Description & Methods
From the Vega
main page:
The
Vertebrate Genome Annotation (VEGA)
database is designed to be a central repository for manual annotation
of different vertebrate finished genome sequence.
In collaboration with the genome sequencing centres Vega attempts to
present consistent high-quality curation of the published chromosome
sequences.
Finished genomic sequence is analysed on a clone by clone basis using
a combination of similarity searches against DNA and protein databases
as well as a series of ab initio gene predictions (GENSCAN, Fgenes).
In addition, comparative analysis using vertebrate datasets such as
the Riken mouse cDNAs and Genoscope Tetraodon nigroviridis Ecores
(Evolutionary Conserved Regions) are used for novel gene discovery.
Credits
Thanks for Steve Searle at
Sanger
for providing GTF and FASTA for the Vega annotations.
Vega gene annotations are generated by manual annotation from the
following groups.
- chromosome 14:
Genoscope, CNRS
(Nature 421, 601 - 607 (2003) "The DNA sequence and analysis of human
chromosome 14" Heilig et al.)
- chromosome 20: HAVANA Group,
Wellcome Trust Sanger Institute
(Nature 414, 865 - 871 (2001) "The DNA sequence and comparative
analysis of human chromosome 20" Deloukas et al.)
- chromosome 22: Chromosome 22 Group,
Wellcome Trust Sanger Institute
(Collins et al. Genome Research, 2003 Jan; 13(1):27-36)