Publications
2024
Mitchell C, Keegan LT, Le TTT, Khader K, Beams A, Samore MH, Toth DJA. Importance of underlying mechanisms for interpreting relative risk of Clostridioides difficile infection among antibiotic-exposed patients in healthcare facilities. PLoS One. 2024 Aug 8;19(8):e0306622.
Pham TM, Zhang Y, Nevers M, Li H, Khader K, Grad YH, Lipsitch M, Samore M. Trends in infection incidence and antimicrobial resistance in the US Veterans Affairs Healthcare System: a nationwide retrospective cohort study (2007-22). Lancet Infect Dis. 2024 Aug 13:S1473-3099(24)00416-X.
Medina A, Sussman J, Sosa N, Valdez M, Andrews JR, Croda J, Estigarribia Sanabria G, Sequera G, Aguirre S, Walter KS. The concentration of tuberculosis within Paraguay's incarcerated and Indigenous populations, 2018-2022. medRxiv [Preprint]. 2024 Jun 1:2024.05.31.24308287.
Duong KNC, Nguyen DT, Kategeaw W, Liang X, Khaing W, Visnovsky LD, Veettil SK, McFarland MM, Nelson RE, Jones BE, Pavia AT, Coates E, Khader K, Love J, Vega Yon GG, Zhang Y, Willson T, Dorsan E, Toth DJA, Jones MM, Samore MH, Chaiyakunapruk N. Incorporating social determinants of health into transmission modeling of COVID-19 vaccine in the US: a scoping review. Lancet Reg Health Am. 2024 Jun 7;35:100806.
Sequera G, Aguirre S, Estigarribia G, Walter KS, Horna-Campos O, Liu YE, Andrews JR, Croda J, Garcia-Basteiro AL. Incarceration and TB: the epidemic beyond prison walls. BMJ Glob Health. 2024 Feb 21;9(2):e014722.
Smith M, Crnich C, Donskey C, Evans CT, Evans M, Goto M, Guerrero B, Gupta K, Harris A, Hicks N, Khader K, Kralovic S, McKinley L, Rubin M, Safdar N,
Sequera G, Estigarribia-Sanabria G, Aguirre S, Piñanez C, Martinez L, Lopez-Olarte R, Andrews JR, Walter KS, Croda J, Garcia-Basteiro AL. Excess tuberculosis risk during and following incarceration in Paraguay: a retrospective cohort study. Lancet Reg Health Am. 2024 Jan 12;31:100668.
Altamirano J, Govindarajan P, Blomkalns AL, Leary S, Robinson I, Chun LX, Shaikh NJ, Robinson ML, Lopez M, Tam GK, Carrington YJ, De Araujo MB, Walter KS, Andrews JR, Burns J, Hogan C, Pinsky BA, Maldonado Y. Natural history of shedding and household transmission of severe acute respiratory syndrome coronavirus 2 using intensive high-resolution sampling. PLoS One. 2024 Jul 25;19(7):e0305300.
2023
Veettil SK, Schwerer L, Kategeaw W, Toth D, Samore MH, Hutubessy R, Chaiyakunapruk N. Scoping review of modelling studies assessing the impact of disruptions to essential health services during COVID-19. BMJ Open. 2023 Sep 26;13(9):e071799.
Nelson Chang NC, Leecaster M, Fridkin S, Dube W, Katz M, Polgreen P, Roghmann MC, Khader K, Li L, Dumyati G, Tsay R, Lynfield R, Mahoehney JP, Nadle J, Hutson J, Pierce R, Zhang A, Wilson C, Haroldsen C, Mulvey D, Reddy SC, Stone ND, Slayton RB, Thompson ND, Stratford K, Samore M, Visnovsky LD. Assessing Pathogen Transmission Opportunities: Variation in Nursing Home Staff-Resident Interactions. J Am Med Dir Assoc. 2023 May;24(5):735.e1-735.e9.
Beams A, Keegan LT, Adler FR, Samore MH, Khader K, Toth DJA. Are Staphylococcus aureus Carrier Types Evidence of Population Heterogeneity? Am J Epidemiol. 2023 Feb 24;192(3):455-466.
Britt NS, Khader K, He T, Willson TM, Effiong A, Timbrook TT, Potter EM, Lodise TP. Examining the clinical impact of rapid multiplex polymerase chain reaction-based diagnostic testing for bloodstream infections in a national cohort of the Veterans Health Administration. Pharmacotherapy. 2023 Jan;43(1):24-34.
2023
Walter KS, Cohen T, Mathema B, Colijn C, Sobkowiak B, Comas I, Goig GA, Croda J, Andrews JR. Signatures of transmission in within-host M. tuberculosis variation. medRxiv [Preprint]. 2023 Dec 29:2023.12.28.23300451.
Walter KS, Altamirano J, Huang C, Carrington YJ, Zhou F, Andrews JR, Maldonado Y. Rapid emergence and transmission of virulence-associated mutations in the oral poliovirus vaccine following vaccination campaigns. NPJ Vaccines. 2023 Sep 25;8(1):137.
Duong KNC, Nguyen DT, Kategeaw W, Liang X, Khaing W, Visnovsky LD, Veettil SK, McFarland MM, Nelson RE, Jones BE, Pavia AT, Coates E, Khader K, Love J, Vega Yon GG, Zhang Y, Willson T, Dorsan E, Toth DJA, Jones MM, Samore MH, Chaiyakunapruk N. Incorporating social determinants of health into transmission modeling of COVID-19 vaccine in the US: a scoping review. Lancet Reg Health Am. 2024 Jun 7;35:100806.
Nelson Chang NC, Leecaster M, Fridkin S, Dube W, Katz M, Polgreen P, Roghmann MC, Khader K, Li L, Dumyati G, Tsay R, Lynfield R, Mahoehney JP, Nadle J, Hutson J, Pierce R, Zhang A, Wilson C, Haroldsen C, Mulvey D, Reddy SC, Stone ND, Slayton RB, Thompson ND, Stratford K, Samore M, Visnovsky LD. Assessing Pathogen Transmission Opportunities: Variation in Nursing Home Staff-Resident Interactions. J Am Med Dir Assoc. 2023 May;24(5):735.e1-735.e9.
Beams A, Keegan LT, Adler FR, Samore MH, Khader K, Toth DJA. Are Staphylococcus aureus Carrier Types Evidence of Population Heterogeneity? Am J Epidemiol. 2023 Feb 24;192(3):455-466.
Britt NS, Khader K, He T, Willson TM, Effiong A, Timbrook TT, Potter EM, Lodise TP. Examining the clinical impact of rapid multiplex polymerase chain reaction-based diagnostic testing for bloodstream infections in a national cohort of the Veterans Health Administration. Pharmacotherapy. 2023 Jan;43(1):24-34.
Sanabria GE, Sequera G, Aguirre S, Méndez J, Dos Santos PCP, Gustafson NW, Godoy M, Ortiz A, Cespedes C, Martínez G, García-Basteiro AL, Andrews JR, Croda J, Walter KS. Phylogeography and transmission of Mycobacterium tuberculosis spanning prisons and surrounding communities in Paraguay. Nat Commun. 2023 Jan 19;14(1):303.
Walter KS, Kim E, Verma R, Altamirano J, Leary S, Carrington YJ, Jagannathan P, Singh U, Holubar M, Subramanian A, Khosla C, Maldonado Y, Andrews JR. Challenges in Harnessing Shared Within-Host Severe Acute Respiratory Syndrome Coronavirus 2 Variation for Transmission Inference. Open Forum Infect Dis. 2023 Jan 7;10(2):ofad001.
2022
Cramer EY, Huang Y, Wang Y, Ray EL, Cornell M, Bracher J, Brennen A, Rivadeneira AJC, Gerding A, House K, Jayawardena D, Kanji AH, Khandelwal A, Le K, Mody V, Mody V, Niemi J, Stark A, Shah A, Wattanchit N, Zorn MW, Reich NG; US COVID-19 Forecast Hub Consortium. The United States COVID-19 Forecast Hub dataset. Sci Data. 2022 Aug 1;9(1):462.
Jones M, Khader K, Branch-Elliman W., Estimated Impact of the US COVID-19 Vaccination Campaign-Getting to 94% of Deaths Prevented. JAMA Network Open. 2022 Jul 1;5(7):e2220391.
Cramer EY, et al. , Evaluation of individual and ensemble probabilistic forecasts of COVID-19 mortality in the United States. Proc Natl Acad Sci. 2022 Apr 12;119(15):e2113561119. Epub 2022 Apr 8.
Keegan LT, Truelove S, Lessler J., Analysis of Vaccine Effectiveness Against COVID-19 and the Emergence of Delta and Other Variants of Concern in Utah. JAMA Netw Open. 2021 Dec 1;4(12):e2140906.
2021
Toth DJA, Beams AB, Keegan LT, Zhang Y, Greene T, Orleans B, Seegert N, Looney A, Alder SC, Samore MH., High variability in transmission of SARS-CoV-2 within households and implications for control. PLoS One. 2021 Nov 10;16(11):e0259097.
Love J, Keegan LT, Angulo FJ, McLaughlin JM, Shea KM, Swerdlow DL, Samore MH, Toth DJA., Continued need for non-pharmaceutical interventions after COVID-19 vaccination in long-term-care facilities. Sci Rep. 2021 Sep 10;11(1):18093.
Love J, Wimmer MT, Toth DJA, Chandran A, Makhija D, Cooper CK, Samore MH, Keegan LT., Comparison of antigen- and RT-PCR-based testing strategies for detection of SARS-CoV-2 in two high-exposure settings. PLoS One. 2021 Sep 7;16(9):e0253407.
Stachel, A†,; Keegan, LT†; Blumberg, S. for the CDC MInD Healthcare Program Modeling transmission of pathogens in healthcare settings, Current Opinion in Infectious Diseases: August 2021 - Volume 34 - Issue 4 - p 333-338
Borchering RK, Viboud C, Howerton E, Smith CP, Truelove S, Runge MC, Reich NG, Contamin L, Levander J, Salerno J, van Panhuis W, Kinsey M, Tallaksen K, Obrecht RF, Asher L, Costello C, Kelbaugh M, Wilson S, Shin L, Gallagher ME, Mullany LC, Rainwater-Lovett K, Lemaitre JC, Dent J, Grantz KH, Kaminsky J, Lauer SA, Lee EC, Meredith HR, Perez-Saez J, Keegan LT, 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, Schlitt J, Corbett P, Telionis PA, Wang L, Peddireddy AS, Hurt B, Chen J, Vullikanti A, Marathe M, Healy JM, Slayton RB, Biggerstaff M, Johansson MA, Shea K, Lessler J. Modeling of Future COVID-19 Cases, Hospitalizations, and Deaths, by Vaccination Rates and Nonpharmaceutical Intervention Scenarios - United States, April-September 2021. MMWR Morb Mortal Wkly Rep. 2021 May 14;70(19):719-724. PMID: 33988185.
Meredith, HR, Arehart, E†, Grantz, KH†, Beams, A, Sheets, T, Nelson, R, Zhang, Y, Vinik, RG, Barfuss, D, Pettit, JC, McCaffrey, K, Dunn, AC, Good, M, Frattaroli, S, Samore, MH, Lessler, J, Lee, EC, and Keegan, LT. Coordinated Strategy for a Model-Based Decision Support Tool for Coronavirus Disease, Utah, USA. EID. 2021 May; 27(5). doi: https://doi.org/10.1101/2020.06.11.20127894
Lemaitre JC†, Grantz KH†, Kaminsky J†, Meredith HR†, Truelove SA†, Lauer SA, Keegan LT, Shah S, Wills J, Kaminsky K, Perez-Saez J, Lessler J, Lee EC. A scenario modeling pipeline for COVID-19 emergency planning. Sci Rep. 2021 Apr 6;11(1):7534. doi: 10.1038/s41598-021-86811-0. PMID: 33824358; PMCID: PMC8024322.
Khader K, Thomas A, Stevens V, Visnovsky L, Nevers M, Toth D, Keegan LT, Jones M, Rubin M, Samore MH. Association Between Contact Precautions and Transmission of Methicillin-Resistant Staphylococcus aureus in Veterans Affairs Hospitals. JAMA Netw Open. 2021 Mar 1;4(3):e210971. doi: 10.1001/jamanetworkopen.2021.0971. PMID: 33720369.
Reimer JR, Ahmed SM, Brintz B, Shah RU, Keegan LT, Ferrari MJ, Leung DT. Using a clinical prediction rule to prioritize diagnostic testing leads to reduced transmission and hospital burden: A modeling example of early SARS-CoV-2. Clin Infect Dis. 2021 Feb 23:ciab177. doi: 10.1093/cid/ciab177. Epub ahead of print. PMID: 33621329; PMCID: PMC7929067.
Ahmed SM, Shah RU, Fernandez V, Grineski S, Brintz B, Samore MH, Ferrari MJ, Leung DT, Keegan LT. Robust Testing in Outpatient Settings to Explore COVID-19 Epidemiology: Disparities in Race/Ethnicity and Age, Salt Lake County, Utah, 2020. Public Health Rep. 2021 Feb 4:33354920988612. doi: 10.1177/0033354920988612. Epub ahead of print. PMID: 33541222.
Brintz BJ, Haaland B, Howard J, Chao DL, Proctor JL, Khan AI, Ahmed SM, Keegan LT, Greene T, Keita AM, Kotloff KL, Platts-Mills JA, Nelson EJ, Levine AC, Pavia AT, Leung DT. A modular approach to integrating multiple data sources into real-time clinical prediction for pediatric diarrhea. Elife. 2021 Feb 2;10:e63009. doi: 10.7554/eLife.63009. PMID: 33527894; PMCID: PMC7853717.
Khader K, Thomas A, Huskins WC, Stevens V, Keegan LT, Visnovsky L, Samore MH. Effectiveness of Contact Precautions to Prevent Transmission of Methicillin-Resistant Staphylococcus aureus and Vancomycin-Resistant Enterococci in Intensive Care Units. Clin Infect Dis. 2021 Jan 29;72(Supplement_1):S42-S49. doi: 10.1093/cid/ciaa1603. PMID: 33512528; PMCID: PMC7844588.
Khader K, Munoz-Price LS, Hanson R, Stevens V, Keegan LT, Thomas A, Pezzin LE, Nattinger A, Singh S, Samore MH. Transmission Dynamics of Clostridioides difficile in 2 High-Acuity Hospital Units. Clin Infect Dis. 2021 Jan 29;72(Supplement_1):S1-S7. doi: 10.1093/cid/ciaa1580. PMID: 33512524; PMCID: PMC7844587.
Toth DJA, Samore MH, Nelson RE. Economic Evaluations of New Antibiotics: The High Potential Value of Reducing Healthcare Transmission Through Decolonization. Clin Infect Dis. 2021 Jan 29;72(Supplement_1):S34-S41. doi: 10.1093/cid/ciaa1590. PMID: 33512525.
Rubin MA, Nelson RE, Samore MH. Matching Methods to Problems: Using Data Science and Transmission Modeling to Combat Antimicrobial Resistance. Clin Infect Dis. 2021 Jan 29;72(Supplement_1):S74-S76. doi: 10.1093/cid/ciaa1691. PMID: 33512529.
Tanner WD, Leecaster MK, Zhang Y, Stratford KM, Mayer J, Visnovsky LD, Alhmidi H, Cadnum JL, Jencson AL, Koganti S, Bennett CP, Donskey CJ, Noble-Wang J, Reddy SC, Rose LJ, Watson L, Ide E, Wipperfurth T, Safdar N, Arasim M, Macke C, Roman P, Krein SL, Loc-Carrillo C, Samore MH. Environmental Contamination of Contact Precaution and Non-Contact Precaution Patient Rooms in Six Acute Care Facilities. Clin Infect Dis. 2021 Jan 29;72(Supplement_1):S8-S16. doi: 10.1093/cid/ciaa1602. PMID: 33512527.
Stevens VW, Russo EM, Young-Xu Y, Leecaster M, Zhang Y, Zhang C, Yu H, Cai B, Gonzalez EN, Gerding DN, Lawrence J, Samore MH. Identification of patients at risk of Clostridioides difficile infection for enrollment in vaccine clinical trials. Vaccine. 2021 Jan 15;39(3):536-544. doi: 10.1016/j.vaccine.2020.12.016. Epub 2020 Dec 14. PMID: 33334614.
Toth DJA, Khader K. Efficient SARS-CoV-2 surveillance strategies to prevent deadly outbreaks in vulnerable populations. BMC Med. 2021 Jan 22;19(1):25. doi: 10.1186/s12916-020-01886-2. PMID: 33478447; PMCID: PMC7819767.
2020
Khader, K., Leecaster, M., Ray, W., Haroldsen, C., Keegan, L., Samore, M., Rubin, M. (2020). Evaluating Healthcare Worker Movements and Patient Interactions Within ICU Rooms. Infection Control & Hospital Epidemiology, 41(S1), s222-s224.
Sutton JD, Stevens VW, Chang NN, Khader K, Timbrook TT, Spivak ES. Oral β-Lactam Antibiotics vs Fluoroquinolones or Trimethoprim-Sulfamethoxazole for Definitive Treatment of Enterobacterales Bacteremia From a Urine Source. JAMA Netw Open. 2020 Oct 1;3(10):e2020166. doi: 10.1001/jamanetworkopen.2020.20166. PMID: 33030555.
Toth DJA, Keegan LT, Samore MH, Khader K, O'Hagan JJ, Yu H, Quintana A, Swerdlow DL. Modeling the potential impact of administering vaccines against Clostridioides difficile infection to individuals in healthcare facilities. Vaccine. 2020 Aug 18;38(37):5927-5932. doi: 10.1016/j.vaccine.2020.06.081. Epub 2020 Jul 21. PMID: 32703744.
Stevens VW, Khader K, Echevarria K, Nelson RE, Zhang Y, Jones M, Timbrook TT, Samore MH, Rubin MA. Use of Oral Vancomycin for Clostridioides difficile Infection and the Risk of Vancomycin-Resistant Enterococci. Clin Infect Dis. 2020 Jul 27;71(3):645-651. doi: 10.1093/cid/ciz871. PMID: 31504328.
Truelove SA†, Keegan LT†, Moss WJ, Chaisson LH, Macher E, Azman AS, Lessler J. Clinical and Epidemiological Aspects of Diphtheria: A Systematic Review and Pooled Analysis. Clin Infect Dis. 2020 Jun 24;71(1):89-97. doi: 10.1093/cid/ciz808. PMID: 31425581; PMCID: PMC7312233.
Stevens VW, Shoemaker HE, Jones MM, Jones BE, Nelson RE, Khader K, Samore MH, Rubin MA. Validation of the SHEA/IDSA severity criteria to predict poor outcomes among inpatients and outpatients with Clostridioides difficile infection. Infect Control Hosp Epidemiol. 2020 May;41(5):510-516. doi: 10.1017/ice.2020.8. Epub 2020 Jan 30. PMID: 31996280.
Marra AR, Perencevich EN, Nelson RE, Samore M, Khader K, Chiang HY, Chorazy ML, Herwaldt LA, Diekema DJ, Kuxhausen MF, Blevins A, Ward MA, McDanel JS, Nair R, Balkenende E, Schweizer ML. Incidence and Outcomes Associated With Clostridium difficile Infections: A Systematic Review and Meta-analysis. JAMA Netw Open. 2020 Jan 3;3(1):e1917597. doi: 10.1001/jamanetworkopen.2019.17597. PMID: 31913488; PMCID: PMC6991241.
2019
Lynch KE, Viernes B, Khader K, DuVall SL, Schroeck FR. Sex and the Diagnostic Pathway to Bladder Cancer among Veterans: No Evidence of Disparity. Womens Health Issues. 2020 Mar-Apr;30(2):128-135. doi: 10.1016/j.whi.2019.11.001. Epub 2019 Dec 24. PMID: 31870696.
Toth DJA, Khader K, Beams A, Samore MH. Model-based Assessment of the Effect of Contact Precautions Applied to Surveillance-detected Carriers of Carbapenemase-producing Enterobacteriaceae in Long-term Acute Care Hospitals. Clin Infect Dis. 2019 Sep 13;69(Suppl 3):S206-S213. doi: 10.1093/cid/ciz557. PMID: 31517974; PMCID: PMC6761367.
Kaminsky J, Keegan LT, Metcalf CJE, Lessler J. Perfect counterfactuals for epidemic simulations. Philos Trans R Soc Lond B Biol Sci. 2019 Jul 8;374(1776):20180279. doi: 10.1098/rstb.2018.0279. PMID: 31104612; PMCID: PMC6558563.
Khader K, Thomas A, Jones M, Toth D, Stevens V, Samore MH; CDC Modeling Infectious Diseases in Healthcare Program (MInD-Healthcare). Variation and trends in transmission dynamics of Methicillin-resistant Staphylococcus aureus in veterans affairs hospitals and nursing homes. Epidemics. 2019 Sep;28:100347. doi: 10.1016/j.epidem.2019.100347. Epub 2019 May 29. PMID: 31171468; PMCID: PMC7006838.
2018
Nelson RE, Stevens VW, Jones M, Khader K, Schweizer ML, Perencevich EN, Rubin MA, Samore MH. Attributable Cost and Length of Stay Associated with Nosocomial Gram-Negative Bacterial Cultures. Antimicrob Agents Chemother. 2018 Oct 24;62(11):e00462-18. doi: 10.1128/AAC.00462-18. PMID: 30150480; PMCID: PMC6201096.
Livorsi DJ, Chorazy ML, Schweizer ML, Balkenende EC, Blevins AE, Nair R, Samore MH, Nelson RE, Khader K, Perencevich EN. A systematic review of the epidemiology of carbapenem-resistant Enterobacteriaceae in the United States. Antimicrob Resist Infect Control. 2018 Apr 24;7:55. doi: 10.1186/s13756-018-0346-9. PMID: 29719718; PMCID: PMC5926528.
Thomas A, Khader K, Redd A, Leecaster M, Zhang Y, Jones M, Greene T, Samore M. Extended models for nosocomial infection: parameter estimation and model selection. Math Med Biol. 2018 Mar 16;35(suppl_1):29-49. doi: 10.1093/imammb/dqx010. PMID: 29040678; PMCID: PMC6145396.
Lauer SA, Sakrejda K, Ray EL, Keegan LT, Bi Q, Suangtho P, Hinjoy S, Iamsirithaworn S, Suthachana S, Laosiritaworn Y, Cummings DAT, Lessler J, Reich NG. Prospective forecasts of annual dengue hemorrhagic fever incidence in Thailand, 2010-2014. Proc Natl Acad Sci U S A. 2018 Mar 6;115(10):E2175-E2182. doi: 10.1073/pnas.1714457115. Epub 2018 Feb 20. PMID: 29463757; PMCID: PMC5877997.
Perencevich EN, Harris AD, Pfeiffer CD, Rubin MA, Hill JN, Baracco GJ, Evans ME, Klutts JS, Streit JA, Nelson RE, Khader K, Reisinger HS. Establishing a Research Agenda for Preventing Transmission of Multidrug-Resistant Organisms in Acute-Care Settings in the Veterans Health Administration. Infect Control Hosp Epidemiol. 2018 Feb;39(2):189-195. doi: 10.1017/ice.2017.309. PMID: 29417927.
2017
Keegan LT, Lessler J, Johansson MA. Quantifying Zika: Advancing the Epidemiology of Zika With Quantitative Models. J Infect Dis. 2017 Dec 16;216(suppl_10):S884-S890. doi: 10.1093/infdis/jix437. PMID: 29267915; PMCID: PMC5853254.
Nelson RE, Deka R, Khader K, Stevens VW, Schweizer ML, Rubin MA. Dynamic transmission models for economic analysis applied to health care-associated infections: A review of the literature. Am J Infect Control. 2017 Dec 1;45(12):1382-1387. doi: 10.1016/j.ajic.2017.02.035. Epub 2017 Sep 25. PMID: 28958442.
McDanel J, Schweizer M, Crabb V, Nelson R, Samore M, Khader K, Blevins AE, Diekema D, Chiang HY, Nair R, Perencevich E. Incidence of Extended-Spectrum β-Lactamase (ESBL)-Producing Escherichia coli and Klebsiella Infections in the United States: A Systematic Literature Review. Infect Control Hosp Epidemiol. 2017 Oct;38(10):1209-1215. doi: 10.1017/ice.2017.156. Epub 2017 Jul 31. PMID: 28758612.
Nelson RE, Slayton RB, Stevens VW, Jones MM, Khader K, Rubin MA, Jernigan JA, Samore MH. Attributable Mortality of Healthcare-Associated Infections Due to Multidrug-Resistant Gram-Negative Bacteria and Methicillin-Resistant Staphylococcus Aureus. Infect Control Hosp Epidemiol. 2017 Jul;38(7):848-856. doi: 10.1017/ice.2017.83. Epub 2017 Jun 1. PMID: 28566096.
Toth DJA, Khader K, Slayton RB, Kallen AJ, Gundlapalli AV, O'Hagan JJ, Fiore AE, Rubin MA, Jernigan JA, Samore MH. The Potential for Interventions in a Long-term Acute Care Hospital to Reduce Transmission of Carbapenem-Resistant Enterobacteriaceae in Affiliated Healthcare Facilities. Clin Infect Dis. 2017 Aug 15;65(4):581-587. doi: 10.1093/cid/cix370. PMID: 28472233.
Stevens VW, Nelson RE, Schwab-Daugherty EM, Khader K, Jones MM, Brown KA, Greene T, Croft LD, Neuhauser M, Glassman P, Goetz MB, Samore MH, Rubin MA. Comparative Effectiveness of Vancomycin and Metronidazole for the Prevention of Recurrence and Death in Patients With Clostridium difficile Infection. JAMA Intern Med. 2017 Apr 1;177(4):546-553. doi: 10.1001/jamainternmed.2016.9045. PMID: 28166328.
Khader K, Thomas A, Huskins WC, Leecaster M, Zhang Y, Greene T, Redd A, Samore MH. A Dynamic Transmission Model to Evaluate the Effectiveness of Infection Control Strategies. Open Forum Infect Dis. 2017 Feb 10;4(1):ofw247. doi: 10.1093/ofid/ofw247. PMID: 28702465; PMCID: PMC5499871.
Chiang HY, Perencevich EN, Nair R, Nelson RE, Samore M, Khader K, Chorazy ML, Herwaldt LA, Blevins A, Ward MA, Schweizer ML. Incidence and Outcomes Associated With Infections Caused by Vancomycin-Resistant Enterococci in the United States: Systematic Literature Review and Meta-Analysis. Infect Control Hosp Epidemiol. 2017 Feb;38(2):203-215. doi: 10.1017/ice.2016.254. Epub 2016 Nov 9. PMID: 27825401.
2016
Beams AB, Toth DJ, Khader K, Adler FR. Harnessing Intra-Host Strain Competition to Limit Antibiotic Resistance: Mathematical Model Results. Bull Math Biol. 2016 Sep;78(9):1828-1846. doi: 10.1007/s11538-016-0201-1. Epub 2016 Sep 26. PMID: 27670431.
Nelson RE, Schweizer ML, Perencevich EN, Nelson SD, Khader K, Chiang HY, Chorazy ML, Blevins A, Ward MA, Samore MH. Costs and Mortality Associated With Multidrug-Resistant Healthcare-Associated Acinetobacter Infections. Infect Control Hosp Epidemiol. 2016 Oct;37(10):1212-8. doi: 10.1017/ice.2016.145. Epub 2016 Jul 13. PMID: 27406609.
Pettey WB, Toth DJ, Redd A, Carter ME, Samore MH, Gundlapalli AV. Using network projections to explore co-incidence and context in large clinical datasets: Application to homelessness among U.S. Veterans. J Biomed Inform. 2016 Jun;61:203-13. doi: 10.1016/j.jbi.2016.03.023. Epub 2016 Apr 1. PMID: 27041237.
Toth DJ, Tanner WD, Khader K, Gundlapalli AV. Estimates of the risk of large or long-lasting outbreaks of Middle East respiratory syndrome after importations outside the Arabian Peninsula. Epidemics. 2016 Sep;16:27-32. doi: 10.1016/j.epidem.2016.04.002. Epub 2016 May 7. PMID: 27663788; PMCID:PMC5047297.
Nelson RE, Stevens VW, Khader K, Jones M, Samore MH, Evans ME, Douglas Scott R 2nd, Slayton RB, Schweizer ML, Perencevich EL, Rubin MA. Economic Analysis of Veterans Affairs Initiative to Prevent Methicillin-Resistant Staphylococcus aureus Infections. Am J Prev Med. 2016 May;50(5 Suppl 1):S58-S65. doi: 10.1016/j.amepre.2015.10.016. PMID: 27102860.
Leecaster M, Toth DJ, Pettey WB, Rainey JJ, Gao H, Uzicanin A, Samore M. Estimates of Social Contact in a Middle School Based on Self-Report and Wireless Sensor Data. PLoS One. 2016 Apr 21;11(4):e0153690. doi: 10.1371/journal.pone.0153690. PMID: 27100090; PMCID: PMC4839567.
Nelson RE, Jones M, Leecaster M, Samore MH, Ray W, Huttner A, Huttner B, Khader K, Stevens VW, Gerding D, Schweizer ML, Rubin MA. An Economic Analysis of Strategies to Control Clostridium Difficile Transmission and Infection Using an Agent-Based Simulation Model. PLoS One. 2016 Mar 31;11(3):e0152248. doi: 10.1371/journal.pone.0152248. PMID: 27031464; PMCID: PMC4816545.
Keegan LT, Dushoff J. Estimating finite-population reproductive numbers in heterogeneous populations. J Theor Biol. 2016 May 21;397:1-12. doi: 10.1016/j.jtbi.2016.01.022. Epub 2016 Feb 15. PMID: 26891919; PMCID: PMC7094132.
2015
Toth DJ, Gundlapalli AV, Khader K, Pettey WB, Rubin MA, Adler FR, Samore MH. Estimates of Outbreak Risk from New Introductions of Ebola with Immediate and Delayed Transmission Control. Emerg Infect Dis. 2015 Aug;21(8):1402-8. doi: 10.3201/eid2108.150170. PMID: 26196264; PMCID: PMC4517734.
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. Vital Signs: Estimated Effects of a Coordinated Approach for Action to Reduce Antibiotic-Resistant Infections in Health Care Facilities - United States. MMWR Morb Mortal Wkly Rep. 2015 Aug 7;64(30):826-31. PMID: 26247436; PMCID: PMC4654955.
Toth DJ, Leecaster M, Pettey WB, Gundlapalli AV, Gao H, Rainey JJ, Uzicanin A, Samore MH. The role of heterogeneity in contact timing and duration in network models of influenza spread in schools. J R Soc Interface. 2015 Jul 6;12(108):20150279. doi: 10.1098/rsif.2015.0279. PMID: 26063821; PMCID: PMC4528592.
Nelson RE, Nelson SD, Khader K, Perencevich EL, Schweizer ML, Rubin MA, Graves N, Harbarth S, Stevens VW, Samore MH. The Magnitude of Time-Dependent Bias in the Estimation of Excess Length of Stay Attributable to Healthcare-Associated Infections. Infect Control Hosp Epidemiol. 2015 Sep;36(9):1089-94. doi: 10.1017/ice.2015.129. Epub 2015 Jun 4. PMID: 26041436.
Stevens VW, Khader K, Nelson RE, Jones M, Rubin MA, Brown KA, Evans ME, Greene T, Slade E, Samore MH. Excess Length of Stay Attributable to Clostridium difficile Infection (CDI) in the Acute Care Setting: A Multistate Model. Infect Control Hosp Epidemiol. 2015 Sep;36(9):1024-30. doi: 10.1017/ice.2015.132. Epub 2015 May 26. PMID: 26006153.
Jones M, Nielson C, Gupta K, Khader K, Evans M. Collateral benefit of screening patients for methicillin-resistant Staphylococcus aureus at hospital admission: isolation of patients with multidrug-resistant gram-negative bacteria. Am J Infect Control. 2015 Jan;43(1):31-4. doi: 10.1016/j.ajic.2014.09.016. Epub 2014 Nov 7. PMID: 25442394.
2014
Khader K, Leecaster M, Greene T, Samore M, Thomas A. Improved hidden Markov model for nosocomial infections. Math Med Biol. 2014 Dec;31(4):338-52. doi:10.1093/imammb/dqt013. Epub 2013 Jul 19. PMID: 23873442.
Keegan L, Dushoff J. Analytic calculation of finite-population reproductive numbers for direct- and vector-transmitted diseases with homogeneous mixing. Bull Math Biol. 2014 May;76(5):1143-54. doi: 10.1007/s11538-014-9950-x. Epub 2014 Apr 23. PMID: 24756856; PMCID: PMC4013491.
Fridkin S, Baggs J, Fagan R, Magill S, Pollack LA, Malpiedi P, Slayton R, Khader K, Rubin MA, Jones M, Samore MH, Dumyati G, Dodds-Ashley E, Meek J, Yousey-Hindes K, Jernigan J, Shehab N, Herrera R, McDonald CL, Schneider A, Srinivasan A; Centers for Disease Control and Prevention (CDC). Vital signs: improving antibiotic use among hospitalized patients. MMWR Morb Mortal Wkly Rep. 2014 Mar 7;63(9):194-200. PMID: 24598596; PMCID: PMC4584728.
2013
Rubin MA, Jones M, Leecaster M, Khader K, Ray W, Huttner A, Huttner B, Toth D, Sablay T, Borotkanics RJ, Gerding DN, Samore MH. A simulation-based assessment of strategies to control Clostridium difficile transmission and infection. PLoS One. 2013 Nov 21;8(11):e80671. doi: 10.1371/journal.pone.0080671. PMID: 24278304; PMCID: PMC3836736.
Thomas A, Redd A, Khader K, Leecaster M, Greene T, Samore M. Efficient parameter estimation for models of healthcare-associated pathogen transmission in discrete and continuous time. Math Med Biol. 2015 Mar;32(1):79-98. doi: 10.1093/imammb/dqt021. Epub 2013 Oct 10. PMID: 24114068.
Keegan LT, Dushoff J. Population-level effects of clinical immunity to malaria. BMC Infect Dis. 2013 Sep 11;13:428. doi: 10.1186/1471-2334-13-428. PMID: 24024630; PMCID: PMC3848694.
Toth DJ, Gundlapalli AV, Schell WA, Bulmahn K, Walton TE, Woods CW, Coghill C, Gallegos F, Samore MH, Adler FR. Quantitative models of the dose-response and time course of inhalational anthrax in humans. PLoS Pathog. 2013 Aug;9(8):e1003555. doi: 10.1371/journal.ppat.1003555. Epub 2013 Aug 15. PMID: 24058320; PMCID: PMC3744436.
Leecaster M, Gesteland P, Greene T, Walton N, Gundlapalli A, Rolfs R, Byington C, Samore M. Modeling the variations in pediatric respiratory syncytial virus seasonal epidemics. BMC Infect Dis. 2011 Apr 21;11:105. doi: 10.1186/1471-2334-11-105. PMID: 21510889; PMCID: PMC3094225.
Staes CJ, Wuthrich A, Gesteland P, Allison MA, Leecaster M, Shakib JH, Carter ME, Mallin BM, Mottice S, Rolfs R, Pavia AT, Wallace B, Gundlapalli AV, Samore M, Byington CL. Public health communication with frontline clinicians during the first wave of the 2009 influenza pandemic. J Public Health Manag Pract. 2011 Jan-Feb;17(1):36-44. doi: 10.1097/PHH.0b013e3181ee9b29. PMID: 21135659; PMCID: PMC3070179.
South BR, Chapman WW, Delisle S, Shen S, Kalp E, Perl T, Samore MH, Gundlapalli AV. Optimizing A syndromic surveillance text classifier for influenza-like illness: Does document source matter? AMIA Annu Symp Proc. 2008 Nov 6;2008:692-6. PMID: 18999051; PMCID: PMC2655960.
Toth DJ. Bifurcation structure of a chemostat model for an age-structured predator and its prey. J Biol Dyn. 2008 Oct;2(4):428-48. doi: 10.1080/17513750802360853. PMID: 22876907.
South BR, Phansalkar S, Swaminathan AD, Delisle S, Perl T, Samore MH. Adaptation of the NegEx algorithm to Veterans Affairs electronic text notes for detection of influenza-like illness (ILI). AMIA Annu Symp Proc. 2007 Oct 11:1118. PMID: 18694215.
Ampofo K, Gesteland PH, Bender J, Mills M, Daly J, Samore M, Byington C, Pavia AT, Srivastava R. Epidemiology, complications, and cost of hospitalization in children with laboratory-confirmed influenza infection. Pediatrics. 2006 Dec;118(6):2409-17. doi: 10.1542/peds.2006-1475. PMID: 17142526.
Toth D, Kot M. Limit cycles in a chemostat model for a single species with age structure. Math Biosci. 2006 Jul;202(1):194-217. doi: 10.1016/j.mbs.2006.03.008. Epub 2006 Apr 19. PMID: 16624336.
Byington CL, Samore MH, Stoddard GJ, Barlow S, Daly J, Korgenski K, Firth S, Glover D, Jensen J, Mason EO, Shutt CK, Pavia AT. Temporal trends of invasive disease due to Streptococcus pneumoniae among children in the intermountain west: emergence of nonvaccine serogroups. Clin Infect Dis. 2005 Jul 1;41(1):21-9. doi: 10.1086/430604. Epub 2005 May 26. PMID: 15937758.
Rentz AC, Samore MH, Stoddard GJ, Faix RG, Byington CL. Risk factors associated with ampicillin-resistant infection in newborns in the era of group B streptococcal prophylaxis. Arch Pediatr Adolesc Med. 2004 Jun;158(6):556-60. doi: 10.1001/archpedi.158.6.556. PMID: 15184219.
Shutt CK, Samore M, Carroll KC. Comparison of the Denka Seiken slide agglutination method to the quellung test for serogrouping of Streptococcus pneumoniae isolates. J Clin Microbiol. 2004 Mar;42(3):1274-6. doi: 10.1128/jcm.42.3.1274-1276.2003. PMID: 15004092; PMCID: PMC356897.
McCormick AW, Whitney CG, Farley MM, Lynfield R, Harrison LH, Bennett NM, Schaffner W, Reingold A, Hadler J, Cieslak P, Samore MH, Lipsitch M. Geographic diversity and temporal trends of antimicrobial resistance in Streptococcus pneumoniae in the United States. Nat Med. 2003 Apr;9(4):424-30. doi: 10.1038/nm839. Epub 2003 Mar 10. PMID: 12627227.
Gundlapalli AV, Rubin MA, Samore MH, Lopansri B, Lahey T, McGuire HL, Winthrop KL, Dunn JJ, Willick SE, Vosters RL, Waeckerle JE, Carroll KC, Gwaltney JM Jr, Hayden FG, Elstad MR, Sande MA. Influenza, Winter Olympiad, 2002. Emerg Infect Dis. 2006 Jan;12(1):144-6. doi: 10.3201/eid1201.050645. PMID: 16494733; PMCID: PMC3291389.