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106 results

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Draft Genome Sequences of Five Historical Bacillus anthracis Strains.
Sommer DD, Ratnayake S, Radune D, Parker K, Enke S, Ferguson TM, Lovett M, Mallonee A, Rae Z, Rosovitz MJ, Diviak LF, Friss MB, Klubnik JP, Fronda KH, Horn GP, Blank TE, Pope RK, Hanna PC, Bergman NH, Bazinet AL. Sommer DD, et al. Microbiol Resour Announc. 2020 Jan 2;9(1):e01130-19. doi: 10.1128/MRA.01130-19. Microbiol Resour Announc. 2020. PMID: 31896628 Free PMC article.
BLAST-based validation of metagenomic sequence assignments.
Bazinet AL, Ondov BD, Sommer DD, Ratnayake S. Bazinet AL, et al. Among authors: sommer dd. PeerJ. 2018 May 28;6:e4892. doi: 10.7717/peerj.4892. eCollection 2018. PeerJ. 2018. PMID: 29868286 Free PMC article.
Biological Sexing of a 4000-Year-Old Egyptian Mummy Head to Assess the Potential of Nuclear DNA Recovery from the Most Damaged and Limited Forensic Specimens.
Loreille O, Ratnayake S, Bazinet AL, Stockwell TB, Sommer DD, Rohland N, Mallick S, Johnson PLF, Skoglund P, Onorato AJ, Bergman NH, Reich D, Irwin JA. Loreille O, et al. Among authors: sommer dd. Genes (Basel). 2018 Mar 1;9(3):135. doi: 10.3390/genes9030135. Genes (Basel). 2018. PMID: 29494531 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: sommer dd. Microbiome. 2018 Nov 5;6(1):197. doi: 10.1186/s40168-018-0582-5. Microbiome. 2018. PMID: 30396371 Free PMC article.
Genome sequence and rapid evolution of the rice pathogen Xanthomonas oryzae pv. oryzae PXO99A.
Salzberg SL, Sommer DD, Schatz MC, Phillippy AM, Rabinowicz PD, Tsuge S, Furutani A, Ochiai H, Delcher AL, Kelley D, Madupu R, Puiu D, Radune D, Shumway M, Trapnell C, Aparna G, Jha G, Pandey A, Patil PB, Ishihara H, Meyer DF, Szurek B, Verdier V, Koebnik R, Dow JM, Ryan RP, Hirata H, Tsuyumu S, Won Lee S, Seo YS, Sriariyanum M, Ronald PC, Sonti RV, Van Sluys MA, Leach JE, White FF, Bogdanove AJ. Salzberg SL, et al. Among authors: sommer dd. BMC Genomics. 2008 May 1;9:204. doi: 10.1186/1471-2164-9-204. BMC Genomics. 2008. PMID: 18452608 Free PMC article.
Next generation sequence assembly with AMOS.
Treangen TJ, Sommer DD, Angly FE, Koren S, Pop M. Treangen TJ, et al. Among authors: sommer dd. Curr Protoc Bioinformatics. 2011 Mar;Chapter 11:Unit 11.8. doi: 10.1002/0471250953.bi1108s33. Curr Protoc Bioinformatics. 2011. PMID: 21400694 Free PMC article.
Deep sequencing of the oral microbiome reveals signatures of periodontal disease.
Liu B, Faller LL, Klitgord N, Mazumdar V, Ghodsi M, Sommer DD, Gibbons TR, Treangen TJ, Chang YC, Li S, Stine OC, Hasturk H, Kasif S, Segrè D, Pop M, Amar S. Liu B, et al. Among authors: sommer dd. PLoS One. 2012;7(6):e37919. doi: 10.1371/journal.pone.0037919. Epub 2012 Jun 4. PLoS One. 2012. PMID: 22675498 Free PMC article.
Minimus: a fast, lightweight genome assembler.
Sommer DD, Delcher AL, Salzberg SL, Pop M. Sommer DD, et al. BMC Bioinformatics. 2007 Feb 26;8:64. doi: 10.1186/1471-2105-8-64. BMC Bioinformatics. 2007. PMID: 17324286 Free PMC article.
De novo likelihood-based measures for comparing genome assemblies.
Ghodsi M, Hill CM, Astrovskaya I, Lin H, Sommer DD, Koren S, Pop M. Ghodsi M, et al. Among authors: sommer dd. BMC Res Notes. 2013 Aug 22;6:334. doi: 10.1186/1756-0500-6-334. BMC Res Notes. 2013. PMID: 23965294 Free PMC article.
106 results