title: An integrated computational pipeline and database to support whole-genome sequence annotation.
abstract: We describe here our experience in annotating the Drosophila melanogaster genome sequence, in the course of which we developed several new open-source software tools and a database schema to support large-scale genome annotation. We have developed these into an integrated and reusable software system for whole-genome annotation. The key contributions to overall annotation quality are the marshalling of high-quality sequences for alignments and the design of a system with an adaptable and expandable flexible architecture.
authors.affiliation: Howard Hughes Medical Institute, University of California, Berkeley, CA 94720, USA. cjm@fruitfly.org
authors.forename: C J
authors.initials: CJ
authors.lastname: Mungall
authors.forename: S
authors.initials: S
authors.lastname: Misra
authors.forename: B P
authors.initials: BP
authors.lastname: Berman
authors.forename: J
authors.initials: J
authors.lastname: Carlson
authors.forename: E
authors.initials: E
authors.lastname: Frise
authors.forename: N
authors.initials: N
authors.lastname: Harris
authors.forename: B
authors.initials: B
authors.lastname: Marshall
authors.forename: S
authors.initials: S
authors.lastname: Shu
authors.forename: J S
authors.initials: JS
authors.lastname: Kaminker
authors.forename: S E
authors.initials: SE
authors.lastname: Prochnik
authors.forename: C D
authors.initials: CD
authors.lastname: Smith
authors.forename: E
authors.initials: E
authors.lastname: Smith
authors.forename: J L
authors.initials: JL
authors.lastname: Tupy
authors.forename: C
authors.initials: C
authors.lastname: Wiel
authors.forename: G M
authors.initials: GM
authors.lastname: Rubin
authors.forename: S E
authors.initials: SE
authors.lastname: Lewis
mesh_terms: D000818:Animals; D019295:Computational Biology / Q000379:methods*; D030541:Databases, Genetic; D016678:Genome; D006801:Humans; D020407:Internet; D012985:Software Design