct 2 21:34:55 CEST 2008

You might want to try DAVID david.abcc.ncifcrf.gov
or Ingenuity or Pathway Studio, or GeneGo from Metacore. There are  
also various
gene set enrichment approaches in R or Java, such as
the one hosted by the Broad Institute.


On Oct 2, 2008, at 12:16 PM, ziping zhang wrote:

> Dear  list members,
> We have identified 300 genes response to a treatment in our model  
> by cDNA microarray. We have annotated most of these sequences and  
> signed them with different GO terms. Based on literature searching,  
> we believe that these genes can be categorized to several groups  
> such as: Proteinbiosynthesis (Translation), Metabolism, Protection  
> against reactive oxygen species (ROS), Apoptosis, Growth  
> regulation, Inflammation, Heart-related function, Muscle-related   
> function, Development, Transport (cellular and vascular),   
> Angiogenesis. Any comments about how to categorize our genes to  
> these groups quickly and precisely are welcome.
> Ziping Zhang
> Molecular Bioscience Research GroupDepartment of Chemistry and  
> Biochemistry 601 University Drive/Centinnal 419
> Texas State University San Marcos, Texas 78666-4616 Tel:  
> 512-245-0358 (O); 512-245-2032 (L)
> Fax: 512-245-1922
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