Hi Xiaoqiao, just to add to Syed's comments. The best place to get advice on Ensmebl data is Ensembl helpdesk ([email protected]). Please forward your email there. They will be able to help you
a On Thu, Jul 5, 2012 at 9:13 PM, Syed Haider <[email protected]> wrote: > Xiaoqiao, > > perhaps somebody from ensembl can comment on this, relevant person is > cc'ed. > > Syed > > > On 05/07/2012 03:18, Xiaoqiao Liu wrote: > >> Hi, >> >> I want to use biomart to get hgnc gene symbol from entrez id >> >> I use biomart version 0.7 portal >> >> Database: ENSEMBL GENES 67 (SANGER UK) >> >> Dataset: Homo sapiens (GRCh37.p7) >> >> EntrezGene ID: 571 >> >> I get two hgnc symbol for entrez id 571: BACH1 >> <http://www.genenames.org/**data/hgnc_data.php?match=BACH1<http://www.genenames.org/data/hgnc_data.php?match=BACH1> >> **>(http://www.genenames.org/**data/hgnc_data.php?match=BACH1<http://www.genenames.org/data/hgnc_data.php?match=BACH1> >> **) >> and BACH1-IT1 >> <http://www.genenames.org/**data/hgnc_data.php?match=**BACH1-IT1<http://www.genenames.org/data/hgnc_data.php?match=BACH1-IT1> >> >(http://www.**genenames.org/data/hgnc_data.**php?match=BACH1-IT1<http://www.genenames.org/data/hgnc_data.php?match=BACH1-IT1> >> ) >> >> >> However, for BACH1-IT1, these is no evidence indicating that its >> entrez id is 571 on the hgnc official web site >> (http://www.genenames.org/**data/hgnc_data.php?match=**BACH1-IT1<http://www.genenames.org/data/hgnc_data.php?match=BACH1-IT1> >> ). >> >> Furthermore, from genome browser (I use ucsc), I find that BACH1 >> <http://www.genenames.org/**data/hgnc_data.php?match=BACH1<http://www.genenames.org/data/hgnc_data.php?match=BACH1> >> **> and BACH1-IT1 >> <http://www.genenames.org/**data/hgnc_data.php?match=**BACH1-IT1<http://www.genenames.org/data/hgnc_data.php?match=BACH1-IT1>> >> are >> >> totally different gene with no overlapping. >> >> Why biomart map BACH1-IT1 >> <http://www.genenames.org/**data/hgnc_data.php?match=**BACH1-IT1<http://www.genenames.org/data/hgnc_data.php?match=BACH1-IT1>> >> to >> >> entrezid 571? >> >> Thanks >> >> Kind regards, >> >> xiaoqiao >> >> >> >> ______________________________**_________________ >> Users mailing list >> [email protected] >> https://lists.biomart.org/**mailman/listinfo/users<https://lists.biomart.org/mailman/listinfo/users> >> >> > ______________________________**_________________ > Users mailing list > [email protected] > https://lists.biomart.org/**mailman/listinfo/users<https://lists.biomart.org/mailman/listinfo/users> >
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