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Old 07-31-2014, 07:13 AM   #1
akitrav
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Default Gene and gene function table

Hi,

I am looking for a two column table that has genes and their functions by their side. Any suggestions how i can get that?

Thanks!

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Old 07-31-2014, 07:30 AM   #2
GenoMax
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For which organism?
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Old 07-31-2014, 11:20 AM   #3
akitrav
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Homo sapiens
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Old 07-31-2014, 12:31 PM   #4
GenoMax
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Two options:

1. Get this file: http://geneontology.org/gene-associa...a_ref_human.gz You will need to parse out the columns you want from this file. Should be possible using unix commands (post if you need help) or use perl/python.

2. Visit: http://www.proteinatlas.org/ Hit "search" (leave field blank). This will list all proteins. Choose "show/hide columns" and then select "protein class" (that is the closest to the function category). You can download the results as a tabbed file.
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Old 07-31-2014, 01:22 PM   #5
Richard Finney
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They still don't know what (most? , many?) Human genes do, so don't think any current list will be the real truth about the function of a gene.

Note that there will be a bias to the "what's been studied" in any "gene set to function" analysis. Lots of genes are associated with neuron development and cancer (because brain studies and cancer research get lots of attention). Such genes of course, may have other functions.

Last edited by Richard Finney; 07-31-2014 at 01:25 PM.
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Old 08-01-2014, 08:26 AM   #6
akitrav
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Well I am looking for something like the Summary text (This gene encodes a blabla) from this NCBI record

http://www.ncbi.nlm.nih.gov/gene/673

Any suggestions on how I can create a database or find one?

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