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RefSeq: an update on prokaryotic genome annotation and curation.
Nucleic Acids Res. 2018 Jan 4;46(D1):D851-D860. doi: 10.1093/nar/gkx1068.
Nucleic Acids Res. 2018.
PMID: 29112715
Free PMC article.
The National Center for Biotechnology Information's Protein Clusters Database.
Klimke W, Agarwala R, Badretdin A, Chetvernin S, Ciufo S, Fedorov B, Kiryutin B, O'Neill K, Resch W, Resenchuk S, Schafer S, Tolstoy I, Tatusova T.
Klimke W, et al. Among authors: badretdin a.
Nucleic Acids Res. 2009 Jan;37(Database issue):D216-23. doi: 10.1093/nar/gkn734. Epub 2008 Oct 21.
Nucleic Acids Res. 2009.
PMID: 18940865
Free PMC article.
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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. Among authors: badretdin a.
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.
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NCBI prokaryotic genome annotation pipeline.
Tatusova T, DiCuccio M, Badretdin A, Chetvernin V, Nawrocki EP, Zaslavsky L, Lomsadze A, Pruitt KD, Borodovsky M, Ostell J.
Tatusova T, et al. Among authors: badretdin a.
Nucleic Acids Res. 2016 Aug 19;44(14):6614-24. doi: 10.1093/nar/gkw569. Epub 2016 Jun 24.
Nucleic Acids Res. 2016.
PMID: 27342282
Free PMC article.
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Using average nucleotide identity to improve taxonomic assignments in prokaryotic genomes at the NCBI.
Ciufo S, Kannan S, Sharma S, Badretdin A, Clark K, Turner S, Brover S, Schoch CL, Kimchi A, DiCuccio M.
Ciufo S, et al. Among authors: badretdin a.
Int J Syst Evol Microbiol. 2018 Jul;68(7):2386-2392. doi: 10.1099/ijsem.0.002809. Epub 2018 May 24.
Int J Syst Evol Microbiol. 2018.
PMID: 29792589
Free PMC article.
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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. Among authors: badretdin a.
Nucleic Acids Res. 2021 Jan 8;49(D1):D1020-D1028. doi: 10.1093/nar/gkaa1105.
Nucleic Acids Res. 2021.
PMID: 33270901
Free PMC article.
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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. Among authors: badretdin a.
Nucleic Acids Res. 2024 Jan 5;52(D1):D762-D769. doi: 10.1093/nar/gkad988.
Nucleic Acids Res. 2024.
PMID: 37962425
Free PMC article.
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There and back again: Two views on the protein folding puzzle.
Finkelstein AV, Badretdin AJ, Galzitskaya OV, Ivankov DN, Bogatyreva NS, Garbuzynskiy SO.
Finkelstein AV, et al. Among authors: badretdin aj.
Phys Life Rev. 2017 Jul;21:56-71. doi: 10.1016/j.plrev.2017.01.025. Epub 2017 Jan 27.
Phys Life Rev. 2017.
PMID: 28190683
Review.
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