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Aimee Taylor

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Understanding and controlling antibiotic resistance

National Institutes of Health, National Institute of General Medical Sciences
People: Laura White, Ted Cohen, William Hanage, Ben Cowling, Tyler Brown, Joseph Wu, Joseph Lewnard, Aimee Taylor, Pablo Martinez de Salazar, Lerato Magosi, Mauricio Santillana, Christine Tedijanto, Tigist Menkir, Sze Man Leung, Hsiao-Han Chang, Caroline Buckee, Pamela Martinez, Marc Lipsitch
2009 – 2021 Continue Reading Understanding and controlling antibiotic resistance

Papers

Plucinski MM, Wesolowski A, Gerlovina I, Taylor AR, Briggs J, Aranda-Díaz A, Golumbeanu M, Bajic M, Bailey JA, Barratt JLN, Buckee C, Deme AB, Felger I, Ghansah A, Hastings I, Kattenberg JH, Mayor A, Menard D, Moriarty LF, Neafsey D, Okell L, Oyier I, Raman J, Rosenthal PJ, Rosanas-Urgell A, Verity R, Volkman SK, Nsanzabana C, Greenhouse B. (2026). Target product profiles of laboratory and data analytical frameworks for genotyping to monitor antimalarial efficacy. PLOS global public health, 6(5)

Ruybal-Pesántez S, Amaya-Romero J, Berube S, Brazeau NF, Diop MF, Hathaway N, Hendry JA, McCann K, Murie K, Murphy M, Niaré K, Phelan J, Schaffner SF, Simkin A, Taylor AR, Greenhouse B, Wesolowski A, Verity R. (2026). Toward an Open Analysis Ecosystem for Plasmodium Genomic Epidemiology. The American journal of tropical medicine and hygiene

Ruybal-Pesántez S, Amaya-Romero J, Bérubé S, Brazeau NF, Diop MF, Hathaway N, Hendry J, McCann K, Murie K, Murphy M, Niaré K, Phelan J, Schaffner SF, Simkin A, Taylor AR, Greenhouse B, Wesolowski A, Verity R. (2025). Towards an open analysis ecosystem for Plasmodium genomic epidemiology. medRxiv : the preprint server for health sciences

Camponovo F, Buckee CO, Taylor AR. (2023). Genomic framework for malaria parasites: challenging but necessary. Trends in parasitology, 39(4)

Carrasquilla M, Early AM, Taylor AR, Knudson Ospina A, Echeverry DF, Anderson TJC, Mancilla E, Aponte S, Cárdenas P, Buckee CO, Rayner JC, Sáenz FE, Neafsey DE, Corredor V. (2022). Resolving drug selection and migration in an inbred South American Plasmodium falciparum population with identity-by-descent analysis. PLoS pathogens, 18(12)

Camponovo F, Buckee CO, Taylor AR. (2022). Measurably recombining malaria parasites. Trends in parasitology, 39(1)

LaVerriere E, Schwabl P, Carrasquilla M, Taylor AR, Johnson ZM, Shieh M, Panchal R, Straub TJ, Kuzma R, Watson S, Buckee CO, Andrade CM, Portugal S, Crompton PD, Traore B, Rayner JC, Corredor V, James K, Cox H, Early AM, MacInnis BL, Neafsey DE. (2022). Design and implementation of multiplexed amplicon sequencing panels to serve genomic epidemiology of infectious disease: a malaria case study. Molecular ecology resources

Neafsey DE, Taylor AR, MacInnis BL. (2021). Advances and opportunities in malaria population genomics. Nature reviews. Genetics

Kishore N, Taylor AR, Jacob PE, Vembar N, Cohen T, Buckee CO, Menzies NA. (2021). Evaluating the reliability of mobility metrics from aggregated mobile phone data as proxies for SARS-CoV-2 transmission in the USA: a population-based study. The Lancet. Digital health

Niehus R, De Salazar PM, Taylor AR, Lipsitch M. (2020). Using observational data to quantify bias of traveller-derived COVID-19 prevalence estimates in Wuhan, China. The Lancet. Infectious diseases

Diez Benavente E, Campos M, Phelan J, Nolder D, Dombrowski JG, Marinho CRF, Sriprawat K, Taylor AR, Watson J, Roper C, Nosten F, Sutherland CJ, Campino S, Clark TG. (2020). A molecular barcode to inform the geographical origin and transmission dynamics of Plasmodium vivax malaria. PLoS genetics, 16(2)

Watson JA, Taylor AR, Ashley EA, Dondorp A, Buckee CO, White NJ, Holmes CC. (2020). A cautionary note on the use of unsupervised machine learning algorithms to characterise malaria parasite population structure from genetic distance matrices. PLoS genetics, 16(10)

De Salazar PM, Niehus R, Taylor A, Buckee CO, Lipsitch M. (2020). Identifying Locations with Possible Undetected Imported Severe Acute Respiratory Syndrome Coronavirus 2 Cases by Using Importation Predictions. Emerging infectious diseases, 26(7)

Niehus R, De Salazar PM, Taylor AR, Lipsitch M. (2020). Quantifying bias of COVID-19 prevalence and severity estimates in Wuhan, China that depend on reported cases in international travelers. medRxiv : the preprint server for health sciences

Taylor AR, Echeverry DF, Anderson TJC, Neafsey DE, Buckee CO. (2020). Identity-by-descent with uncertainty characterises connectivity of Plasmodium falciparum populations on the Colombian-Pacific coast. PLoS genetics, 16(11)

De Salazar Pablo M, Niehus Rene, Taylor Aimee, Buckee Caroline O, Lipsitch Marc. (2019). Using predicted imports of 2019-nCoV cases to determine locations that may not be identifying all imported cases

Taylor AR, Jacob PE, Neafsey DE, Buckee CO. (2019). Estimating Relatedness Between Malaria Parasites. Genetics, 212(4)

Watson OP, Cortes-Ciriano I, Taylor AR, Watson JA. (2019). A decision-theoretic approach to the evaluation of machine learning algorithms in computational drug discovery. Bioinformatics (Oxford, England), 35(22)

Watson JA, Taylor AR. (2019). Tafenoquine versus Primaquine to Prevent Relapse of Plasmodium vivax Malaria. The New England journal of medicine, 380(19)

Taylor AR, Watson JA, Chu CS, Puaprasert K, Duanguppama J, Day NPJ, Nosten F, Neafsey DE, Buckee CO, Imwong M, White NJ. (2019). Resolving the cause of recurrent Plasmodium vivax malaria probabilistically. Nature communications, 10(1)

Wesolowski A, Taylor AR, Chang HH, Verity R, Tessema S, Bailey JA, Alex Perkins T, Neafsey DE, Greenhouse B, Buckee CO. (2018). Correction to: Mapping malaria by combining parasite genomic and epidemiologic data. BMC medicine, 16(1)

Wesolowski A, Taylor AR, Chang HH, Verity R, Tessema S, Bailey JA, Alex Perkins T, Neafsey DE, Greenhouse B, Buckee CO. (2018). Mapping malaria by combining parasite genomic and epidemiologic data. BMC medicine, 16(1)

Schaffner SF, Taylor AR, Wong W, Wirth DF, Neafsey DE. (2018). hmmIBD: software to infer pairwise identity by descent between haploid genotypes. Malaria journal, 17(1)

Taylor AR, Schaffner SF, Cerqueira GC, Nkhoma SC, Anderson TJC, Sriprawat K, Pyae Phyo A, Nosten F, Neafsey DE, Buckee CO. (2017). Quantifying connectivity between local Plasmodium falciparum malaria parasite populations using identity by descent. PLoS genetics, 13(10)

Tumwebaze P, Tukwasibwe S, Taylor A, Conrad M, Ruhamyankaka E, Asua V, Walakira A, Nankabirwa J, Yeka A, Staedke SG, Greenhouse B, Nsobya SL, Kamya MR, Dorsey G, Rosenthal PJ. (2017). Changing Antimalarial Drug Resistance Patterns Identified by Surveillance at Three Sites in Uganda. The Journal of infectious diseases, 215(4)

Taylor AR, Flegg JA, Holmes CC, Guérin PJ, Sibley CH, Conrad MD, Dorsey G, Rosenthal PJ. (2016). Artemether-Lumefantrine and Dihydroartemisinin-Piperaquine Exert Inverse Selective Pressure on Plasmodium Falciparum Drug Sensitivity-Associated Haplotypes in Uganda. Open forum infectious diseases, 4(1)

Taylor AR, Flegg JA, Nsobya SL, Yeka A, Kamya MR, Rosenthal PJ, Dorsey G, Sibley CH, Guerin PJ, Holmes CC. (2014). Estimation of malaria haplotype and genotype frequencies: a statistical approach to overcome the challenge associated with multiclonal infections. Malaria journal, (13)

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