Search Mailing List Archives


Limit search to: Subject & Body Subject Author
Sort by: Reverse Sort
Limit to: All This Week Last Week This Month Last Month
Select Date Range     through    

GO question

Barry Zeeberg zeebergb at mail.nih.gov
Thu Jun 24 16:59:16 PDT 2004


You can download the entire list of HUGO names from
http://www.gene.ucl.ac.uk/public-files/nomen/ens2.txt

Then use GoMiner (http://discover.nci.nih.gov/gominer/installation.jsp)



On 06/24/04 17:15, "Mary Dolan" <Mary_Dolan at umit.maine.edu> wrote:

> Antony Rodriguez <ar3 at sanger.ac.uk> writes:
>> Dear GO members,
>> 
>> I came accross the GO website and wanted to ask you guys a specific
>> question.
>> 
>> I have a small set of genes from humans (approx 200) and I retrieved
>> biological processes and molecular functions for each one.  My question
>> is, how or where do I go to compare the frequency (abundances) for each
>> category within this group with that of the entire genome as a whole?
>> For instance if in this set there are 20 out of 200 genes with a
>> 'transport' GO:0006810 biological process and I wanted to determine if
>> this is unusually high fraction within my sample size as compared to
>> the total fraction of 'transport' genes in the entire human genome
>> where would I search for such information?
>> 
>> Thanks for the help,
>> 
>> Antony Rodriguez, Ph.D.
> 
> Anthony,
> Joel Richardson here at jax has a web tool that might do what you are asking
> for. 
> VLAD - VisuaL Annotation Display - is a tool for visualizing GO annotations.
> The annotation data are a subset of those available at the GO web site (MGI,
> RGD, Human, Flybase, SGD, or ZFIN). You specify an annotation data set and a
> set of genes, and
> the tool will produce a graphical summary of the annotations indicating
> statistically significant (overrepresented) nodes.
> http://proto.informatics.jax.org/prototypes/vlad/
> Mary
> 
> Mary Dolan, Ph.D.
> ************************************
> Bioinformatics Department, The Jackson Laboratory
> NCGIA, Department of Spatial Information Science and Engineering, University
> of Maine
> Boardman Hall 329
> University of Maine
> Orono, Maine 04469
> 207.581.2143
> fax: 207.581.2206
> mdolan at informatics.jax.org
> mary_dolan at umit.maine.edu
> ************************************
> 
> 
> --
> This message is from the GOFriends moderated mailing list.  A list of public
> announcements and discussion of the Gene Ontology (GO) project.
> Problems with the list?           E-mail: owner-gofriends at geneontology.org
> Subscribing   send   "subscribe"   to   gofriends-request at geneontology.org
> Unsubscribing send   "unsubscribe"  to  gofriends-request at geneontology.org
> Web:          http://www.geneontology.org/

--
This message is from the GOFriends moderated mailing list.  A list of public
announcements and discussion of the Gene Ontology (GO) project.
Problems with the list?           E-mail: owner-gofriends at geneontology.org
Subscribing   send   "subscribe"   to   gofriends-request at geneontology.org
Unsubscribing send   "unsubscribe"  to  gofriends-request at geneontology.org
Web:          http://www.geneontology.org/



More information about the go-friends mailing list