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Integrated sample inactivation, amplification, and Cas13-based detection of SARS-CoV-2.
Arizti-Sanz J, Freije CA, Stanton AC, Boehm CK, Petros BA, Siddiqui S, Shaw BM, Adams G, Kosoko-Thoroddsen TF, Kemball ME, Gross R, Wronka L, Caviness K, Hensley LE, Bergman NH, MacInnis BL, Lemieux JE, Sabeti PC, Myhrvold C. Arizti-Sanz J, et al. Among authors: bergman nh. bioRxiv [Preprint]. 2020 May 28:2020.05.28.119131. doi: 10.1101/2020.05.28.119131. bioRxiv. 2020. Update in: Nat Commun. 2020 Nov 20;11(1):5921. doi: 10.1038/s41467-020-19097-x PMID: 32511415 Free PMC article. Updated. Preprint.
Streamlined inactivation, amplification, and Cas13-based detection of SARS-CoV-2.
Arizti-Sanz J, Freije CA, Stanton AC, Petros BA, Boehm CK, Siddiqui S, Shaw BM, Adams G, Kosoko-Thoroddsen TF, Kemball ME, Uwanibe JN, Ajogbasile FV, Eromon PE, Gross R, Wronka L, Caviness K, Hensley LE, Bergman NH, MacInnis BL, Happi CT, Lemieux JE, Sabeti PC, Myhrvold C. Arizti-Sanz J, et al. Among authors: bergman nh. Nat Commun. 2020 Nov 20;11(1):5921. doi: 10.1038/s41467-020-19097-x. Nat Commun. 2020. PMID: 33219225 Free PMC article.
Filovirus RefSeq entries: evaluation and selection of filovirus type variants, type sequences, and names.
Kuhn JH, Andersen KG, Bào Y, Bavari S, Becker S, Bennett RS, Bergman NH, Blinkova O, Bradfute S, Brister JR, Bukreyev A, Chandran K, Chepurnov AA, Davey RA, Dietzgen RG, Doggett NA, Dolnik O, Dye JM, Enterlein S, Fenimore PW, Formenty P, Freiberg AN, Garry RF, Garza NL, Gire SK, Gonzalez JP, Griffiths A, Happi CT, Hensley LE, Herbert AS, Hevey MC, Hoenen T, Honko AN, Ignatyev GM, Jahrling PB, Johnson JC, Johnson KM, Kindrachuk J, Klenk HD, Kobinger G, Kochel TJ, Lackemeyer MG, Lackner DF, Leroy EM, Lever MS, Mühlberger E, Netesov SV, Olinger GG, Omilabu SA, Palacios G, Panchal RG, Park DJ, Patterson JL, Paweska JT, Peters CJ, Pettitt J, Pitt L, Radoshitzky SR, Ryabchikova EI, Saphire EO, Sabeti PC, Sealfon R, Shestopalov AM, Smither SJ, Sullivan NJ, Swanepoel R, Takada A, Towner JS, van der Groen G, Volchkov VE, Volchkova VA, Wahl-Jensen V, Warren TK, Warfield KL, Weidmann M, Nichol ST. Kuhn JH, et al. Among authors: bergman nh. Viruses. 2014 Sep 26;6(9):3663-82. doi: 10.3390/v6093663. Viruses. 2014. PMID: 25256396 Free PMC article.
Mash: fast genome and metagenome distance estimation using MinHash.
Ondov BD, Treangen TJ, Melsted P, Mallonee AB, Bergman NH, Koren S, Phillippy AM. Ondov BD, et al. Among authors: bergman nh. Genome Biol. 2016 Jun 20;17(1):132. doi: 10.1186/s13059-016-0997-x. Genome Biol. 2016. PMID: 27323842 Free PMC article.
Interactive metagenomic visualization in a Web browser.
Ondov BD, Bergman NH, Phillippy AM. Ondov BD, et al. Among authors: bergman nh. BMC Bioinformatics. 2011 Sep 30;12:385. doi: 10.1186/1471-2105-12-385. BMC Bioinformatics. 2011. PMID: 21961884 Free PMC article.
Draft Genome Sequences from a Novel Clade of Bacillus cereus Sensu Lato Strains, Isolated from the International Space Station.
Venkateswaran K, Checinska Sielaff A, Ratnayake S, Pope RK, Blank TE, Stepanov VG, Fox GE, van Tongeren SP, Torres C, Allen J, Jaing C, Pierson D, Perry J, Koren S, Phillippy A, Klubnik J, Treangen TJ, Rosovitz MJ, Bergman NH. Venkateswaran K, et al. Among authors: bergman nh. Genome Announc. 2017 Aug 10;5(32):e00680-17. doi: 10.1128/genomeA.00680-17. Genome Announc. 2017. PMID: 28798168 Free PMC article.
Current progress and future opportunities in applications of bioinformatics for biodefense and pathogen detection: report from the Winter Mid-Atlantic Microbiome Meet-up, College Park, MD, January 10, 2018.
Meisel JS, Nasko DJ, Brubach B, Cepeda-Espinoza V, Chopyk J, Corrada-Bravo H, Fedarko M, Ghurye J, Javkar K, Olson ND, Shah N, Allard SM, Bazinet AL, Bergman NH, Brown A, Caporaso JG, Conlan S, DiRuggiero J, Forry SP, Hasan NA, Kralj J, Luethy PM, Milton DK, Ondov BD, Preheim S, Ratnayake S, Rogers SM, Rosovitz MJ, Sakowski EG, Schliebs NO, Sommer DD, Ternus KL, Uritskiy G, Zhang SX, Pop M, Treangen TJ. Meisel JS, et al. Among authors: bergman nh. Microbiome. 2018 Nov 5;6(1):197. doi: 10.1186/s40168-018-0582-5. Microbiome. 2018. PMID: 30396371 Free PMC article.
46 results