Pre-prints and Publications

2020

Kissler SM, Fauver JR, Mack C, Tai C, Shiue KY, Kalinich CC, Jednak S, Ott IM, Vogels CBF, Wohlgemuth J, Weisberger J, DiFiori J, Anderson DJ, Mancell J, Ho DD, Grubaugh ND*, Grad YH*. Viral dynamics of SARS-CoV-2 infection and the predictive value of repeat testing. medRxiv. 2020. *co-senior authors.

Ma K, Mortimer T, Duckett M, Hicks A, Wheeler N, Sánchez-Busó L, Grad YH. Increased power from conditional bacterial genome-wide association identifies Neisseria gonorrhoeae macrolide resistance mutations . Nature Communications. 2020. 11:5374 | https://doi.org/10.1038/s41467-020-19250-6.

Olesen SW, Lipsitch M, Grad YH. The role of “spillover” in antibiotic resistance. PNAS. 2020. In press.

Lipsitch M, Grad YH, Sette A, Crotty S. Memory T cells and herd immunity to SARS-CoV-2. Nature Reviews Immunology. 2020. https://doi.org/10.1038/s41577-020-00460-4

Kissler SM, Kishore N, Prabhu M, Goffman D, Beilin Y, Landau R, Gyamfi-Bannerman C, Bateman BT, Katz D, Gal J, Bianco A, Stone J, Larremore D, Buckee CO, Grad YH. Reductions in commuting mobility correlate with geographic differences in SARS-CoV-2 prevalence in New York City. Nature Communications. 2020. 11:4674 doi.org/10.1038/s41467-020-18271

Bubar KM, Kissler SM, Lipsitch M, Cobey S, Grad YH, Larremore DB. Model-informed COVID-19 vaccine prioritization strategies by age and serostatus. medRxiv. 2020.

Ashcroft MA, Chow EPF, Lee DYJ, De Petra V, Soumilas M, Tschaepe M, Zhang L, Ingle DJ, Taiaroa G, Hicks AL, Grad YH, Howden BP, Fairley CK, Williamson DA. Genomic assessment of within-host population variation in Neisseria gonorrhoeae: Implications for gonorrhoea transmission. medRxiv. 2020.

Ma KC, Mortimer TD, Grad YH. Efflux pump antibiotic binding site mutations are associated with azithromycin nonsusceptibility in clinical Neisseria gonorrhoeae isolates. mBio. 2020. 11:e01509-20.

Mortimer TD, Pathela P, Crawley A, Rakeman JL, Lin Y, Harris SR, Blank S, Schillinger JA*, Grad YH*. The distribution and spread of susceptible and resistant Neisseria gonorrhoeae across demographic groups in a major metropolitan center. Clinical Infectious Diseases. 2020. ciaa1229, https://doi.org/10.1093/cid/ciaa1229. *co-senior authors.

Ma KC, Mortimer TD, Hicks AL, Wheeler NE, Sánchez-Busó L, Golparian D, Taiaroa G, Rubin DHF, Wang Y, Williamson DA, Unemo M, Harris SR, Grad YH. Adaptation to the cervical environment is associated with increased antibiotic susceptibility in Neisseria gonorrhoeae. Nature Communications. 2020. 11:4126 https://doi.org/10.1038/s41467-020-17980-1 . 

Kahn R, Kennedy-Shaffer L, Grad YH, Robins JM, Lipsitch M. Potential biases arising from epidemic dynamics in observational seroprotection studies. American Journal of Epidemiology. 2020 Sep 1:kwaa188. doi: 10.1093/aje/kwaa188.

Larremore DB, Bubar KM, Grad YH. Implications of test characteristics and population seroprevalence on ‘immune passport’ strategies. Clinical Infectious Diseases. 2020. doi.org/10.1093/cid/ciaa1019. 

Brynildsrud OB, Osnes MN, Ma KC, Grad YH, Koomey JM, Caugant DA, Eldholm V. High-frequency phase-switching of modB methylase is associated with phenotypic ceftriaxone susceptibility in Neisseria gonorrhoeae. bioRxiv. 2020.

Sánchez-Busó L, Yeats CA, Taylor B, Goater R, Underwood A, Abudahab K, Argimon S, Ma KC, Mortimer TD, Cole MJ, Grad YH, Martin I, Raphael BH, Shafer WM, Spiteri G, Town K, Wi T, Harris SR, Unemo M, Aanensen D. A community-driven resource for genomic surveillance of Neisseria gonorrhoeae at Pathogenwatch. bioRxiv. 2020.

Larremore DB, Fosdick B, Fosdick BK, Zhang S, Grad YH. Jointly modeling prevalence, sensitivity and specificity for optimal sample allocation. bioRxiv. 2020.

Hicks AL, Kissler SM, Mortimer TD, Ma KC, Taiaroa G, Ashcroft M, Williamson DA, Lipsitch M, Grad YH. Targeted surveillance strategies for efficient detection of novel antibiotic resistance variants. eLife. 2020;9:e56367. DOI: https://doi.org/10.7554/eLife.56367. Accompanied by a commentary

Kissler SM, Klevens M, Barnett ML*, Grad YH*. The roles of stewardship and socioeconomic status in geographic variation in antibiotic prescribing: an observational study. medRxiv. 2020. *co-senior authors.

Larremore DB, Fosdick BK, Bubar KM, Zhang S, Kissler SM, Metcalf CJE, Buckee CO, Grad YH. Estimating SARS-CoV-2 seroprevalence and epidemiological parameters with uncertainty from serological surveys. medRxiv. 2020.

Peak CM, Kahn R, Grad YH, Childs LM, Li R, Lipsitch M, Buckee CO. Modeling the comparative impact of individual quarantine vs active monitoring of contacts for the mitigation of COVID-19. Lancet Infectious Diseases. 2020 May 20:S1473-3099(20)30361-3.

Kissler SM, Tedijanto C, Goldstein E, Grad YH*, Lipsitch M*. Projecting the transmission dynamics of SARS-CoV-2 through the post-pandemic period. Science. 2020 May 22;368(6493):860-868. *co-senior authors

Buckee CO, Balsari S, Chan J, Crosas M, Dominici F, Gasser U, Grad YH, Grenfell B, Halloran ME, Kraemer MUG, Lipsitch M, Metcalf CJE, Meyers LA, Perkins TA, Santillana M, Scarpino SV, Viboud C, Wesolowski A, Schroeder A. Aggregated mobility data could help fight COVID-19. Science. 23 Mar 2020: DOI: 10.1126/science.abb8021

Kissler SM, Klevens M, Barnett ML, Grad YH. Distinguishing the roles of antibiotic stewardship and reductions in outpatient visits in generating a five-year decline in antibiotic prescribing. Clinical Infectious Diseases. 2020 Mar 16. pii: ciaa269. doi: 10.1093/cid/ciaa269. 

Yaesoubi R, Cohen T, Hsu K, Gift TL, Chesson H, Salomon JA, Grad YH. Adaptive guidelines for the treatment of gonorrhea to increase the effective lifespan of antibiotics: A mathematical modeling study. PLOS Medicine. 2019. 17(4):e1003077.

Rubin DHF, Ross JDC, Grad YH. The frontiers of addressing antibiotic resistance in Neisseria gonorrhoeae. Translational Research. 2020 Feb 29. pii: S1931-5244(20)30031-1. doi: 10.1016/j.trsl.2020.02.002.

Břinda K, Callendrello A, Ma KC, MacFadden DR, Charalampous T, Lee RS, Cowley L, Wadsworth CB, Grad YH, Kucherov G, O’Grady J, Baym M, and Hanage WP. Rapid heuristic inference of antibiotic resistance and susceptibility by genomic neighbor typing. Nature Microbiology. 2020. doi.org/10.1038/s41564-019-0656-6.

Palace SG, Wang Y, Rubin DHF, Welsh MA, Mortimer TD, Cole K, Eyre DW, Walker S, Grad YH. RNA polymerase mutations cause cephalosporin resistance in clinical Neisseria gonorrhoeae isolates. eLife. 2020;9:e51407 DOI: 10.7554/eLife.51407.

Volz EM, Wiuf C, Grad YH, Frost SDW, Dennis AM, Didelot X. Identification of hidden population structure in time-scaled phylogenies. Systematic Biology. 2020. Feb 12. pii: syaa009. doi: 10.1093/sysbio/syaa009.

Tedijanto CR, Grad YH, Lipsitch M. Potential impact of outpatient stewardship interventions on antibiotic exposures of bacterial pathogens. eLife. 2020. 2020 Feb 5;9. pii: e52307. doi: 10.7554/eLife.52307.

Wohl S, Metsky HC, Schaffner SF, Piantadosi A, Burns M, Lewnard JA, Chak B, Krasilnikova LA, Siddle KJ, Matranga CB, Bankamp B, Bennigan S, Sabina B, Byrne EH, McNall RJ, Park DJ, Gharib S, Fitzgerald S, Berriera P, Fleming S, Lett S, Rota PA, Madoff LC, MacInnis BL, Yozwiak NL, Smole S, Grad YH, Sabeti PC. Combining genomics and epidemiology to track mumps virus transmission in the United States. PLOS Biology. 2020. 18(2): e3000611.

2019

Hadjineophytou C, Anonsen JH, Wang N, Ma KC, Viburiene R, Vik Å, Grad YH, Koomey JM. Genetic determinants of genus-wide glycan diversity in a bacterial protein glycosylation system. PLOS Genetics. 2019 Dec 23;15(12):e1008532. doi: 10.1371/journal.pgen.1008532.

Ryu S, Cowling B, Wu P, Olesen S, Fraser C, Sun DS, Lipsitch M, Grad YH. Case-based surveillance of antimicrobial resistance with full susceptibility profiles. JAC Antimicrob Resist. 2019. doi:10.1093/jacamr/dlz070

Coe KA, Lee W, Komazin-Meredeith G, Meredith TC, Grad YH, Walker S. Comparative Tn-Seq reveals common daptomycin resistance determinants in Staphylococcus aureus despite strain-dependent differences in essentiality of shared cell envelope genes. PLOS Pathogens. 2019 Nov 18;15(11):e1007862. doi: 10.1371/journal.ppat.1007862.

Hicks AL, Kissler SM, Lipsitch M*, Grad YH*. Surveillance to maintain the sensitivity of genotype-based antibiotic resistance diagnostics. PLOS Biology. 2019. 17(11): e3000547. *co-senior authors.

Arnold BJ, Sohail M, Wadsworth CB, Corander J, Hanage WP, Sunyaev S, Grad YH. Fine-scale haplotype structure reveals strong signatures of positive selection in a recombining bacterial pathogen. Molecular Biology and Evolution. 2019 Oct 7. pii: msz225. doi: 10.1093/molbev/msz225.

Abuelezam NN, Reshef YA, Novak D, Grad YH, Seage GR, Mayer K, Lipsitch M. Interaction patterns of men who have sex with men on a geosocial networking phone application in seven U.S. metropolitan areas. J Med Internet Res. 2019; 21(8):e13766 doi 10.2196/13766

Hicks AL, Wheeler N, Sanchez-Buso L, Rakeman JL, Harris SR, Grad YH. Evaluation of parameters affecting performance and reliability of machine learning-based antibiotic susceptibility testing from whole genome sequencing data. PLOS Computational Biology. 2019. 15(9): e1007349. https://doi.org/10.1371/journal.pcbi.1007349.

Williamson D, Chow E, Gorrie C, Seemann, T, Ingle D, Higgins N, Easton M, Taiaroa G, Grad YH, Kwong J, Fairley C, Chen M, Howden B. Bridging of Neisseria gonorrhoeae across diverse sexual networks in the HIV pre-exposure prophylaxis (PrEP) era: A clinical and molecular epidemiological study. Nature Communications. 2019 Sep 5;10(1):3988. doi: 10.1038/s41467-019-12053-4.

Sanchez-Buso L, Golparian D, Corander J, Grad YH, Ohnishi M, Flemming R, Parkhill J, Bentley SD, Unemo M, Harris SR. The impact of antimicrobials on gonococcal evolution. Nature Microbiology. 2019 Jul 29. doi: 10.1038/s41564-019-0501-y.

Wadsworth CB, Sater MRA, Bhattacharyya RP, Grad YH. Impact of population structure on the design of RNA-based diagnostics for antibiotic resistance in Neisseria gonorrhoeae. Antimicrob. Agents Chemother. 2019 May 28. pii: AAC.00549-19. doi: 10.1128/AAC.00549-19.

Olesen SW, MacFadden D, Grad YH. Cumulative probability of receiving an antibiotic prescription. New England Journal of Medicine. 2019; 380:1872-1873. DOI: 10.1056/NEJMc1816699.

Olesen SW and Grad YH. Deciphering the impact of bystander selection for antibiotic resistance in Neisseria gonorrhoeae. Journal of Infectious Diseases. 2019 Apr 8. pii: jiz156. doi: 10.1093/infdis/jiz156. Selected as “Editor’s Choice”!

Klevens M, Caten E, Olesen SW, DeMaria A Jr, Troppy S, Grad YH. Outpatient antibiotic prescribing in Massachusetts, 2011-2015. Open Forum Infectious Diseases. 2019.

Järvenpää M, Sater M, Lagoudas G, Blainey P, Miller L, McKinnnell J, Huang S, Grad YH*, Marttinen P*. A Bayesian model of acquisition and clearance of bacterial colonization incorporating within-host variation. PLoS Comput Biol 15(4): e1006534. https://doi.org/10.1371/journal.pcbi.1006534 *co-senior authors

Wang Y, Baglo Y, Ferrer-Espada R, Goh XS, Held KD, Grad YH, Gu Y, Gelfand JA, Dai T. Photo-inactivation of Neisseria gonorrhoeae: A paradigm changing approach for combating antibiotic-resistant gonococcal infection. J Infect Dis. 2019 Jan 9. doi: 10.1093/infdis/jiz018.

2018

Olesen SW, Barnett M, MacFadden D, Brownstein JS, Hernández-Díaz S, Lipsitch M, Grad YH. The distribution of antibiotic use and its effect on antibiotic resistance. eLife. 2018. 7:e39435 DOI: 10.7554/eLife.39435. Highlighted in CIDRAP

Tedijanto C, Olesen SW, Grad YH, Lipsitch M. Estimating the proportion of bystander selection for antibiotic resistance in the US. PNAS. 2018. 201810840; DOI: 10.1073/pnas.1810840115.

Olesen SW, Torrone EA, Papp JR, Kirkcaldy RD, Lipsitch M, Grad YH. Azithromycin susceptibility in Neisseria gonorrhoeae and seasonal macrolide use. Journal of Infectious Diseases. 2018 Sep 15. doi: 10.1093/infdis/jiy551. Highlighted in CIDRAP

Olesen SW, Grad YH. Racial/ethnic disparities in antibiotic use. Emerging Infectious Diseases. 2018. DOI: 10.3201/eid2411.180762. Highlighted in CIDRAP

Hicks N, Yang J, Zhang X, Zhao B, Grad YH, Liu L, Ou X, Chang Z, Xia H, Zhou Y, Wang S, Dong J, Sun L, Zhu Y, Zhao Y, Jin Q, Fortune S. Clinically prevalent mutations in Mycobacterium tuberculosis alter propionate metabolism and mediate multidrug tolerance. Nature Microbiology. 2018 Aug 6. doi: 10.1038/s41564-018-0218-3.

Wadsworth CB, Arnold BJ, Abdul Sater MR, Grad YH. Azithromycin resistance through interspecific acquisition of an epistasis dependent efflux pump component and transcriptional regulator in Neisseria gonorrhoeae. mBio. 2018. 9:e01419-18. Highlighted in an accompanying commentary!

Olesen SW, Barnett ML, McFadden DR, Lipsitch M, Grad YH. Trends in outpatient antibiotic prescribing practice among US older adults, 2011-2015: an observational study. BMJ. 2018 Jul 27;362:k3155. doi: 10.1136/bmj.k3155. Featured in CIDRAP article.

Mortimer TD, Grad YH. Applications of genomics to slow the spread of multidrug-resistant Neisseria gonorrhoeae. Ann NY Acad Sci. 2018 doi: 10.1111/nyas.13871
To download a PDF version of the article click here

Lewnard JA and Grad YH. Vaccine waning and mumps re-emergence in the United States. Science Translational Medicine. 2018. DOI: 10.1126/scitranslmed.aao5945 Press in NYT, CNN, Science, and Philly Inquirer among others. And highlighted in a great piece on waning vaccine immunity in Science.

Cobey S, Gouma S, Parkhouse K, Chambers BS, Ertl HC, Schmader KE, Halpin RA, Lin X, Stockwell TB, Das S, Landon E, Tesic V, Youngster I, Pinsky BA, Wentworth D, Hensley SE, Grad YH. Poor immunogenicity, not vaccine strain egg adaptation, may explain the low H3N2 influenza vaccine effectiveness in 2012-13. Clinical Infectious Diseases. 2018 Feb 20. doi: 10.1093/cid/ciy097. Press in ABC News, among others.

Arnold BJ, Gutmann MU, Grad YH, Sheppard SK, Corander J, Lipsitch M, Hanage WP. Weak Epistasis May Drive Adaptation in Recombining Bacteria. Genetics. 2018 Jan 12. pii: genetics.300662.2017. doi: 10.1534/genetics.117.300662.

2017

Kanjilal S, Sater M, Thayer M, Lagoudas G, Kim S, Blainey P, Grad YH. Increasing Antibiotic Susceptibility In Staphylococcus aureus In Boston, Massachusetts, 2000-2014: An Observational Study. J Clin Micro. 2017 Nov 1. pii: JCM.01160-17.

Ma KC, Unemo M, Jeverica S, Kirkcaldy RD, Takahashi H, Ohnishi M, Grad YH. Genomic characterization of urethritis-associated Neisseria meningitidis shows that a wide range of N. meningitidis strains can cause urethritis. J Clin Micro. 2017 Dec;55(12):3374-3383.
To download a PDF version of the article click here

Tuite AR, Gift TL, Chesson HW, Hsu K, Salomon JA, Grad YH. Impact of rapid susceptibility testing and antibiotic selection strategy on the emergence and spread of antibiotic resistance in gonorrhea. J Infect Dis. 2017 Nov 27;216(9):1141-1149.

Lau JW, Kim YI, Murphy R, Newman R, Yang X, Zody M, DeVincenzo J, Grad YH. Deep sequencing of RSV from an adult challenge study and from naturally infected infants reveals heterogeneous diversification dynamics. Virology. 2017 Oct;510:289-296. Selected for Virology Highlights Blog!

Piantadosi A, Mukerji SS, Chitneni P, Cho TA, Cosimi LA, Hung DT, Goldberg MB, Sabeti PC, Kuritzkes DR, Grad YH. Metagenomic sequencing of an echovirus 30 genome from cerebrospinal fluid of a patient with aseptic meningitis and orchitis. Open Forum Infect Dis. 2017 Jul 28;4(3):ofx138.

Eyre DW, De Silva D, Cole K, Peters J, Cole MJ, Grad YH, Demczuk W, Martin I, Mulvey MR, Crook DW, Walker AS, Peto TEA, Paul J. WGS to predict antibiotic MICs for Neisseria gonorrhoeae J Antimicrob Chemother. 2017. Mar 10. doi: 10.1093/jac/dkx067

Peak C, Childs L, Grad Y, Buckee CO. A Quantitative Comparison of Non-Pharmaceutical Interventions for Containing Emerging Epidemics. Proc Natl Acad Sci. 2017. published ahead of print March 28, 2017, doi:10.1073/pnas.1616438114

Cerqueira GC, Earl AM, Ernst CM, Grad YH, Dekker JP, Feldgarden M, Chapman SB, Reis-Cunha JL, Shea TP, Young S, Zeng Q, Delaney ML, Kim D, Peterson EM, O’Brien TF, Ferraro MJ, Hooper DC, Huang SS, Kirby JE, Onderdonk AB, Birren BW, Hung DT, Cosimi LA, Wortman JR, Murphy CI, Hanage WP. Multi-institute analysis of carbapenem resistance reveals remarkable diversity, unexplained mechanisms, and limited clonal outbreaks. Proc Natl Acad Sci. 2017 Jan 17. pii: 201616248. doi: 10.1073/pnas.1616248114

2016

Johnson SR, Grad Y, Abrams AJ, Pettus K, Trees DL. Use of whole-genome sequencing data to analyze 23S rRNA-mediated azithromycin resistance. Int J Antimicrob Agents. 2017 Feb;49(2):252-254. doi: 10.1016/j.ijantimicag.2016.10.023. Epub 2016 Dec 19.

Grad YH, Harris SR, Kirkcaldy RD, Green AG, Marks DS, Bentley SD, Trees D, Lipsitch M. Genomic epidemiology of gonococcal resistance to extended spectrum cephalosporins, macrolides, and fluoroquinolones in the US, 2000-2013. J Infect Dis. 2016 Nov 15;214(10):1579-1587. Epub 2016 Sep 16.

Harrison OB, Clemence M, Dillard JP, Tang CM, Trees D, Grad YH, Maiden MC. Genomic analyses of Neisseria gonorrhoeae reveal an association of the gonococcal genetic island with antimicrobial resistanceJ Infect. 2016 Dec;73(6):578-587. doi: 10.1016/j.jinf.2016.08.010. Epub 2016 Aug 26.

Chang H-H, Huber RG, Bond PJ, Grad YH, Camerini D, Mauer-Stroh S, Lipsitch M.  Systematic analysis of protein identity between Zika virus and other arthropod-borne viruses . Bull World Health Organ. Bulletin of the World Health Organization 2017;95:517-525I. E-pub: 18 July 2016

De Silva D, Peters J, Cole K, Cole MJ, Cresswell F, Dean G, Dave J, Thomas D Rh, Foster K, Waldram A, Wilson DJ, Didelot X, Grad YH, Crook DW, Peto TEA, Walker AS, Paul J, Eyre DW. Whole-genome sequencing to determine Neisseria gonorrhoeae transmission: an observational study. Lancet Infect Dis. 2016 Nov;16(11):1295-1303. doi: 10.1016/S1473-3099(16)30157-8. Epub 2016 Jul 12.

Unemo M, Golparian D, Sánchez-Busó L, Grad Y, Jacobsson S, Ohnishi M, Lahra M, Limnios A, Sikora A, Wi T, Harris S. The novel 2016 WHO Neisseria gonorrhoeae reference strains for global quality assurance of laboratory investigations – phenotypic, genetic and reference genome characterization. J Antimicrob Chemother. 2016 Nov;71(11):3096-3108. Epub 2016 Jul 17.

Grad YH, Fortune SM. Biodiversity and hypervirulence of Listeria monocytogenes. Nat Genet. 2016 Mar;48(3):229-30. doi: 10.1038/ng.3515.

Grad YH, Goldstein E, Lipsitch M, White P. Improving control of antibiotic resistant gonorrhea by integrating research agendas across disciplines: key questions arising from mathematical modeling. J Infect Dis. 2016 Mar 15;213(6):883-90. doi: 10.1093/infdis/jiv517. Epub 2015 Oct 30.

 

2015 and before

Chang H, Cohen T, Grad YH, Hanage WP, O’Brien TF, Lispitch M. Origin and proliferation of multiple drug resistance in bacterial pathogens. Microbiol Mol Biol Rev. 2015 Mar;79(1):101-16. doi: 10.1128/MMBR.00039-14.

Hollenbeck BL, Gannon S, Qian Q, and Grad YH. Genome sequence and analysis of resistance and virulence determinants in a strain of Neisseria mucosa causing native-valve endocarditis. JMM Case Reports. 2015.

Pessia A, Grad YH, Cobey S, Puranen JS, Corander J. K-Pax2: Bayesian identification of cluster-defining amino acid positions in large sequence datasets. Microbial Genomics. 2015 Jul 15;1(1):e000025. doi: 10.1099/mgen.0.000025. eCollection 2015 Jul.

Grad YH, Lipsitch M. Epidemiologic data and pathogen genome sequences: a powerful synergy for public healthGenome Biol. 2014 Nov 18;15(11):538. doi: 10.1186/s13059-014-0538-4.

Johnson SR, Grad Y, Ganakammal SR, Burroughs M, Frace M, et al. In Vitro selection of Neisseria gonorrhoeae mutants with elevated MIC values and increased resistance to cephalosporins. Antimicrob Agents Chemother. 2014 Nov;58(11):6986-9. doi: 10.1128/AAC.03082-14. Epub 2014 Sep 8.

Watkins ER, Grad YH, Gupta S, Buckee CO. Contrasting within- and between-host immune selection shapes Neisseria Opa repertoires. Sci Rep. 2014 Oct 9;4:6554. doi: 10.1038/srep06554.

Grad YH, Newman R, Zody M, Yang X, Murphy R, et al. Within-host whole-genome deep sequencing and diversity analysis of human respiratory syncytial virus infection reveals dynamics of genomic diversity in the absence and presence of immune pressure. J Virol. 2014 Jul;88(13):7286-93.

Grad YH, Kirkcaldy RD, Trees D, Dordel J, Harris SR, et al. Genomic epidemiology of Neisseria gonorrhoeae with reduced susceptibility to cefixime in the USA: a retrospective observational study. Lancet Infect Dis. 2014 Mar;14(3):220-6. doi: 10.1016/S1473-3099(13)70693-5. Epub 2014 Jan 22.

Grad YH, Waldor MK. Deciphering the origins and tracking the evolution of cholera epidemics with whole-genome-based molecular epidemiology. MBio. 2013 Sep 10;4(5):e00670-13. doi: 10.1128/mBio.00670-13

Croucher NJ, Harris SR, Grad YH, Hanage WP. Bacterial genomes in epidemiology–present and future. Philos Trans R Soc Lond B Biol Sci. 2013 Feb 4;368(1614):20120202. doi: 10.1098/rstb.2012.0202. Print 2013 Mar 19.

Wei K, Vaidya A, Rohloff P, Sun YP, Grad Y. Interactive medical case. A patient with fevers and fatigue. N Engl J Med. 2013 Feb 14;368(7):e9. doi: 10.1056/NEJMimc1208059.

Grad YH, Godfrey P, Cerquiera GC, Mariani-Kurkdjian P, Gouali M, et al. Comparative genomics of recent Shiga toxin-producing Escherichia coli O104:H4: short-term evolution of an emerging pathogen. MBio. 2013 Jan 22;4(1):e00452-12. doi: 10.1128/mBio.00452-12.

Grad YH, Lipsitch M, Griggs AD, Haas BJ, Shea TP, et al. Reply to Guy et al.: Support for a bottleneck in the 2011 Escherichia coli O104:H4 outbreak in Germany. Proc Natl Acad Sci U S A. 2012 Feb 21;109(8):3065-70. doi: 10.1073/pnas.1121491109. Epub 2012 Feb 6.

Grad YH, Miller JC, Lipsitch M. Cholera modeling: challenges to quantitative analysis and predicting the impact of interventions. Epidemiology. 2012 Jul;23(4):523-30. doi: 10.1097/EDE.0b013e3182572581.

Grad YH, Lipsitch M, Feldgarden M, Arachchi HM, Cerqueira GC, et al. Genomic epidemiology of the Escherichia coli O104:H4 outbreaks in Europe, 2011. Proc Natl Acad Sci U S A. 2012 Feb 21;109(8):3065-70. doi: 10.1073/pnas.1121491109. Epub 2012 Feb 6.

Grad YH, Lipsitch M, Aiello AE. Secular trends in Helicobacter pylori seroprevalence in adults in the United States: evidence for sustained race/ethnic disparities. Am J Epidemiol. 2012 Jan 1;175(1):54-9. doi: 10.1093/aje/kwr288. Epub 2011 Nov 15.

Grad YH, Seifter JL, Levy BD, Loscalzo J. Clinical problem-solving. Bitter pills. N Engl J Med. 2010 Nov 4