NCBI RefSeq: reference sequence standards through 25 years of curation and annotation
Reference sequences and annotations serve as the foundation for many lines of research today, from organism and sequence identification to providing a core description of the genes, transcripts and proteins found in an organism's genome. Interpretation of data including transcriptomics, proteomics, sequence variation and comparative analyses based on reference gene annotations informs our understanding of gene function and possible disease mechanisms, leading to new biomedical discoveries. The Reference Sequence (RefSeq) resource created at the National Center for Biotechnology Information (NCBI) leverages both automatic processes and expert curation to create a robust set of reference sequences of genomic, transcript and protein data spanning the tree of life. RefSeq continues to refine its annotation and quality control processes and utilize better quality genomes resulting from advances in sequencing technologies as well as RNA-Seq data to produce high-quality annotated genomes, ortholog predictions across more organisms and other products that are easily accessible through multiple NCBI resources. This report summarizes the current status of the eukaryotic, prokaryotic and viral RefSeq resources, with a focus on eukaryotic annotation, the increase in taxonomic representation and the effect it will have on comparative genomics. The RefSeq resource is publicly accessible at https://www.ncbi.nlm.nih.gov/refseq.
Authors
- Barbara Robbertse (ORCID: https://orcid.org/0000-0002-0264-0955)
- Anjana R. Vatsan
- Françoise Thibaud-Nissen
- Shashikant Pujar (ORCID: https://orcid.org/0000-0001-7132-5513)
- Eyal Mozes
- Vamsi K. Kodali (ORCID: https://orcid.org/0000-0001-8941-9761)
- Susan Schafer
- Terence D. Murphy (ORCID: https://orcid.org/0000-0001-9311-9745)
- Vyacheslav Brover (ORCID: https://orcid.org/0000-0002-4980-7150)
- Dong‐Ha Oh (ORCID: https://orcid.org/0000-0003-1526-9814)
- Patrick Masterson
- Aron Marchler‐Bauer (ORCID: https://orcid.org/0000-0003-1516-0712)
- Avi Kimchi
- David Webb (ORCID: https://orcid.org/0000-0003-4243-4002)
- David M. Kristensen (ORCID: https://orcid.org/0000-0003-0657-1632)
- Hanzhen Sun
- Kelly M. McGarvey (ORCID: https://orcid.org/0009-0002-1055-996X)
- Vinita Joardar (ORCID: https://orcid.org/0000-0001-9018-3151)
- J. Rodney Brister (ORCID: https://orcid.org/0000-0003-4729-6796)
- William Klimke
- Craig Wallin
- Tamara Goldfarb
- Diana Haddad
- Jinna Hoffman
- Kim D. Pruitt (ORCID: https://orcid.org/0000-0001-7950-1374)
- Eneida Hatcher
- Pooja K Strope
- Olga Ermolaeva
- Wratko Hlavina (ORCID: https://orcid.org/0000-0001-8250-5675)
- Alexander Astashyn
- Michael R. Murphy (ORCID: https://orcid.org/0000-0002-7398-9599)
- John D. Jackson (ORCID: https://orcid.org/0000-0002-8461-3853)
- Catherine M. Farrell (ORCID: https://orcid.org/0009-0003-3804-8528)
- Alexander Souvorov
- Richard McVeigh
- Brett Spurrier
Institutions
- National Institutes of Health (US)
- United States National Library of Medicine (US)
- National Center for Biotechnology Information (US)
Publication Details
- Journal
- Nucleic Acids Research
- Published
- 2024-11-11
- DOI
- https://doi.org/10.1093/nar/gkae1038
- Citations
- 206
- Primary Topic
- Genomics and Phylogenetic Studies
- Type
- article
- Field-Weighted Citation Impact
- 48.17
Funders
- National Institutes of Health
- U.S. National Library of Medicine