Reference sequence (RefSeq) database at NCBI: current status, taxonomic expansion, and functional annotation
| Autor: | Barbara Robbertse, Patrick Masterson, Jinna Choi, Sanjida H. Rangwala, Vyacheslav Brover, Olga Blinkova, Stacy Ciufo, Kim D. Pruitt, Conrad L. Schoch, Daniel H. Haft, Kelly M. McGarvey, Richard McVeigh, Raymond E. Tully, Bhanu Rajput, Alexander Astashyn, Vinita Joardar, Wratko Hlavina, Vamsi K. Kodali, Kathleen O'Neill, Danso Ako-adjei, Hanzhen Sun, Craig Wallin, Mathew W. Wright, Michael DiCuccio, Daniel Rausch, Catherine M. Farrell, Susan S. Storz, Avi Kimchi, Terence Murphy, Tripti Gupta, Eneida L. Hatcher, Donna Maglott, Shashikant Pujar, Brian Smith-White, David Webb, Nuala A. O'Leary, Wenjun Li, Michael R. Murphy, Igor Tolstoy, Françoise Thibaud-Nissen, Diana Haddad, Olga Ermolaeva, Azat Badretdin, Andrei Shkeda, Lillian D. Riddick, Tatiana Tatusova, Wendy Wu, Melissa J. Landrum, Vyacheslav Chetvernin, Tamara Goldfarb, Anjana R. Vatsan, Paul Kitts, J. Rodney Brister, Yiming Bao, Eric Cox |
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| Rok vydání: | 2015 |
| Předmět: |
0301 basic medicine
Nematoda Genomics Genome Viral Biology computer.software_genre Mice 03 medical and health sciences Sequence Analysis Protein Databases Genetic Genetics RefSeq Animals Humans Database Issue Phylogeny Comparative genomics Database Genome Human Sequence Analysis RNA GENCODE Gene Expression Profiling Molecular Sequence Annotation Genome project Reference Standards Invertebrates Rats Genome Microbial 030104 developmental biology Vertebrates Cattle RNA Long Noncoding Human genome Genome Fungal computer Genome Plant Reference genome |
| Zdroj: | Nucleic Acids Research |
| ISSN: | 1362-4962 0305-1048 |
| DOI: | 10.1093/nar/gkv1189 |
| Popis: | 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. |
| Databáze: | OpenAIRE |
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