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BioForum _ Bioinformatics and Biostatistics _ genome annotation
Posted by: dersven Jun 4 2009, 12:07 AM
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.
Posted by: cellcounter Jun 26 2009, 09:36 AM
QUOTE (dersven @ Jun 4 2009, 01:07 AM) 
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 http://search.vadlo.com/b/q?sn=158621799&e=dta&k=Genome+Annotation&rel=1 or http://search.vadlo.com/b/q?sn=158621799&e=dta&k=Genome+Annotation&rel=2 search results to see how this is done.
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