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Page 1
Genotypic analysis of RTS,S/AS01E malaria vaccine efficacy against parasite infection as a function of dosage regimen and baseline malaria infection status in children aged 5-17 months in Ghana and Kenya: a longitudinal phase 2b randomised controlled trial.
Juraska M, Early AM, Li L, Schaffner SF, Lievens M, Khorgade A, Simpkins B, Hejazi NS, Benkeser D, Wang Q, Mercer LD, Adjei S, Agbenyega T, Anderson S, Ansong D, Bii DK, Buabeng PBY, English S, Fitzgerald N, Grimsby J, Kariuki SK, Otieno K, Roman F, Samuels AM, Westercamp N, Ockenhouse CF, Ofori-Anyinam O, Lee CK, MacInnis BL, Wirth DF, Gilbert PB, Neafsey DE. Juraska M, et al. Among authors: schaffner sf. Lancet Infect Dis. 2024 Sep;24(9):1025-1036. doi: 10.1016/S1473-3099(24)00179-8. Epub 2024 May 6. Lancet Infect Dis. 2024. PMID: 38723650 Free PMC article. Clinical Trial.
Baseline malaria infection status and RTS,S/AS01E malaria vaccine efficacy.
Juraska M, Early AM, Li L, Schaffner SF, Lievens M, Khorgade A, Simpkins B, Hejazi NS, Benkeser DA, Wang Q, Mercer LD, Adjei S, Agbenyega T, Anderson S, Ansong D, Bii DK, Buabeng PBY, English S, Fitzgerald N, Grimsby J, Kariuki SK, Otieno K, Roman F, Samuels AM, Westercamp N, Ockenhouse CF, Ofori-Anyinam O, Lee CK, MacInnis BL, Wirth DF, Gilbert PB, Neafsey DE. Juraska M, et al. Among authors: schaffner sf. medRxiv [Preprint]. 2023 Nov 23:2023.11.22.23298907. doi: 10.1101/2023.11.22.23298907. medRxiv. 2023. PMID: 38045387 Free PMC article. Preprint.
Evaluating the performance of Plasmodium falciparum genetic metrics for inferring National Malaria Control Programme reported incidence in Senegal.
Wong W, Schaffner SF, Thwing J, Seck MC, Gomis J, Diedhiou Y, Sy N, Ndiop M, Ba F, Diallo I, Sene D, Diallo MA, Ndiaye YD, Sy M, Sene A, Sow D, Dieye B, Tine A, Ribado J, Suresh J, Lee A, Battle KE, Proctor JL, Bever CA, MacInnis B, Ndiaye D, Hartl DL, Wirth DF, Volkman SK. Wong W, et al. Among authors: schaffner sf. Malar J. 2024 Mar 5;23(1):68. doi: 10.1186/s12936-024-04897-z. Malar J. 2024. PMID: 38443939 Free PMC article.
Evaluating the performance of Plasmodium falciparum genetics for inferring National Malaria Control Program reported incidence in Senegal.
Wong W, Schaffner SF, Thwing J, Seck MC, Gomis J, Diedhiou Y, Sy N, Ndiop M, Ba F, Diallo I, Sene D, Diallo MA, Ndiaye YD, Sy M, Sene A, Sow D, Dieye B, Tine A, Ribado J, Suresh J, Lee A, Battle KE, Proctor JL, Bever CA, MacInnis B, Ndiaye D, Hartl DL, Wirth DF, Volkman SK. Wong W, et al. Among authors: schaffner sf. Res Sq [Preprint]. 2023 Nov 1:rs.3.rs-3516287. doi: 10.21203/rs.3.rs-3516287/v1. Res Sq. 2023. Update in: Malar J. 2024 Mar 5;23(1):68. doi: 10.1186/s12936-024-04897-z PMID: 37961451 Free PMC article. Updated. Preprint.
The 2022 RSV surge was driven by multiple viral lineages.
Adams G, Moreno GK, Petros BA, Uddin R, Levine Z, Kotzen B, Messer K, Dobbins ST, DeRuff KC, Loreth C, Brock-Fisher T, Schaffner SF, Chaluvadi S, Kanjilal S, Luban J, Ozonoff A, Park D, Turbett S, Siddle KJ, MacInnis BL, Sabeti P, Lemieux J. Adams G, et al. Among authors: schaffner sf. medRxiv [Preprint]. 2023 Jan 5:2023.01.04.23284195. doi: 10.1101/2023.01.04.23284195. medRxiv. 2023. Update in: N Engl J Med. 2023 Apr 6;388(14):1335-1337. doi: 10.1056/NEJMc2216153 PMID: 36656774 Free PMC article. Updated. Preprint.
Evidence of transmission from fully vaccinated individuals in a large outbreak of the SARS-CoV-2 Delta variant in Provincetown, Massachusetts.
Siddle KJ, Krasilnikova LA, Moreno GK, Schaffner SF, Vostok J, Fitzgerald NA, Lemieux JE, Barkas N, Loreth C, Specht I, Tomkins-Tinch CH, Silbert J, Schaeffer B, Taylor BP, Loftness B, Johnson H, Schubert PL, Shephard HM, Doucette M, Fink T, Lang AS, Baez S, Beauchamp J, Hennigan S, Buzby E, Ash S, Brown J, Clancy S, Cofsky S, Gagne L, Hall J, Harrington R, Gionet GL, DeRuff KC, Vodzak ME, Adams GC, Dobbins ST, Slack SD, Reilly SK, Anderson LM, Cipicchio MC, DeFelice MT, Grimsby JL, Anderson SE, Blumenstiel BS, Meldrim JC, Rooke HM, Vicente G, Smith NL, Messer KS, Reagan FL, Mandese ZM, Lee MD, Ray MC, Fisher ME, Ulcena MA, Nolet CM, English SE, Larkin KL, Vernest K, Chaluvadi S, Arvidson D, Melchiono M, Covell T, Harik V, Brock-Fisher T, Dunn M, Kearns A, Hanage WP, Bernard C, Philippakis A, Lennon NJ, Gabriel SB, Gallagher GR, Smole S, Madoff LC, Brown CM, Park DJ, MacInnis BL, Sabeti PC. Siddle KJ, et al. Among authors: schaffner sf. medRxiv [Preprint]. 2021 Oct 20:2021.10.20.21265137. doi: 10.1101/2021.10.20.21265137. medRxiv. 2021. Update in: Cell. 2022 Feb 3;185(3):485-492.e10. doi: 10.1016/j.cell.2021.12.027 PMID: 34704102 Free PMC article. Updated. Preprint.
Improving diagnosis of non-malarial fevers in Senegal: Borrelia and the contribution of tick-borne bacteria.
Levine ZC, Sene A, Mkandawire W, Deme AB, Ndiaye T, Sy M, Gaye A, Diedhiou Y, Mbaye AM, Ndiaye I, Gomis J, Ndiop M, Sene D, Paye MF, MacInnis B, Schaffner SF, Park DJ, Badiane AS, Colubri A, Ndiaye M, Sy N, Sabeti PC, Ndiaye D, Siddle KJ. Levine ZC, et al. Among authors: schaffner sf. medRxiv [Preprint]. 2023 Aug 25:2023.08.24.23294564. doi: 10.1101/2023.08.24.23294564. medRxiv. 2023. PMID: 37662407 Free PMC article. Preprint.
Genome-wide detection and characterization of positive selection in human populations.
Sabeti PC, Varilly P, Fry B, Lohmueller J, Hostetter E, Cotsapas C, Xie X, Byrne EH, McCarroll SA, Gaudet R, Schaffner SF, Lander ES; International HapMap Consortium; Frazer KA, Ballinger DG, Cox DR, Hinds DA, Stuve LL, Gibbs RA, Belmont JW, Boudreau A, Hardenbol P, Leal SM, Pasternak S, Wheeler DA, Willis TD, Yu F, Yang H, Zeng C, Gao Y, Hu H, Hu W, Li C, Lin W, Liu S, Pan H, Tang X, Wang J, Wang W, Yu J, Zhang B, Zhang Q, Zhao H, Zhao H, Zhou J, Gabriel SB, Barry R, Blumenstiel B, Camargo A, Defelice M, Faggart M, Goyette M, Gupta S, Moore J, Nguyen H, Onofrio RC, Parkin M, Roy J, Stahl E, Winchester E, Ziaugra L, Altshuler D, Shen Y, Yao Z, Huang W, Chu X, He Y, Jin L, Liu Y, Shen Y, Sun W, Wang H, Wang Y, Wang Y, Xiong X, Xu L, Waye MM, Tsui SK, Xue H, Wong JT, Galver LM, Fan JB, Gunderson K, Murray SS, Oliphant AR, Chee MS, Montpetit A, Chagnon F, Ferretti V, Leboeuf M, Olivier JF, Phillips MS, Roumy S, Sallée C, Verner A, Hudson TJ, Kwok PY, Cai D, Koboldt DC, Miller RD, Pawlikowska L, Taillon-Miller P, Xiao M, Tsui LC, Mak W, Song YQ, Tam PK, Nakamura Y, Kawaguchi T, Kitamoto T, Morizono T, Nagashima A, Ohnishi Y, Sekine A, Tanaka T, Tsunoda T, Deloukas P, Bird CP, D… See abstract for full author list ➔ Sabeti PC, et al. Among authors: schaffner sf. Nature. 2007 Oct 18;449(7164):913-8. doi: 10.1038/nature06250. Nature. 2007. PMID: 17943131 Free PMC article.
Polyphonia: detecting inter-sample contamination in viral genomic sequencing data.
Krasilnikova LA, Tomkins-Tinch CH, Gayton AC, Schaffner SF, Dobbins ST, Gladden-Young A, Siddle KJ, Park DJ, Sabeti PC. Krasilnikova LA, et al. Among authors: schaffner sf. Bioinformatics. 2024 Nov 28;40(12):btae698. doi: 10.1093/bioinformatics/btae698. Bioinformatics. 2024. PMID: 39673434 Free PMC article.
Two decades of molecular surveillance in Senegal reveal rapid changes in known drug resistance mutations over time.
Ndiaye YD, Wong W, Thwing J, Schaffner SF, Brenneman KV, Tine A, Diallo MA, Deme AB, Sy M, Bei AK, Thiaw AB, Daniels R, Ndiaye T, Gaye A, Ndiaye IM, Toure M, Gadiaga N, Sene A, Sow D, Garba MN, Yade MS, Dieye B, Diongue K, Zoumarou D, Ndiaye A, Gomis JF, Fall FB, Ndiop M, Diallo I, Sene D, Macinnis B, Seck MC, Ndiaye M, Ngom B, Diedhiou Y, Mbaye AM, Ndiaye L, Sy N, Badiane AS, Hartl DL, Wirth DF, Volkman SK, Ndiaye D. Ndiaye YD, et al. Among authors: schaffner sf. Malar J. 2024 Jul 9;23(1):205. doi: 10.1186/s12936-024-05024-8. Malar J. 2024. PMID: 38982475 Free PMC article.
162 results