[Genome] help-about gene name

[Archana Thakkapallayil]

Hello Zhuo,

This information can be extracted from the table 'refGene' using the 
Table Browser. The "name2" field in the refGene table gives information 
on the alternate gene name for the corresponding accessions. 

To do this, click on the "Tables" link in the blue bar at the top of the 
Genome Browser page.  Then make the following selections:

clade: vertebrate
genome: Chicken
assembly: May 2006
group: Genes and Gene Prediction Tracks
track: RefSeq Genes
table: refGene
region: genome

You could then get the gene names for only certain RefSeq accessions by 
clicking on the "filter: create" button, and then pasting a white-space 
separated list of your accessions into the box "name does match", if 
your list isn't very large. You could also paste or upload your list of 
accessions into the "identifiers (names/accessions):" using the 
paste/upload list button, in a consistent format that the Table Browser 
can use (one ID per line).

Then choose "output format: selected fields from primary and related 
tables" and hit "get output".

On this page check the box "name" and "name2". Click "get output" 
button. This gives you the alternate gene names for all your refSeq 
accessions.

I hope that this is helpful to you. If you have further questions, 
please do not hesitate to contact us again.

Regards,

Archana
UCSC genome Bioinformatics Group


du zhuo wrote:
> Dear all
> I have downloaded Upstream5000 data of chicken genome, but the gene name is
> all displayed as genbank accession Nos. such as NM_001001189. How can I get
> the gene name of the related accession No. immediately other than search the
> database one by one? such as  NM_001001189 is craniofacial development
> protein 1 [*Gallus gallus*]...
> Thank you for your attentions
>
> Best wishes,
> Zhuo Du
> _______________________________________________
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