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| Outbreak of SARS-CoV-2 infections, including COVID-19 vaccine breakthrough infections, associated with large public gatherings—Barnstable County, Massachusetts, July 2021 CM Brown, J Vostok, H Johnson, M Burns, R Gharpure, S Sami, RT Sabo, ... Morbidity and Mortality Weekly Report 70 (31), 1059, 2021 | 630 | 2021 |
| Clinical illness and outcomes in patients with Ebola in Sierra Leone JS Schieffelin, JG Shaffer, A Goba, M Gbakie, SK Gire, A Colubri, ... New england journal of medicine 371 (22), 2092-2100, 2014 | 630 | 2014 |
| Virus genomes reveal factors that spread and sustained the Ebola epidemic G Dudas, LM Carvalho, T Bedford, AJ Tatem, G Baele, NR Faria, DJ Park, ... Nature 544 (7650), 309-315, 2017 | 435 | 2017 |
| Zika virus evolution and spread in the Americas HC Metsky, CB Matranga, S Wohl, SF Schaffner, CA Freije, SM Winnicki, ... Nature 546 (7658), 411-415, 2017 | 423 | 2017 |
| Identifying recent adaptations in large-scale genomic data SR Grossman, KG Andersen, I Shlyakhter, S Tabrizi, S Winnicki, A Yen, ... Cell 152 (4), 703-713, 2013 | 417 | 2013 |
| Genetic diversity and protective efficacy of the RTS, S/AS01 malaria vaccine DE Neafsey, M Juraska, T Bedford, D Benkeser, C Valim, A Griggs, ... New England Journal of Medicine 373 (21), 2025-2037, 2015 | 416 | 2015 |
| Benchmarking Metagenomics Tools for Taxonomic Classification HY Simon, KJ Siddle, DJ Park, PC Sabeti Cell 178 (4), 779-794, 2019 | 404 | 2019 |
| Genomic epidemiology reveals multiple introductions of Zika virus into the United States ND Grubaugh, JT Ladner, MUG Kraemer, G Dudas, AL Tan, ... Nature, 2017 | 362 | 2017 |
| Ebola Virus Epidemiology, Transmission, and Evolution during Seven Months in Sierra Leone DJ Park, G Dudas, S Wohl, A Goba, SLM Whitmer, KG Andersen, ... Cell 161 (7), 1516-1526, 2015 | 341 | 2015 |
| Phylogenetic analysis of SARS-CoV-2 in Boston highlights the impact of superspreading events JE Lemieux, KJ Siddle, BM Shaw, C Loreth, SF Schaffner, ... Science 371 (6529), eabe3261, 2021 | 255 | 2021 |
| A general SNP-based molecular barcode for Plasmodium falciparum identification and tracking R Daniels, SK Volkman, DA Milner, N Mahesh, DE Neafsey, DJ Park, ... Malaria journal 7, 1-11, 2008 | 247 | 2008 |
| Population genomic sequencing of Coccidioides fungi reveals recent hybridization and transposon control DE Neafsey, BM Barker, TJ Sharpton, JE Stajich, DJ Park, E Whiston, ... Genome Research 20 (7), 938-946, 2010 | 209 | 2010 |
| A sequence-oriented comparison of gene expression measurements across different hybridization-based technologies WP Kuo, F Liu, J Trimarchi, C Punzo, M Lombardi, J Sarang, ME Whipple, ... Nature biotechnology 24 (7), 832-840, 2006 | 191 | 2006 |
| Analysis of 6.4 million SARS-CoV-2 genomes identifies mutations associated with fitness F Obermeyer, M Jankowiak, N Barkas, SF Schaffner, JD Pyle, ... Science 376 (6599), 1327-1332, 2022 | 183 | 2022 |
| SNP genotyping defines complex gene-flow boundaries among African malaria vector mosquitoes DE Neafsey, MKN Lawniczak, DJ Park, SN Redmond, MB Coulibaly, ... Science 330 (6003), 514-517, 2010 | 182 | 2010 |
| Genomic analysis of lassa virus during an increase in cases in nigeria in 2018 KJ Siddle, P Eromon, KG Barnes, S Mehta, JU Oguzie, I Odia, ... New England Journal of Medicine 379 (18), 1745-1753, 2018 | 172 | 2018 |
| Use of high-density tiling microarrays to identify mutations globally and elucidate mechanisms of drug resistance in Plasmodium falciparum NV Dharia, ABS Sidhu, MB Cassera, SJ Westenberger, SER Bopp, ... Genome biology 10, 1-13, 2009 | 164 | 2009 |
| Comparative transmissibility of SARS-CoV-2 variants delta and alpha in New England, USA R Earnest, R Uddin, N Matluk, N Renzette, SE Turbett, KJ Siddle, C Loreth, ... Cell Reports Medicine 3 (4), 2022 | 155 | 2022 |
| Genome-wide SNP genotyping highlights the role of natural selection in Plasmodium falciparum population divergence DE Neafsey, SF Schaffner, SK Volkman, D Park, P Montgomery, ... Genome biology 9 (12), 1-16, 2008 | 147 | 2008 |
Stephen SchaffnerSenior Computational Biologist, Broad InstituteVerified email at broadinstitute.org
