ask for files for annotation

[ahli1981]

Hello, could anyone tell me how to get the data files for annotation, like the coordinates of exon, intron, and intergenic region, the reference genome genotype, etc.

I looked at ftp of UCSC, but there are so many files there, without a detailed description of the files.

[RDW]

For detailed descriptions of the UCSC annotation data, try 'describe table scheme' in the Table Browser:

http://genome.ucsc.edu/cgi-bin/hgTables

There might be easier ways of retrieving and using the annotation, depending on what you need it for, e.g. for annotating sequence variants:

http://www.openbioinformatics.org/annovar/