[Genome] Query about knownGenes tables at http://hgdownload.cse.ucsc.edu/goldenPath/hg18/database/

[Viswanath, Lalitha (NIH/NCI) [C]]

Hi

I am looking for detailed documentation regarding the following 3 tables

knownGenes.txt.gz

knownToLocusLink.txt.gz

knownToRefSeq.txt.gz

at  http://hgdownload.cse.ucsc.edu/goldenPath/hg18/database/

I am using the first file to get chromosomal starts and stops for genes
from UCSC's Genome Browser and the latter 2 to get the mappings to
corresponding RefSeq and Entrez Gene Ids.

Strangely I find that none of the UCSC Ids in the first file find a
mention in the other two files??

The ids in the first file are prefixed uc007xxxx while the ids in the
other two files are prefixed uc004xxx.

 

Any inputs on understanding the above better would be helpful.

 

Hoping to hear further

Thanks

Lalitha