title: RefSeq: an update on mammalian reference sequences.
abstract: The National Center for Biotechnology Information (NCBI) Reference Sequence (RefSeq) database is a collection of annotated genomic, transcript and protein sequence records derived from data in public sequence archives and from computation, curation and collaboration (http://www.ncbi.nlm.nih.gov/refseq/). We report here on growth of the mammalian and human subsets, changes to NCBI's eukaryotic annotation pipeline and modifications affecting transcript and protein records. Recent changes to NCBI's eukaryotic genome annotation pipeline provide higher throughput, and the addition of RNAseq data to the pipeline results in a significant expansion of the number of transcripts and novel exons annotated on mammalian RefSeq genomes. Recent annotation changes include reporting supporting evidence for transcript records, modification of exon feature annotation and the addition of a structured report of gene and sequence attributes of biological interest. We also describe a revised protein annotation policy for alternatively spliced transcripts with more divergent predicted proteins and we summarize the current status of the RefSeqGene project.
authors.affiliation: National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, 8600 Rockville Pike, Bethesda, MD 20894, USA.
authors.forename: Kim D
authors.initials: KD
authors.lastname: Pruitt
authors.forename: Garth R
authors.initials: GR
authors.lastname: Brown
authors.forename: Susan M
authors.initials: SM
authors.lastname: Hiatt
authors.forename: Françoise
authors.initials: F
authors.lastname: Thibaud-Nissen
authors.forename: Alexander
authors.initials: A
authors.lastname: Astashyn
authors.forename: Olga
authors.initials: O
authors.lastname: Ermolaeva
authors.forename: Catherine M
authors.initials: CM
authors.lastname: Farrell
authors.forename: Jennifer
authors.initials: J
authors.lastname: Hart
authors.forename: Melissa J
authors.initials: MJ
authors.lastname: Landrum
authors.forename: Kelly M
authors.initials: KM
authors.lastname: McGarvey
authors.forename: Michael R
authors.initials: MR
authors.lastname: Murphy
authors.forename: Nuala A
authors.initials: NA
authors.lastname: O'Leary
authors.forename: Shashikant
authors.initials: S
authors.lastname: Pujar
authors.forename: Bhanu
authors.initials: B
authors.lastname: Rajput
authors.forename: Sanjida H
authors.initials: SH
authors.lastname: Rangwala
authors.forename: Lillian D
authors.initials: LD
authors.lastname: Riddick
authors.forename: Andrei
authors.initials: A
authors.lastname: Shkeda
authors.forename: Hanzhen
authors.initials: H
authors.lastname: Sun
authors.forename: Pamela
authors.initials: P
authors.lastname: Tamez
authors.forename: Raymond E
authors.initials: RE
authors.lastname: Tully
authors.forename: Craig
authors.initials: C
authors.lastname: Wallin
authors.forename: David
authors.initials: D
authors.lastname: Webb
authors.forename: Janet
authors.initials: J
authors.lastname: Weber
authors.forename: Wendy
authors.initials: W
authors.lastname: Wu
authors.forename: Michael
authors.initials: M
authors.lastname: DiCuccio
authors.forename: Paul
authors.initials: P
authors.lastname: Kitts
authors.forename: Donna R
authors.initials: DR
authors.lastname: Maglott
authors.forename: Terence D
authors.initials: TD
authors.lastname: Murphy
authors.forename: James M
authors.initials: JM
authors.lastname: Ostell
mesh_terms: D000818:Animals; D030541:Databases, Genetic; D056890:Eukaryota / Q000235:genetics; D005091:Exons; D016678:Genome; D023281:Genomics / Q000592:standards; D006801:Humans; D020407:Internet; D008322:Mammals / Q000235:genetics*; D058977:Molecular Sequence Annotation; D011506:Proteins / Q000737:chemistry / Q000235:genetics; D012313:RNA / Q000737:chemistry; D012015:Reference Standards
chemical_list: D011506:Proteins; D012313:RNA