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Rachel Slayton

Modeling Unit Lead

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HPC

Pathogens/Diseases of Main Interest/Expertise

COVID-19

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Papers

Holmdahl I, Kahn R, Slifka KJ, Dooling K, Slayton RB. (2022). Modeling the impact of vaccination strategies for nursing homes in the context of increased SARS-CoV-2 community transmission and variants. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America

Gowler CD, Slayton RB, Reddy SC, O'Hagan JJ. (2022). Improving mathematical modeling of interventions to prevent healthcare-associated infections by interrupting transmission or pathogens: How common modeling assumptions about colonized individuals impact intervention effectiveness estimates. PloS one, 17(2)

Truelove S, Smith CP, Qin M, Mullany LC, Borchering RK, Lessler J, Shea K, Howerton E, Contamin L, Levander J, Kerr J, Hochheiser H, Kinsey M, Tallaksen K, Wilson S, Shin L, Rainwater-Lovett K, Lemairtre JC, Dent J, Kaminsky J, Lee EC, Perez-Saez J, Hill A, Karlen D, Chinazzi M, Davis JT, Mu K, Xiong X, Pastore Y Piontti A, Vespignani A, Srivastava A, Porebski P, Venkatramanan S, Adiga A, Lewis B, Klahn B, Outten J, Orr M, Harrison G, Hurt B, Chen J, Vullikanti A, Marathe M, Hoops S, Bhattacharya P, Machi D, Chen S, Paul R, Janies D, Thill JC, Galanti M, Yamana TK, Pei S, Shaman JL, Healy JM, Slayton RB, Biggerstaff M, Johansson MA, Runge MC, Viboud C. (2022). Projected resurgence of COVID-19 in the United States in July-December 2021 resulting from the increased transmissibility of the Delta variant and faltering vaccination. eLife, (11)

Zipfel CM, Paul P, Gowler CD, Reddy SC, Stone ND, Jacobs Slifka K, Slayton RB. (2022). Modeling the effectiveness of healthcare personnel reactive testing and screening for the SARS-CoV-2 Omicron variant within nursing homes. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America

Singh BK, Walker J, Paul P, Reddy S, Gowler CD, Jernigan J, Slayton RB. (2022). De-escalation of asymptomatic testing and potential of future COVID-19 outbreaks in US nursing homes amidst rising community vaccination coverage: A modeling study. Vaccine

Cramer EY, Ray EL, Lopez VK, Bracher J, Brennen A, Castro Rivadeneira AJ, Gerding A, Gneiting T, House KH, Huang Y, Jayawardena D, Kanji AH, Khandelwal A, Le K, Mühlemann A, Niemi J, Shah A, Stark A, Wang Y, Wattanachit N, Zorn MW, Gu Y, Jain S, Bannur N, Deva A, Kulkarni M, Merugu S, Raval A, Shingi S, Tiwari A, White J, Abernethy NF, Woody S, Dahan M, Fox S, Gaither K, Lachmann M, Meyers LA, Scott JG, Tec M, Srivastava A, George GE, Cegan JC, Dettwiller ID, England WP, Farthing MW, Hunter RH, Lafferty B, Linkov I, Mayo ML, Parno MD, Rowland MA, Trump BD, Zhang-James Y, Chen S, Faraone SV, Hess J, Morley CP, Salekin A, Wang D, Corsetti SM, Baer TM, Eisenberg MC, Falb K, Huang Y, Martin ET, McCauley E, Myers RL, Schwarz T, Sheldon D, Gibson GC, Yu R, Gao L, Ma Y, Wu D, Yan X, Jin X, Wang YX, Chen Y, Guo L, Zhao Y, Gu Q, Chen J, Wang L, Xu P, Zhang W, Zou D, Biegel H, Lega J, McConnell S, Nagraj VP, Guertin SL, Hulme-Lowe C, Turner SD, Shi Y, Ban X, Walraven R, Hong QJ, Kong S, van de Walle A, Turtle JA, Ben-Nun M, Riley S, Riley P, Koyluoglu U, DesRoches D, Forli P, Hamory B, Kyriakides C, Leis H, Milliken J, Moloney M, Morgan J, Nirgudkar N, Ozcan G, Piwonka N, Ravi M, Schrader C, Shakhnovich E, Siegel D, Spatz R, Stiefeling C, Wilkinson B, Wong A, Cavany S, España G, Moore S, Oidtman R, Perkins A, Kraus D, Kraus A, Gao Z, Bian J, Cao W, Lavista Ferres J, Li C, Liu TY, Xie X, Zhang S, Zheng S, Vespignani A, Chinazzi M, Davis JT, Mu K, Pastore Y Piontti A, Xiong X, Zheng A, Baek J, Farias V, Georgescu A, Levi R, Sinha D, Wilde J, Perakis G, Bennouna MA, Nze-Ndong D, Singhvi D, Spantidakis I, Thayaparan L, Tsiourvas A, Sarker A, Jadbabaie A, Shah D, Della Penna N, Celi LA, Sundar S, Wolfinger R, Osthus D, Castro L, Fairchild G, Michaud I, Karlen D, Kinsey M, Mullany LC, Rainwater-Lovett K, Shin L, Tallaksen K, Wilson S, Lee EC, Dent J, Grantz KH, Hill AL, Kaminsky J, Kaminsky K, Keegan LT, Lauer SA, Lemaitre JC, Lessler J, Meredith HR, Perez-Saez J, Shah S, Smith CP, Truelove SA, Wills J, Marshall M, Gardner L, Nixon K, Burant JC, Wang L, Gao L, Gu Z, Kim M, Li X, Wang G, Wang Y, Yu S, Reiner RC, Barber R, Gakidou E, Hay SI, Lim S, Murray C, Pigott D, Gurung HL, Baccam P, Stage SA, Suchoski BT, Prakash BA, Adhikari B, Cui J, Rodríguez A, Tabassum A, Xie J, Keskinocak P, Asplund J, Baxter A, Oruc BE, Serban N, Arik SO, Dusenberry M, Epshteyn A, Kanal E, Le LT, Li CL, Pfister T, Sava D, Sinha R, Tsai T, Yoder N, Yoon J, Zhang L, Abbott S, Bosse NI, Funk S, Hellewell J, Meakin SR, Sherratt K, Zhou M, Kalantari R, Yamana TK, Pei S, Shaman J, Li ML, Bertsimas D, Skali Lami O, Soni S, Tazi Bouardi H, Ayer T, Adee M, Chhatwal J, Dalgic OO, Ladd MA, Linas BP, Mueller P, Xiao J, Wang Y, Wang Q, Xie S, Zeng D, Green A, Bien J, Brooks L, Hu AJ, Jahja M, McDonald D, Narasimhan B, Politsch C, Rajanala S, Rumack A, Simon N, Tibshirani RJ, Tibshirani R, Ventura V, Wasserman L, O'Dea EB, Drake JM, Pagano R, Tran QT, Ho LST, Huynh H, Walker JW, Slayton RB, Johansson MA, Biggerstaff M, Reich NG. (2022). Evaluation of individual and ensemble probabilistic forecasts of COVID-19 mortality in the United States. Proceedings of the National Academy of Sciences of the United States of America, 119(15)

Walker J, Paul P, Dooling K, Oliver S, Prasad P, Steele M, Gastañaduy PA, Johansson MA, Biggerstaff M, Slayton RB. (2022). Modeling strategies for the allocation of SARS-CoV-2 vaccines in the United States. Vaccine

Holmdahl I, Kahn R, Slifka KJ, Dooling K, Slayton RB. (2021). Modeling the impact of vaccination strategies for nursing homes in the context of increased SARS-CoV-2 community transmission and variants. medRxiv : the preprint server for health sciences

Guagliardo SAJ, Prasad PV, Rodriguez A, Fukunaga R, Novak RT, Ahart L, Reynolds J, Griffin I, Wiegand R, Quilter LAS, Morrison S, Jenkins K, Wall HK, Treffiletti A, White SB, Regan J, Tardivel K, Freeland A, Brown C, Wolford H, Johansson MA, Cetron MS, Slayton RB, Friedman CR. (2021). Cruise ship travel in the era of COVID-19: A summary of outbreaks and a model of public health interventions. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America

See I, Paul P, Slayton RB, Steele MK, Stuckey MJ, Duca L, Srinivasan A, Stone N, Jernigan JA, Reddy SC. (2021). Modeling effectiveness of testing strategies to prevent COVID-19 in nursing homes -United States, 2020. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America

Johansson MA, Quandelacy TM, Kada S, Prasad PV, Steele M, Brooks JT, Slayton RB, Biggerstaff M, Butler JC. (2021). SARS-CoV-2 Transmission From People Without COVID-19 Symptoms. JAMA network open, 4(1)

Kahn R, Holmdahl I, Reddy S, Jernigan J, Mina MJ, Slayton RB. (2021). Mathematical modeling to inform vaccination strategies and testing approaches for COVID-19 in nursing homes. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America

Biggerstaff M, Slayton RB, Johansson MA, Butler JC. (2021). Improving Pandemic Response: Employing Mathematical Modeling to Confront COVID-19. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America

Kahn R, Holmdahl I, Reddy S, Jernigan J, Mina MJ, Slayton RB. (2021). Mathematical modeling to inform vaccination strategies and testing approaches for COVID-19 in nursing homes. medRxiv : the preprint server for health sciences

Appiah GD, Chung A, Bentsi-Enchill AD, Kim S, Crump JA, Mogasale V, Pellegrino R, Slayton RB, Mintz ED. (2020). Typhoid Outbreaks, 1989-2018: Implications for Prevention and Control. The American journal of tropical medicine and hygiene

Octaria R, Chan A, Wolford H, Devasia R, Moon TD, Zhu Y, Slayton RB, Kainer MA. (2020). Web-Based Interactive Tool to Identify Facilities at Risk of Receiving Patients with Multidrug-Resistant Organisms. Emerging infectious diseases, 26(9)

Slayton RB, O'Hagan JJ, Barnes S, Rhea S, Hilscher R, Rubin M, Lofgren E, Singh B, Segre A, Paul P. (2020). Modeling Infectious Diseases in Healthcare Network (MInD-Healthcare) Framework for Describing and Reporting Multidrug Resistant Organism and Healthcare-Associated Infections Agent-Based Modeling Methods. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America

de Man TJB, Yaffee AQ, Zhu W, Batra D, Alyanak E, Rowe LA, McAllister G, Moulton-Meissner H, Boyd S, Flinchum A, Slayton RB, Hancock S, Spalding Walters M, Laufer Halpin A, Rasheed JK, Noble-Wang J, Kallen AJ, Limbago BM. (2020). Multispecies Outbreak of Verona Integron-Encoded Metallo-ß-Lactamase-Producing Multidrugresistant Bacteria Driven by a Promiscuous Incompatibility Group A/C2. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America

Shea K, Borchering RK, Probert WJM, Howerton E, Bogich TL, Li S, Van Panhuis WG, Viboud C, Aguas R, Belov A, Bhargava SH, Cavany S, Chang JC, Chen C, Chen J, Chen S, Chen Y, Childs LM, Chow CC, Crooker I, Del Valle SY, España G, Fairchild G, Gerkin RC, Germann TC, Gu Q, Guan X, Guo L, Hart GR, Hladish TJ, Hupert N, Janies D, Kerr CC, Klein DJ, Klein E, Lin G, Manore C, Meyers LA, Mittler J, Mu K, Núñez RC, Oidtman R, Pasco R, Piontti APY, Paul R, Pearson CAB, Perdomo DR, Perkins TA, Pierce K, Pillai AN, Rael RC, Rosenfeld K, Ross CW, Spencer JA, Stoltzfus AB, Toh KB, Vattikuti S, Vespignani A, Wang L, White L, Xu P, Yang Y, Yogurtcu ON, Zhang W, Zhao Y, Zou D, Ferrari M, Pannell D, Tildesley M, Seifarth J, Johnson E, Biggerstaff M, Johansson M, Slayton RB, Levander J, Stazer J, Salerno J, Runge MC. (2020). COVID-19 reopening strategies at the county level in the face of uncertainty: Multiple Models for Outbreak Decision Support. medRxiv : the preprint server for health sciences

Paul P, Slayton RB, Kallen AJ, Walters MS, Jernigan JA. (2020). Modeling Regional Transmission and Containment of a Healthcare-associated Multidrug-resistant Organism. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America, 70(3)

Han JH, Lapp Z, Bushman F, Lautenbach E, Goldstein EJC, Mattei L, Hofstaedter CE, Kim D, Nachamkin I, Garrigan C, Jain T, Bilker W, Wolford HM, Slayton RB, Wise J, Tolomeo P, Snitkin ES. (2019). Whole-Genome Sequencing To Identify Drivers of Carbapenem-Resistant Klebsiella pneumoniae Transmission within and between Regional Long-Term Acute-Care Hospitals. Antimicrobial agents and chemotherapy, 63(11)

Bower CW, Fridkin DW, Wolford HM, Slayton RB, Kubes JN, Jacob JT, Ray SM, Fridkin SK. (2020). Evaluating Movement of Patients With Carbapenem-resistant Enterobacteriaceae Infections in the Greater Atlanta Metropolitan Area Using Social Network Analysis. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America, 70(1)

Scott RD 2nd., Slayton RB, Lessa FC, Baggs J, Culler SD, McDonald LC, Jernigan JA. (2019). infection in US hospitals. Antimicrobial resistance and infection control, (8)

McKinnell JA, Singh RD, Miller LG, Kleinman K, Gussin G, He J, Saavedra R, Dutciuc TD, Estevez M, Chang J, Heim L, Yamaguchi S, Custodio H, Gohil SK, Park S, Tam S, Robinson PA, Tjoa T, Nguyen J, Evans KD, Bittencourt CE, Lee BY, Mueller LE, Bartsch SM, Jernigan JA, Slayton RB, Stone ND, Zahn M, Mor V, McConeghy K, Baier RR, Janssen L, O'Donnell K, Weinstein RA, Hayden MK, Coady MH, Bhattarai M, Peterson EM, Huang SS. (2019). The SHIELD Orange County Project: Multidrug-resistant Organism Prevalence in 21 Nursing Homes and Long-term Acute Care Facilities in Southern California. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America, 69(9)

Yi SH, Perkins KM, Kazakova SV, Hatfield KM, Kleinbaum DG, Baggs J, Slayton RB, Jernigan JA. (2019). Surgical site infection risk following cesarean deliveries covered by Medicaid or private insurance. Infection control and hospital epidemiology, 40(6)

Wolford HM, Hatfield KM, Paul P, Yi SH, Slayton RB. (2018). The projected burden of complex surgical site infections following hip and knee arthroplasties in adults in the United States, 2020 through 2030. Infection control and hospital epidemiology, 39(10)

Toth DJA, Khader K, Slayton RB, Kallen AJ, Gundlapalli AV, O'Hagan JJ, Fiore AE, Rubin MA, Jernigan JA, Samore MH. (2017). The Potential for Interventions in a Long-term Acute Care Hospital to Reduce Transmission of Carbapenem-Resistant Enterobacteriaceae in Affiliated Healthcare Facilities. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America, 65(4)

Nelson RE, Slayton RB, Stevens VW, Jones MM, Khader K, Rubin MA, Jernigan JA, Samore MH. (2017). Attributable Mortality of Healthcare-Associated Infections Due to Multidrug-Resistant Gram-Negative Bacteria and Methicillin-Resistant Staphylococcus Aureus. Infection control and hospital epidemiology, 38(7)

Lee BY, Bartsch SM, Wong KF, McKinnell JA, Slayton RB, Miller LG, Cao C, Kim DS, Kallen AJ, Jernigan JA, Huang SS. (2016). The Potential Trajectory of Carbapenem-Resistant Enterobacteriaceae, an Emerging Threat to Health-Care Facilities, and the Impact of the Centers for Disease Control and Prevention Toolkit. American journal of epidemiology, 183(5)

Bartsch SM, Huang SS, Wong KF, Slayton RB, McKinnell JA, Sahm DF, Kazmierczak K, Mueller LE, Jernigan JA, Lee BY. (2016). Impact of Delays between Clinical and Laboratory Standards Institute and Food and Drug Administration Revisions of Interpretive Criteria for Carbapenem-Resistant Enterobacteriaceae. Journal of clinical microbiology, 54(11)

Slayton RB, Scott RD, Baggs J, Lessa FC, McDonald LC, Jernigan JA. (2015). The cost-benefit of federal investment in preventing Clostridium difficile infections through the use of a multifaceted infection control and antimicrobial stewardship program. Infection control and hospital epidemiology, 36(6)

Slayton RB, Murphy JL, Morris J, Faith SH, Oremo J, Odhiambo A, Ayers T, Feinman SJ, Brown AC, Quick RE. (2016). A Cluster Randomized Controlled Evaluation of the Health Impact of a Novel Antimicrobial Hand Towel on the Health of Children Under 2 Years Old in Rural Communities in Nyanza Province, Kenya. The American journal of tropical medicine and hygiene, 94(2)

Slayton RB, Toth D, Lee BY, Tanner W, Bartsch SM, Khader K, Wong K, Brown K, McKinnell JA, Ray W, Miller LG, Rubin M, Kim DS, Adler F, Cao C, Avery L, Stone NT, Kallen A, Samore M, Huang SS, Fridkin S, Jernigan JA. (2015). Vital Signs: Estimated Effects of a Coordinated Approach for Action to Reduce Antibiotic-Resistant Infections in Health Care Facilities - United States. MMWR. Morbidity and mortality weekly report, 64(30)

Assi TM, Brown ST, Kone S, Norman BA, Djibo A, Connor DL, Wateska AR, Rajgopal J, Slayton RB, Lee BY. (2013). Removing the regional level from the Niger vaccine supply chain. Vaccine, 31(26)

Slayton RB, Turabelidze G, Bennett SD, Schwensohn CA, Yaffee AQ, Khan F, Butler C, Trees E, Ayers TL, Davis ML, Laufer AS, Gladbach S, Williams I, Gieraltowski LB. (2013). Outbreak of Shiga toxin-producing Escherichia coli (STEC) O157:H7 associated with romaine lettuce consumption, 2011. PLoS One, 8(2)

Slayton RB, Date KA, Mintz ED. (2013). Vaccination for typhoid fever in sub-Saharan Africa. Human vaccines & immunotherapeutics, 9(4)

Assi TM, Rookkapan K, Rajgopal J, Sornsrivichai V, Brown ST, Welling JS, Norman BA, Connor DL, Chen SI, Slayton RB, Laosiritaworn Y, Wateska AR, Wisniewski SR, Lee BY. (2012). How influenza vaccination policy may affect vaccine logistics. Vaccine, 30(30)

Lee BY, Bacon KM, Shah M, Kitchen SB, Connor DL, Slayton RB. (2012). The economic value of a visceral leishmaniasis vaccine in Bihar state, India. The American journal of tropical medicine and hygiene, 86(3)

Lee BY, Assi TM, Rajgopal J, Norman BA, Chen SI, Brown ST, Slayton RB, Kone S, Kenea H, Welling JS, Connor DL, Wateska AR, Jana A, Wiringa AE, Van Panhuis WG, Burke DS. (2012). Impact of introducing the pneumococcal and rotavirus vaccines into the routine immunization program in Niger. American journal of public health, 102(2)

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