[ensembl-dev] HGMD-PUBLIC records in Variation
Sung Gong
sung at bio.cc
Tue May 24 16:30:39 BST 2011
Hi all,
Not vigorously tested yet, but some HGMD identifiers (e.g CM043264)
does not have any 'allele_string' in their variation feature object:
my $v=$va->fetch_by_name('CM043264');
foreach my $vf (@{$vfa->fetch_all_by_Variation($v)}) {
print $vf->variation_name(), ":", $vf->allele_string(),"\n";
print $vf->seq_region_name,":", $vf->seq_region_start,
'-',$vf->seq_region_end,"\n";
}
The script above returns:
CM043264:HGMD_MUTATION
3:8775661-8775661
Can anyone explain how the HGMD-public data is incorporated into
Ensembl human variation?
Cheers,
Sung
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