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Table representation of search results timeline featuring number of search results per year.

Year Number of Results
2008 1
2009 1
2010 2
2011 2
2013 5
2014 3
2015 2
2016 5
2017 4
2018 3
2019 2
2020 7
2021 7
2022 10
2023 2
2024 1

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49 results

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Page 1
Introducing the Bacterial and Viral Bioinformatics Resource Center (BV-BRC): a resource combining PATRIC, IRD and ViPR.
Olson RD, Assaf R, Brettin T, Conrad N, Cucinell C, Davis JJ, Dempsey DM, Dickerman A, Dietrich EM, Kenyon RW, Kuscuoglu M, Lefkowitz EJ, Lu J, Machi D, Macken C, Mao C, Niewiadomska A, Nguyen M, Olsen GJ, Overbeek JC, Parrello B, Parrello V, Porter JS, Pusch GD, Shukla M, Singh I, Stewart L, Tan G, Thomas C, VanOeffelen M, Vonstein V, Wallace ZS, Warren AS, Wattam AR, Xia F, Yoo H, Zhang Y, Zmasek CM, Scheuermann RH, Stevens RL. Olson RD, et al. Among authors: davis jj. Nucleic Acids Res. 2023 Jan 6;51(D1):D678-D689. doi: 10.1093/nar/gkac1003. Nucleic Acids Res. 2023. PMID: 36350631 Free PMC article.
Predicting antimicrobial resistance using conserved genes.
Nguyen M, Olson R, Shukla M, VanOeffelen M, Davis JJ. Nguyen M, et al. Among authors: davis jj. PLoS Comput Biol. 2020 Oct 19;16(10):e1008319. doi: 10.1371/journal.pcbi.1008319. eCollection 2020 Oct. PLoS Comput Biol. 2020. PMID: 33075053 Free PMC article.
Transmission history of SARS-CoV-2 in humans and white-tailed deer.
Willgert K, Didelot X, Surendran-Nair M, Kuchipudi SV, Ruden RM, Yon M, Nissly RH, Vandegrift KJ, Nelli RK, Li L, Jayarao BM, Levine N, Olsen RJ, Davis JJ, Musser JM, Hudson PJ, Kapur V, Conlan AJK. Willgert K, et al. Among authors: davis jj. Sci Rep. 2022 Jul 15;12(1):12094. doi: 10.1038/s41598-022-16071-z. Sci Rep. 2022. PMID: 35840592 Free PMC article.
PlasmidHostFinder: Prediction of Plasmid Hosts Using Random Forest.
Aytan-Aktug D, Clausen PTLC, Szarvas J, Munk P, Otani S, Nguyen M, Davis JJ, Lund O, Aarestrup FM. Aytan-Aktug D, et al. Among authors: davis jj. mSystems. 2022 Apr 26;7(2):e0118021. doi: 10.1128/msystems.01180-21. Epub 2022 Apr 6. mSystems. 2022. PMID: 35382558 Free PMC article.
GenSLMs: Genome-scale language models reveal SARS-CoV-2 evolutionary dynamics.
Zvyagin M, Brace A, Hippe K, Deng Y, Zhang B, Bohorquez CO, Clyde A, Kale B, Perez-Rivera D, Ma H, Mann CM, Irvin M, Pauloski JG, Ward L, Hayot-Sasson V, Emani M, Foreman S, Xie Z, Lin D, Shukla M, Nie W, Romero J, Dallago C, Vahdat A, Xiao C, Gibbs T, Foster I, Davis JJ, Papka ME, Brettin T, Stevens R, Anandkumar A, Vishwanath V, Ramanathan A. Zvyagin M, et al. Among authors: davis jj. bioRxiv [Preprint]. 2022 Nov 23:2022.10.10.511571. doi: 10.1101/2022.10.10.511571. bioRxiv. 2022. PMID: 36451881 Free PMC article. Preprint.
Detection of SARS-CoV-2 Omicron variant (B.1.1.529) infection of white-tailed deer.
Vandegrift KJ, Yon M, Surendran-Nair M, Gontu A, Amirthalingam S, Nissly RH, Levine N, Stuber T, DeNicola AJ, Boulanger JR, Kotschwar N, Aucoin SG, Simon R, Toal K, Olsen RJ, Davis JJ, Bold D, Gaudreault NN, Richt JA, Musser JM, Hudson PJ, Kapur V, Kuchipudi SV. Vandegrift KJ, et al. Among authors: davis jj. bioRxiv [Preprint]. 2022 Feb 7:2022.02.04.479189. doi: 10.1101/2022.02.04.479189. bioRxiv. 2022. PMID: 35169802 Free PMC article. Updated. Preprint.
Antimicrobial Resistance Prediction in PATRIC and RAST.
Davis JJ, Boisvert S, Brettin T, Kenyon RW, Mao C, Olson R, Overbeek R, Santerre J, Shukla M, Wattam AR, Will R, Xia F, Stevens R. Davis JJ, et al. Sci Rep. 2016 Jun 14;6:27930. doi: 10.1038/srep27930. Sci Rep. 2016. PMID: 27297683 Free PMC article.
Predicting variable gene content in Escherichia coli using conserved genes.
Nguyen M, Elmore Z, Ihle C, Moen FS, Slater AD, Turner BN, Parrello B, Best AA, Davis JJ. Nguyen M, et al. Among authors: davis jj. mSystems. 2023 Aug 31;8(4):e0005823. doi: 10.1128/msystems.00058-23. Epub 2023 Jun 14. mSystems. 2023. PMID: 37314210 Free PMC article.
49 results