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Page 1
Introductions and early spread of SARS-CoV-2 in the New York City area.
Gonzalez-Reiche AS, Hernandez MM, Sullivan MJ, Ciferri B, Alshammary H, Obla A, Fabre S, Kleiner G, Polanco J, Khan Z, Alburquerque B, van de Guchte A, Dutta J, Francoeur N, Melo BS, Oussenko I, Deikus G, Soto J, Sridhar SH, Wang YC, Twyman K, Kasarskis A, Altman DR, Smith M, Sebra R, Aberg J, Krammer F, García-Sastre A, Luksza M, Patel G, Paniz-Mondolfi A, Gitman M, Sordillo EM, Simon V, van Bakel H. Gonzalez-Reiche AS, et al. Among authors: kasarskis a. Science. 2020 Jul 17;369(6501):297-301. doi: 10.1126/science.abc1917. Epub 2020 May 29. Science. 2020. PMID: 32471856 Free PMC article.
Blurred Molecular Epidemiological Lines Between the Two Dominant Methicillin-Resistant Staphylococcus aureus Clones.
Dupper AC, Sullivan MJ, Chacko KI, Mishkin A, Ciferri B, Kumaresh A, Berbel Caban A, Oussenko I, Beckford C, Zeitouni NE, Sebra R, Hamula C, Smith M, Kasarskis A, Patel G, McBride RB, van Bakel H, Altman DR. Dupper AC, et al. Among authors: kasarskis a. Open Forum Infect Dis. 2019 Jun 27;6(9):ofz302. doi: 10.1093/ofid/ofz302. eCollection 2019 Sep. Open Forum Infect Dis. 2019. PMID: 31660395 Free PMC article.
PathoSPOT genomic epidemiology reveals under-the-radar nosocomial outbreaks.
Berbel Caban A, Pak TR, Obla A, Dupper AC, Chacko KI, Fox L, Mills A, Ciferri B, Oussenko I, Beckford C, Chung M, Sebra R, Smith M, Conolly S, Patel G, Kasarskis A, Sullivan MJ, Altman DR, van Bakel H. Berbel Caban A, et al. Among authors: kasarskis a. Genome Med. 2020 Nov 16;12(1):96. doi: 10.1186/s13073-020-00798-3. Genome Med. 2020. PMID: 33198787 Free PMC article.
Genome Plasticity of agr-Defective Staphylococcus aureus during Clinical Infection.
Altman DR, Sullivan MJ, Chacko KI, Balasubramanian D, Pak TR, Sause WE, Kumar K, Sebra R, Deikus G, Attie O, Rose H, Lewis M, Fulmer Y, Bashir A, Kasarskis A, Schadt EE, Richardson AR, Torres VJ, Shopsin B, van Bakel H. Altman DR, et al. Among authors: kasarskis a. Infect Immun. 2018 Sep 21;86(10):e00331-18. doi: 10.1128/IAI.00331-18. Print 2018 Oct. Infect Immun. 2018. PMID: 30061376 Free PMC article.
A Complete Genome Screening Program of Clinical Methicillin-Resistant Staphylococcus aureus Isolates Identifies the Origin and Progression of a Neonatal Intensive Care Unit Outbreak.
Sullivan MJ, Altman DR, Chacko KI, Ciferri B, Webster E, Pak TR, Deikus G, Lewis-Sandari M, Khan Z, Beckford C, Rendo A, Samaroo F, Sebra R, Karam-Howlin R, Dingle T, Hamula C, Bashir A, Schadt E, Patel G, Wallach F, Kasarskis A, Gibbs K, van Bakel H. Sullivan MJ, et al. Among authors: kasarskis a. J Clin Microbiol. 2019 Nov 22;57(12):e01261-19. doi: 10.1128/JCM.01261-19. Print 2019 Dec. J Clin Microbiol. 2019. PMID: 31578260 Free PMC article.
Genetic Basis of Emerging Vancomycin, Linezolid, and Daptomycin Heteroresistance in a Case of Persistent Enterococcus faecium Bacteremia.
Chacko KI, Sullivan MJ, Beckford C, Altman DR, Ciferri B, Pak TR, Sebra R, Kasarskis A, Hamula CL, van Bakel H. Chacko KI, et al. Among authors: kasarskis a. Antimicrob Agents Chemother. 2018 Mar 27;62(4):e02007-17. doi: 10.1128/AAC.02007-17. Print 2018 Apr. Antimicrob Agents Chemother. 2018. PMID: 29339387 Free PMC article.
Whole-genome sequencing identifies emergence of a quinolone resistance mutation in a case of Stenotrophomonas maltophilia bacteremia.
Pak TR, Altman DR, Attie O, Sebra R, Hamula CL, Lewis M, Deikus G, Newman LC, Fang G, Hand J, Patel G, Wallach F, Schadt EE, Huprikar S, van Bakel H, Kasarskis A, Bashir A. Pak TR, et al. Among authors: kasarskis a. Antimicrob Agents Chemother. 2015 Nov;59(11):7117-20. doi: 10.1128/AAC.01723-15. Epub 2015 Aug 31. Antimicrob Agents Chemother. 2015. PMID: 26324280 Free PMC article.
Transmission of methicillin-resistant Staphylococcus aureus via deceased donor liver transplantation confirmed by whole genome sequencing.
Altman DR, Sebra R, Hand J, Attie O, Deikus G, Carpini KW, Patel G, Rana M, Arvelakis A, Grewal P, Dutta J, Rose H, Shopsin B, Daefler S, Schadt E, Kasarskis A, van Bakel H, Bashir A, Huprikar S. Altman DR, et al. Among authors: kasarskis a. Am J Transplant. 2014 Nov;14(11):2640-4. doi: 10.1111/ajt.12897. Epub 2014 Sep 22. Am J Transplant. 2014. PMID: 25250641 Free PMC article.
Machine Learning to Predict Mortality and Critical Events in a Cohort of Patients With COVID-19 in New York City: Model Development and Validation.
Vaid A, Somani S, Russak AJ, De Freitas JK, Chaudhry FF, Paranjpe I, Johnson KW, Lee SJ, Miotto R, Richter F, Zhao S, Beckmann ND, Naik N, Kia A, Timsina P, Lala A, Paranjpe M, Golden E, Danieletto M, Singh M, Meyer D, O'Reilly PF, Huckins L, Kovatch P, Finkelstein J, Freeman RM, Argulian E, Kasarskis A, Percha B, Aberg JA, Bagiella E, Horowitz CR, Murphy B, Nestler EJ, Schadt EE, Cho JH, Cordon-Cardo C, Fuster V, Charney DS, Reich DL, Bottinger EP, Levin MA, Narula J, Fayad ZA, Just AC, Charney AW, Nadkarni GN, Glicksberg BS. Vaid A, et al. Among authors: kasarskis a. J Med Internet Res. 2020 Nov 6;22(11):e24018. doi: 10.2196/24018. J Med Internet Res. 2020. PMID: 33027032 Free PMC article.
Downregulation of exhausted cytotoxic T cells in gene expression networks of multisystem inflammatory syndrome in children.
Beckmann ND, Comella PH, Cheng E, Lepow L, Beckmann AG, Tyler SR, Mouskas K, Simons NW, Hoffman GE, Francoeur NJ, Del Valle DM, Kang G, Do A, Moya E, Wilkins L, Le Berichel J, Chang C, Marvin R, Calorossi S, Lansky A, Walker L, Yi N, Yu A, Chung J, Hartnett M, Eaton M, Hatem S, Jamal H, Akyatan A, Tabachnikova A, Liharska LE, Cotter L, Fennessy B, Vaid A, Barturen G, Shah H, Wang YC, Sridhar SH, Soto J, Bose S, Madrid K, Ellis E, Merzier E, Vlachos K, Fishman N, Tin M, Smith M, Xie H, Patel M, Nie K, Argueta K, Harris J, Karekar N, Batchelor C, Lacunza J, Yishak M, Tuballes K, Scott I, Kumar A, Jaladanki S, Agashe C, Thompson R, Clark E, Losic B, Peters L; Mount Sinai COVID-19 Biobank Team; Roussos P, Zhu J, Wang W, Kasarskis A, Glicksberg BS, Nadkarni G, Bogunovic D, Elaiho C, Gangadharan S, Ofori-Amanfo G, Alesso-Carra K, Onel K, Wilson KM, Argmann C, Bunyavanich S, Alarcón-Riquelme ME, Marron TU, Rahman A, Kim-Schulze S, Gnjatic S, Gelb BD, Merad M, Sebra R, Schadt EE, Charney AW. Beckmann ND, et al. Among authors: kasarskis a. Nat Commun. 2021 Aug 11;12(1):4854. doi: 10.1038/s41467-021-24981-1. Nat Commun. 2021. PMID: 34381049 Free PMC article.
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