About: Reference sequence (RefSeq) database at NCBI: current status, taxonomic expansion, and functional annotation

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type	Academic Article research paper schema:ScholarlyArticle
isDefinedBy	Covid-on-the-Web dataset
has title	Reference sequence (RefSeq) database at NCBI: current status, taxonomic expansion, and functional annotation
Creator	Li, Wenjun Cox, Eric Murphy, Michael Bao, Yiming Blinkova, Olga Ako-Adjei, Danso Astashyn, Alexander Badretdin, Azat Brover, Vyacheslav Chetvernin, Vyacheslav Choi, Jinna Ciufo, Stacy Ermolaeva, Olga Goldfarb, Tamara Gupta, Tripti Haddad, Diana Haft, Daniel Hatcher, Eneida Hlavina, Wratko Kimchi, Avi Kitts, Paul Maglott, Donna Masterson, Patrick Pujar, Shashikant Rajput, Bhanu Rausch, Daniel Robbertse, Barbara Schoch, Conrad Shkeda, Andrei Smith-White, Brian Sun, Hanzhen Tatusova, Tatiana Thibaud-Nissen, Francoise Tolstoy, Igor Wallin, Craig Webb, David Wu, Wendy Brister, J Dicuccio, Michael Farrell, Catherine Joardar, Vinita Kodali, Vamsi Landrum, Melissa Mcgarvey, Kelly Mcveigh, Rich Murphy, Terence O'leary, Nuala O'neill, Kathleen Pruitt, Kim Rangwala, Sanjida Riddick, Lillian Storz, Susan Tully, Raymond Vatsan, Anjana Wright, Mathew
Source	Medline; PMC
abstract	The RefSeq project at the National Center for Biotechnology Information (NCBI) maintains and curates a publicly available database of annotated genomic, transcript, and protein sequence records (http://www.ncbi.nlm.nih.gov/refseq/). The RefSeq project leverages the data submitted to the International Nucleotide Sequence Database Collaboration (INSDC) against a combination of computation, manual curation, and collaboration to produce a standard set of stable, non-redundant reference sequences. The RefSeq project augments these reference sequences with current knowledge including publications, functional features and informative nomenclature. The database currently represents sequences from more than 55 000 organisms (>4800 viruses, >40 000 prokaryotes and >10 000 eukaryotes; RefSeq release 71), ranging from a single record to complete genomes. This paper summarizes the current status of the viral, prokaryotic, and eukaryotic branches of the RefSeq project, reports on improvements to data access and details efforts to further expand the taxonomic representation of the collection. We also highlight diverse functional curation initiatives that support multiple uses of RefSeq data including taxonomic validation, genome annotation, comparative genomics, and clinical testing. We summarize our approach to utilizing available RNA-Seq and other data types in our manual curation process for vertebrate, plant, and other species, and describe a new direction for prokaryotic genomes and protein name management.
has issue date	2016-01-04(xsd:dateTime)
bibo:doi	10.1093/nar/gkv1189
bibo:pmid	26553804
has license	no-cc
sha1sum (hex)	16b0744424f02e01fe2f01b3ea03e2862f1359fc
schema:url	https://doi.org/10.1093/nar/gkv1189
resource representing a document's title	Reference sequence (RefSeq) database at NCBI: current status, taxonomic expansion, and functional annotation
has PubMed Central identifier	PMC4702849
has PubMed identifier	26553804
schema:publication	Nucleic Acids Res
resource representing a document's body	covid:16b0744424f02e01fe2f01b3ea03e2862f1359fc#body_text
is schema:about of	named entity 'NCBI' named entity 'testing' named entity 'RefSeq' named entity 'expand' named entity 'curation' named entity 'management' named entity 'http' named entity 'genome annotation' named entity 'details' named entity 'functional annotation' named entity 'taxonomic' named entity 'NCBI' named entity 'RECORDS' named entity 'REFERENCE' named entity 'PROJECT' named entity 'BRANCHES' named entity 'FUNCTIONAL' named entity 'PROKARYOTES' named entity 'VALIDATION' named entity 'COMPARATIVE GENOMICS' named entity 'SUPPORT' named entity 'WWW' named entity 'DIVERSE' named entity 'NON-' named entity 'SPECIES' named entity 'TRANSCRIPT' named entity 'RELEASE'

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