National Institutes of Health, National Institute of General Medical Sciences
People: Kim Wong, Willem van Panhuis
2019 – 2024 Continue Reading Accelerating COVID-19 modeling research by improving the discovery and new use of data: leveraging community engagement and automation of curation workflows
Russo JD, Zhang S, Leung JMG, Bogetti AT, Thompson JP, DeGrave AJ, Torrillo PA, Pratt AJ, Wong KF, Xia J, Copperman J, Adelman JL, Zwier MC, LeBard DN, Zuckerman DM, Chong LT. (2022). WESTPA 2.0: High-Performance Upgrades for Weighted Ensemble Simulations and Analysis of Longer-Timescale Applications. Journal of chemical theory and computation
Lewitus E, Sanders-Buell E, Bose M, O'Sullivan AM, Poltavee K, Li Y, Bai H, Mdluli T, Donofrio G, Slike B, Zhao H, Wong K, Chen L, Miller S, Lee J, Ahani B, Lepore S, Muhammad S, Grande R, Tran U, Dussupt V, Mendez-Rivera L, Nitayaphan S, Kaewkungwal J, Pitisuttithum P, Rerks-Ngarm S, O'Connell RJ, Janes H, Gilbert PB, Gramzinski R, Vasan S, Robb ML, Michael NL, Krebs SJ, Herbeck JT, Edlefsen PT, Mullins JI, Kim JH, Tovanabutra S, Rolland M. (2021). RV144 vaccine imprinting constrained HIV-1 evolution following breakthrough infection. Virus evolution, 7(2)
Bartsch SM, Wong KF, Mueller LE, Gussin GM, McKinnell JA, Tjoa T, Wedlock PT, He J, Chang J, Gohil SK, Miller LG, Huang SS, Lee BY. (2021). Modeling Interventions to Reduce the Spread of Multidrug-Resistant Organisms Between Health Care Facilities in a Region. JAMA network open, 4(8)
Bartsch SM, Wong KF, Stokes-Cawley OJ, McKinnell JA, Cao C, Gussin GM, Mueller LE, Kim DS, Miller LG, Huang SS, Lee BY. (2019). Knowing More of the Iceberg: How Detecting a Greater Proportion of Carbapenem-Resistant Enterobacteriaceae (CRE) Carriers Impacts Transmission. The Journal of infectious diseases
Lee BY, Bartsch SM, Wong KF, Kim DS, Cao C, Mueller LE, Gussin GM, McKinnell JA, Miller LG, Huang SS. (2019). Tracking the spread of carbapenem-resistant Enterobacteriaceae (CRE) through clinical cultures alone underestimates the spread of CRE even more than anticipated. Infection control and hospital epidemiology, 40(6)
Bartsch SM, Huang SS, McKinnell JA, Wong KF, Mueller LE, Miller LG, Lee BY. (2018). The Economic Value of the Centers for Disease Control and Prevention Carbapenem-Resistant Enterobacteriaceae Toolkit. Infection control and hospital epidemiology, 39(5)
deCamp AC, Rolland M, Edlefsen PT, Sanders-Buell E, Hall B, Magaret CA, Fiore-Gartland AJ, Juraska M, Carpp LN, Karuna ST, Bose M, LePore S, Miller S, O'Sullivan A, Poltavee K, Bai H, Dommaraju K, Zhao H, Wong K, Chen L, Ahmed H, Goodman D, Tay MZ, Gottardo R, Koup RA, Bailer R, Mascola JR, Graham BS, Roederer M, O'Connell RJ, Michael NL, Robb ML, Adams E, D'Souza P, Kublin J, Corey L, Geraghty DE, Frahm N, Tomaras GD, McElrath MJ, Frenkel L, Styrchak S, Tovanabutra S, Sobieszczyk ME, Hammer SM, Kim JH, Mullins JI, Gilbert PB. (2017). Sieve analysis of breakthrough HIV-1 sequences in HVTN 505 identifies vaccine pressure targeting the CD4 binding site of Env-gp120. PloS one, 12(11)
Chandran UR, Medvedeva OP, Barmada MM, Blood PD, Chakka A, Luthra S, Ferreira A, Wong KF, Lee AV, Zhang Z, Budden R, Scott JR, Berndt A, Berg JM, Jacobson RS. (2016). TCGA Expedition: A Data Acquisition and Management System for TCGA Data. PloS one, 11(10)
Lee BY, Bartsch SM, Wong KF, McKinnell JA, Cui E, Cao C, Kim DS, Miller LG, Huang SS. (2016). Beyond the Intensive Care Unit (ICU): Countywide Impact of Universal ICU Staphylococcus aureus Decolonization. American journal of epidemiology, 183(5)
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)
Marill KA, Chang Y, Wong KF, Friedman AB. (2017). Estimating negative likelihood ratio confidence when test sensitivity is 100%: A bootstrapping approach. Statistical methods in medical research, 26(4)
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)
Bartsch SM, Huang SS, Wong KF, Avery TR, Lee BY. (2014). The spread and control of norovirus outbreaks among hospitals in a region: a simulation model. Open forum infectious diseases, 1(2)
Lee BY, Yilmaz SL, Wong KF, Bartsch SM, Eubank S, Song Y, Avery TR, Christie R, Brown ST, Epstein JM, Parker JI, Huang SS. (2013). Modeling the regional spread and control of vancomycin-resistant enterococci. American journal of infection control, 41(8)
Lee BY, Bartsch SM, Wong KF, Singh A, Avery TR, Kim DS, Brown ST, Murphy CR, Yilmaz SL, Potter MA, Huang SS. (2013). The importance of nursing homes in the spread of methicillin-resistant Staphylococcus aureus (MRSA) among hospitals. Medical care, 51(3)
Lee BY, Wong KF, Bartsch SM, Yilmaz SL, Avery TR, Brown ST, Song Y, Singh A, Kim DS, Huang SS. (2013). The Regional Healthcare Ecosystem Analyst (RHEA): a simulation modeling tool to assist infectious disease control in a health system. Journal of the American Medical Informatics Association : JAMIA, 20(e1)
Lee BY, Singh A, Bartsch SM, Wong KF, Kim DS, Avery TR, Brown ST, Murphy CR, Yilmaz SL, Huang SS. (2013). The potential regional impact of contact precaution use in nursing homes to control methicillin-resistant Staphylococcus aureus. Infection control and hospital epidemiology, 34(2)
Lee BY, Bartsch SM, Wong KF, Yilmaz SL, Avery TR, Singh A, Song Y, Kim DS, Brown ST, Potter MA, Platt R, Huang SS. (2012). Simulation shows hospitals that cooperate on infection control obtain better results than hospitals acting alone. Health affairs (Project Hope), 31(10)
Rolland M, Edlefsen PT, Larsen BB, Tovanabutra S, Sanders-Buell E, Hertz T, deCamp AC, Carrico C, Menis S, Magaret CA, Ahmed H, Juraska M, Chen L, Konopa P, Nariya S, Stoddard JN, Wong K, Zhao H, Deng W, Maust BS, Bose M, Howell S, Bates A, Lazzaro M, O'Sullivan A, Lei E, Bradfield A, Ibitamuno G, Assawadarachai V, O'Connell RJ, deSouza MS, Nitayaphan S, Rerks-Ngarm S, Robb ML, McLellan JS, Georgiev I, Kwong PD, Carlson JM, Michael NL, Schief WR, Gilbert PB, Mullins JI, Kim JH. (2012). Increased HIV-1 vaccine efficacy against viruses with genetic signatures in Env V2. Nature, 490(7420)
Rolland M, Tovanabutra S, deCamp AC, Frahm N, Gilbert PB, Sanders-Buell E, Heath L, Magaret CA, Bose M, Bradfield A, O'Sullivan A, Crossler J, Jones T, Nau M, Wong K, Zhao H, Raugi DN, Sorensen S, Stoddard JN, Maust BS, Deng W, Hural J, Dubey S, Michael NL, Shiver J, Corey L, Li F, Self SG, Kim J, Buchbinder S, Casimiro DR, Robertson MN, Duerr A, McElrath MJ, McCutchan FE, Mullins JI. (2011). Genetic impact of vaccination on breakthrough HIV-1 sequences from the STEP trial. Nature medicine, 17(3)
Lee BY, Song Y, Bartsch SM, Kim DS, Singh A, Avery TR, Brown ST, Yilmaz SL, Wong KF, Potter MA, Burke DS, Platt R, Huang SS. (2011). Long-term care facilities: important participants of the acute care facility social network?. PLoS One, 6(12)
Herbeck JT, Rolland M, Liu Y, McLaughlin S, McNevin J, Zhao H, Wong K, Stoddard JN, Raugi D, Sorensen S, Genowati I, Birditt B, McKay A, Diem K, Maust BS, Deng W, Collier AC, Stekler JD, McElrath MJ, Mullins JI. (2011). Demographic processes affect HIV-1 evolution in primary infection before the onset of selective processes. Journal of virology, 85(15)
Lee BY, McGlone SM, Wong KF, Yilmaz SL, Avery TR, Song Y, Christie R, Eubank S, Brown ST, Epstein JM, Parker JI, Burke DS, Platt R, Huang SS. (2011). Modeling the spread of methicillin-resistant Staphylococcus aureus (MRSA) outbreaks throughout the hospitals in Orange County, California. Infection control and hospital epidemiology, 32(6)
Wong KF, Sonnenberg JL, Paesani F, Yamamoto T, Vaníček J, Zhang W, Schlegel HB, Case DA, Cheatham TE 3rd., Miller WH, Voth GA. (2010). Proton Transfer Studied Using a Combined Ab Initio Reactive Potential Energy Surface with Quantum Path Integral Methodology. Journal of chemical theory and computation, 6(9)
Herbeck JT, Gottlieb GS, Winkler CA, Nelson GW, An P, Maust BS, Wong KG, Troyer JL, Goedert JJ, Kessing BD, Detels R, Wolinsky SM, Martinson J, Buchbinder S, Kirk GD, Jacobson LP, Margolick JB, Kaslow RA, O'Brien SJ, Mullins JI. (2010). Multistage genomewide association study identifies a locus at 1q41 associated with rate of HIV-1 disease progression to clinical AIDS. The Journal of infectious diseases, 201(4)
Herbeck JT, Gottlieb GS, Wong K, Detels R, Phair JP, Rinaldo CR, Jacobson LP, Margolick JB, Mullins JI. (2009). Fidelity of SNP array genotyping using Epstein Barr virus-transformed B-lymphocyte cell lines: implications for genome-wide association studies. PLoS One, 4(9)
Wong KF, Selzer T, Benkovic SJ, Hammes-Schiffer S. (2005). Impact of distal mutations on the network of coupled motions correlated to hydride transfer in dihydrofolate reductase. Proceedings of the National Academy of Sciences of the United States of America, 102(19)
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