[Genome] Question about retrieving gene, EST/mRNA names from knownGene table

[Brooke Rhead]

Hello Jianman,

The table that contains various accession numbers and gene symbols 
associated with UCSC Genes (a.k.a. 'knownGene') is called 'kgXref'.

If you are using the Table Browser, you can keep the UCSC Genes table 
selected, but choose the output format option of "selected fields from 
primary and related tables". The kgXref table will then be in the list 
of related tables, and you can use it to retrieve the mRNA IDs and gene 
symbols associated with your genes of interest.

I hope this information helps.  Please contact us again if you have any 
further questions.

--
Brooke Rhead
UCSC Genome Bioinformatics Group


Wang, Jianmin wrote:
> Hello,
>  
> This is Jianmin Wang from Roswell Park Cancer Institute.  I was tring to
> get the known genes for a specific genomic location, but the knowGene
> table only contains the name such as uc001aaa.1 instead of gene, EST or
> mRNA names which are shown on the genome browser.  Could you tell me
> which table contains such information?
>  
> Your help is highly appriecated.
>  
> Best Regards,
>  
> Jianmin Wang
> Roswell Park Cancer Institute
> Buffalo, NY 14263
> 
> 
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