genome annotation - how to map genic regions to a genome (Jun/04/2009 )
HI!
I have genomic sequences of a human chromosome, and like to annotate it. Since there might be structural variants I can't simply use the positions provided e.g. by ensemble databases. I thought doing a BLAST-search, but I'm not sure if this is the right way, since the genomic DNA contains the introns.
How are those things usually done on a large scale?
Should I only use the exons as a query?
Thanks for your help.
-dersven-
dersven on Jun 4 2009, 01:07 AM said:
HI!
I have genomic sequences of a human chromosome, and like to annotate it. Since there might be structural variants I can't simply use the positions provided e.g. by ensemble databases. I thought doing a BLAST-search, but I'm not sure if this is the right way, since the genomic DNA contains the introns.
How are those things usually done on a large scale?
Should I only use the exons as a query?
Thanks for your help.
I have genomic sequences of a human chromosome, and like to annotate it. Since there might be structural variants I can't simply use the positions provided e.g. by ensemble databases. I thought doing a BLAST-search, but I'm not sure if this is the right way, since the genomic DNA contains the introns.
How are those things usually done on a large scale?
Should I only use the exons as a query?
Thanks for your help.
You may want to check out some genome annotation tools or powerpoints search results to see how this is done.
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