[Bioperl-l] Entrez Gene parser questions

Stefan Kirov skirov at utk.edu
Thu Jun 2 13:44:47 EDT 2005

Also pleas let me know if you find anything weird. I think GIs might 
have a tab at the end. Also note that (at least as of April 25th) 
EntrezGene ASN file does not have Gene ontology for Drosophila. So far I 
have not heard from NCBI help desk on that.

Law, Annie wrote:

>I would appreciate help with the following.  First of all, I would like to say it's great that a Entrez gene parser was written. I just have some questions to get me started.  
>A) I already have bioperl 1.4 installed.  I would like to know if I can install the Entrez gene parser and 
>Stefan Kirov's entrezgene.pm with out reinstalling bioperl.  If this is not advised then I would reinstall bioperl.
>I was going to 1. install the Bio::ASN1::EntrezGene module (perl Makefile.PL, make, make test, make install, etc...)
>		   2. just take only the entrezgene.pm and util.pm file and put it in the appropriate directory
>               (which util.pm shold I use??  I searched CPAN and got many results for util.pm
>               is it Biblio::Util, Boulder::Util, or something else??)
>B) For each Entrez gene id how do I access the associated Unigene id, accession numbers, gene symbol, gene name,
>And GO IDs.  
>Also, I have been looking at the code and the POD within it.  Are there some other places that I can look for documentation?
>Thanks so much!!
>Bioperl-l mailing list
>Bioperl-l at portal.open-bio.org

More information about the Bioperl-l mailing list