Is LocusLinkID the Entrez Gene ID?

[Huei-Hun Elizabeth Tseng]

We'd like to use the Entrez Gene ID from NCBI for the human coding genes,
however when we looked at the table RefLink, we only saw a field called
"LocusLinkID". Is that the same as Entrez Gene ID and are they unique?

Thanks,
Elizabeth
_______________________________________________
Genome maillist - ***@lists.soe.ucsc.edu
https://lists.soe.ucsc.edu/mailman/listinfo/genome

[Jennifer Jackson]

Hello,

Entrez has replaced Locus link. http://www.ncbi.nlm.nih.gov/LocusLink/
To search by an Entrez Gene, use the gene symbol.
Open the Table browser up to the UCSC Genes track (contains RefSeq plus other sources, see track description page) and enter the gene symbol into the identifier filter to get the results. More than one transcript for a particular gene may be found (variants). The UCSC transcript IDs are unique.

Some Table browser help:
http://genome.ucsc.edu/goldenPath/help/hgTablesHelp.html

If you need more help, please let us know,
Jennifer

------------------------------------------------
Jennifer Jackson
UCSC Genome Bioinformatics Group

Sent: Friday, October 9, 2009 2:30:15 PM GMT -08:00 US/Canada Pacific
Subject: [Genome] Is LocusLinkID the Entrez Gene ID?
We'd like to use the Entrez Gene ID from NCBI for the human coding
genes,
however when we looked at the table RefLink, we only saw a field
called
"LocusLinkID". Is that the same as Entrez Gene ID and are they
unique?
Thanks,
Elizabeth
_______________________________________________
https://lists.soe.ucsc.edu/mailman/listinfo/genome

_______________________________________________
Genome maillist - ***@lists.soe.ucsc.edu
https://lists.soe.ucsc.edu/mailman/listinfo/genome

[Jennifer Jackson]

Hello again,

Good news, the Entrez Gene ID are still stored in the locusLinkId field for the refLink table. The IDs are not unique.

Some earlier answers on the same topic that may be helpful:
https://lists.soe.ucsc.edu/pipermail/genome/2005-February/006680.html
https://lists.soe.ucsc.edu/pipermail/genome/2009-August/019882.html

Jen


------------------------------------------------
Jennifer Jackson
UCSC Genome Bioinformatics Group

Sent: Friday, October 9, 2009 3:48:18 PM GMT -08:00 US/Canada Pacific
Subject: Re: [Genome] Is LocusLinkID the Entrez Gene ID?
Hello,
Entrez has replaced Locus link.
http://www.ncbi.nlm.nih.gov/LocusLink/
To search by an Entrez Gene, use the gene symbol.
Open the Table browser up to the UCSC Genes track (contains RefSeq
plus other sources, see track description page) and enter the gene
symbol into the identifier filter to get the results. More than one
transcript for a particular gene may be found (variants). The UCSC
transcript IDs are unique.
http://genome.ucsc.edu/goldenPath/help/hgTablesHelp.html
If you need more help, please let us know,
Jennifer
------------------------------------------------
Jennifer Jackson
UCSC Genome Bioinformatics Group

Sent: Friday, October 9, 2009 2:30:15 PM GMT -08:00 US/Canada

Pacific

Subject: [Genome] Is LocusLinkID the Entrez Gene ID?
We'd like to use the Entrez Gene ID from NCBI for the human coding
genes,
however when we looked at the table RefLink, we only saw a field
called
"LocusLinkID". Is that the same as Entrez Gene ID and are they
unique?
Thanks,
Elizabeth
_______________________________________________
https://lists.soe.ucsc.edu/mailman/listinfo/genome

_______________________________________________
https://lists.soe.ucsc.edu/mailman/listinfo/genome