Question: Best Way To Get All Genes/Proteins Related To A Taxon Id From Metahit And Hmp
1
gravatar for Dhruv Sakalley
7.6 years ago by
North Carolina
Dhruv Sakalley60 wrote:

Hi, I have a list of taxid from species that are a part of MetaHIT and taxid from species that are a part of HMP database. But I am looking far a programmable way for obtaining all the gene ids, genes, gene symbols, gene description under these taxids. Some sample taxid's are : MetaHIT: 657324 717962 751585. HMP: 563193 411465 563194. If there is one dump file containing all this information that would be awesome.

Regards, Dhruv

gene taxonomy mapping • 1.9k views
ADD COMMENTlink written 7.6 years ago by Dhruv Sakalley60
0
gravatar for Pierre Lindenbaum
7.6 years ago by
France/Nantes/Institut du Thorax - INSERM UMR1087
Pierre Lindenbaum118k wrote:

You can find some genes for the human genome (see the table on the right):

but it seems that there is no sequences annotated as "Gene" in :

if you want to find the sequences (!= gene) in those organisms, see this related question: http://biostar.stackexchange.com/questions/3043/how-can-i-get-protein-sequence-in-fasta-format-using-taxon-id

ADD COMMENTlink written 7.6 years ago by Pierre Lindenbaum118k
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