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Year Number of Results
1999 3
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2002 188
2003 230
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2008 202
2009 190
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4,921 results

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Reference sequence (RefSeq) database at NCBI: current status, taxonomic expansion, and functional annotation.
O'Leary NA, Wright MW, Brister JR, Ciufo S, Haddad D, McVeigh R, Rajput B, Robbertse B, Smith-White B, Ako-Adjei D, Astashyn A, Badretdin A, Bao Y, Blinkova O, Brover V, Chetvernin V, Choi J, Cox E, Ermolaeva O, Farrell CM, Goldfarb T, Gupta T, Haft D, Hatcher E, Hlavina W, Joardar VS, Kodali VK, Li W, Maglott D, Masterson P, McGarvey KM, Murphy MR, O'Neill K, Pujar S, Rangwala SH, Rausch D, Riddick LD, Schoch C, Shkeda A, Storz SS, Sun H, Thibaud-Nissen F, Tolstoy I, Tully RE, Vatsan AR, Wallin C, Webb D, Wu W, Landrum MJ, Kimchi A, Tatusova T, DiCuccio M, Kitts P, Murphy TD, Pruitt KD. O'Leary NA, et al. Nucleic Acids Res. 2016 Jan 4;44(D1):D733-45. doi: 10.1093/nar/gkv1189. Epub 2015 Nov 8. Nucleic Acids Res. 2016. PMID: 26553804 Free PMC article.
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 augm …
The RefSeq project at the National Center for Biotechnology Information (NCBI) maintains and curates a publicly available database of …
RefSeq: expanding the Prokaryotic Genome Annotation Pipeline reach with protein family model curation.
Li W, O'Neill KR, Haft DH, DiCuccio M, Chetvernin V, Badretdin A, Coulouris G, Chitsaz F, Derbyshire MK, Durkin AS, Gonzales NR, Gwadz M, Lanczycki CJ, Song JS, Thanki N, Wang J, Yamashita RA, Yang M, Zheng C, Marchler-Bauer A, Thibaud-Nissen F. Li W, et al. Nucleic Acids Res. 2021 Jan 8;49(D1):D1020-D1028. doi: 10.1093/nar/gkaa1105. Nucleic Acids Res. 2021. PMID: 33270901 Free PMC article.
The Reference Sequence (RefSeq) project at the National Center for Biotechnology Information (NCBI) contains nearly 200 000 bacterial and archaeal genomes and 150 million proteins with up-to-date annotation. ...RefSeq is found at https://www.ncbi.nlm.nih.gov/refs …
The Reference Sequence (RefSeq) project at the National Center for Biotechnology Information (NCBI) contains nearly 200 000 bacterial …
RefSeq curation and annotation of stop codon recoding in vertebrates.
Rajput B, Pruitt KD, Murphy TD. Rajput B, et al. Nucleic Acids Res. 2019 Jan 25;47(2):594-606. doi: 10.1093/nar/gky1234. Nucleic Acids Res. 2019. PMID: 30535227 Free PMC article.
Gene annotations were curated in nine vertebrate model organisms and integrated into NCBI's Reference Sequence (RefSeq) dataset, resulting in 247 selenoprotein genes encoding 322 selenoproteins, and 93 genes exhibiting SCR encoding 94 SCR isoforms....
Gene annotations were curated in nine vertebrate model organisms and integrated into NCBI's Reference Sequence (RefSeq) dataset, resu …
RefSeq: an update on prokaryotic genome annotation and curation.
Haft DH, DiCuccio M, Badretdin A, Brover V, Chetvernin V, O'Neill K, Li W, Chitsaz F, Derbyshire MK, Gonzales NR, Gwadz M, Lu F, Marchler GH, Song JS, Thanki N, Yamashita RA, Zheng C, Thibaud-Nissen F, Geer LY, Marchler-Bauer A, Pruitt KD. Haft DH, et al. Nucleic Acids Res. 2018 Jan 4;46(D1):D851-D860. doi: 10.1093/nar/gkx1068. Nucleic Acids Res. 2018. PMID: 29112715 Free PMC article.
Continual curation of supporting evidence, and propagation of improved names onto RefSeq proteins ensures that the functional annotation of genomes is kept current. An increasing share of our annotation now derives from HMMs and other sets of annotation rules that are port …
Continual curation of supporting evidence, and propagation of improved names onto RefSeq proteins ensures that the functional annotat …
RefSeq Functional Elements as experimentally assayed nongenic reference standards and functional interactions in human and mouse.
Farrell CM, Goldfarb T, Rangwala SH, Astashyn A, Ermolaeva OD, Hem V, Katz KS, Kodali VK, Ludwig F, Wallin CL, Pruitt KD, Murphy TD. Farrell CM, et al. Genome Res. 2022 Jan;32(1):175-188. doi: 10.1101/gr.275819.121. Epub 2021 Dec 7. Genome Res. 2022. PMID: 34876495 Free PMC article.
The National Center for Biotechnology Information (NCBI) therefore provides RefSeq Functional Elements (RefSeqFEs), which represent experimentally validated human and mouse nongenic elements derived from the literature. ...
The National Center for Biotechnology Information (NCBI) therefore provides RefSeq Functional Elements (RefSeqFEs), which represent e …
RefSeq and the prokaryotic genome annotation pipeline in the age of metagenomes.
Haft DH, Badretdin A, Coulouris G, DiCuccio M, Durkin AS, Jovenitti E, Li W, Mersha M, O'Neill KR, Virothaisakun J, Thibaud-Nissen F. Haft DH, et al. Nucleic Acids Res. 2024 Jan 5;52(D1):D762-D769. doi: 10.1093/nar/gkad988. Nucleic Acids Res. 2024. PMID: 37962425 Free PMC article.
Assemblies are now more stringently evaluated for contamination and for completeness of annotation prior to acceptance into RefSeq. MAGs now account for over 17000 assemblies in RefSeq, split over 165 orders and 362 families. ...In addition to literature citations, …
Assemblies are now more stringently evaluated for contamination and for completeness of annotation prior to acceptance into RefSeq. M …
The Most Frequently Used Sequencing Technologies and Assembly Methods in Different Time Segments of the Bacterial Surveillance and RefSeq Genome Databases.
Segerman B. Segerman B. Front Cell Infect Microbiol. 2020 Oct 19;10:527102. doi: 10.3389/fcimb.2020.527102. eCollection 2020. Front Cell Infect Microbiol. 2020. PMID: 33194784 Free PMC article. Review.
Here, a summarization is provided over the most frequently used sequence technology and genome assembly approaches reported for the bacterial RefSeq genomes and for the bacterial genomes submitted as belonging to a surveillance project. ...
Here, a summarization is provided over the most frequently used sequence technology and genome assembly approaches reported for the bacteria …
In silico PCR primer designing and validation.
Kumar A, Chordia N. Kumar A, et al. Methods Mol Biol. 2015;1275:143-51. doi: 10.1007/978-1-4939-2365-6_10. Methods Mol Biol. 2015. PMID: 25697657
For designing the primer, DNA template sequence is required that can be taken from any of the available sequence databases, e.g., RefSeq database. The in silico validation can be carried out using BLAST tool and Gene Runner software, which check their efficiency and specif …
For designing the primer, DNA template sequence is required that can be taken from any of the available sequence databases, e.g., RefSeq …
Update on RefSeq microbial genomes resources.
Tatusova T, Ciufo S, Federhen S, Fedorov B, McVeigh R, O'Neill K, Tolstoy I, Zaslavsky L. Tatusova T, et al. Nucleic Acids Res. 2015 Jan;43(Database issue):D599-605. doi: 10.1093/nar/gku1062. Epub 2014 Dec 15. Nucleic Acids Res. 2015. PMID: 25510495 Free PMC article.
NCBI RefSeq genome collection http://www.ncbi.nlm.nih.gov/genome represents all three major domains of life: Eukarya, Bacteria and Archaea as well as Viruses. ...A number of improvements have been incorporated into the Prokaryotic Genome Annotation Pipeline. Several new fe …
NCBI RefSeq genome collection http://www.ncbi.nlm.nih.gov/genome represents all three major domains of life: Eukarya, Bacteria and Ar …
4,921 results