Rachel F. Daniels, Ph.D. - Publications

Affiliations: 
2013 Biology: Medical Sciences, Division of Harvard University, Cambridge, MA, United States 
Area:
General Biology, Parasitology Biology, Genetics

55 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2023 Ndiaye YD, Wong W, Thwing J, Schaffner SS, Tine A, Diallo MA, Deme A, Sy M, Bei AK, Thiaw AB, Daniels R, Ndiaye T, Gaye A, Ndiaye IM, Toure M, et al. Two decades of molecular surveillance in Senegal reveal changes in known drug resistance mutations associated with historical drug use and seasonal malaria chemoprevention. Medrxiv : the Preprint Server For Health Sciences. PMID 37163114 DOI: 10.1101/2023.04.24.23288820  0.639
2022 Wong W, Volkman S, Daniels R, Schaffner S, Sy M, Ndiaye YD, Badiane AS, Deme AB, Diallo MA, Gomis J, Sy N, Ndiaye D, Wirth DF, Hartl DL. : a genetic metric for measuring intrahost relatedness and distinguishing cotransmission from superinfection. Pnas Nexus. 1: pgac187. PMID 36246152 DOI: 10.1093/pnasnexus/pgac187  0.597
2022 Rogier E, McCaffery JN, Mohamed MA, Herman C, Nace D, Daniels R, Lucchi N, Jones S, Goldman I, Aidoo M, Cheng Q, Kemenang EA, Udhayakumar V, Cunningham J. Plasmodium falciparum pfhrp2 and pfhrp3 Gene Deletions and Relatedness to Other Global Isolates, Djibouti, 2019-2020. Emerging Infectious Diseases. 28: 2043-2050. PMID 36148905 DOI: 10.3201/eid2810.220695  0.372
2022 Sy M, Deme AB, Warren JL, Early A, Schaffner S, Daniels RF, Dieye B, Ndiaye IM, Diedhiou Y, Mbaye AM, Volkman SK, Hartl DL, Wirth DF, Ndiaye D, Bei AK. Plasmodium falciparum genomic surveillance reveals spatial and temporal trends, association of genetic and physical distance, and household clustering. Scientific Reports. 12: 938. PMID 35042879 DOI: 10.1038/s41598-021-04572-2  0.635
2021 Ndiaye YD, Hartl DL, McGregor D, Badiane A, Fall FB, Daniels RF, Wirth DF, Ndiaye D, Volkman SK. Genetic surveillance for monitoring the impact of drug use on Plasmodium falciparum populations. International Journal For Parasitology. Drugs and Drug Resistance. 17: 12-22. PMID 34333350 DOI: 10.1016/j.ijpddr.2021.07.004  0.619
2021 Sitali L, Mwenda MC, Miller JM, Bridges DJ, Hawela MB, Hamainza B, Mudenda-Chilufya M, Chizema-Kawesha E, Daniels R, Eisele TP, Nerland AH, Chipeta J, Lindtjorn B. Data on selected antimalarial drug resistance markers in Zambia. Data in Brief. 34: 106650. PMID 33364273 DOI: 10.1016/j.dib.2020.106650  0.375
2020 Daniels RF, Chenet S, Rogier E, Lucchi N, Herman C, Pierre B, Lemoine JF, Boncy J, Wirth DF, Chang MA, Udhayakumar V, Volkman SK. Genetic analysis reveals unique characteristics of Plasmodium falciparum parasite populations in Haiti. Malaria Journal. 19: 379. PMID 33097045 DOI: 10.1186/s12936-020-03439-7  0.661
2020 Sitali L, Mwenda MC, Miller JM, Bridges DJ, Hawela MB, Hamainza B, Mudenda-Chilufya M, Chizema-Kawesha E, Daniels RF, Eisele TP, Nerland AH, Chipeta J, Lindtjorn B. Surveillance of molecular markers for antimalarial resistance in Zambia: Polymorphism of Pfkelch 13, Pfmdr1 and Pfdhfr/Pfdhps genes. Acta Tropica. 212: 105704. PMID 33002448 DOI: 10.1016/j.actatropica.2020.105704  0.399
2020 Dewasurendra RL, Baniecki ML, Schaffner S, Siriwardena Y, Moon J, Doshi R, Gunawardena S, Daniels RF, Neafsey D, Volkman S, Chandrasekharan NV, Wirth DF, Karunaweera ND. Use of a Plasmodium vivax genetic barcode for genomic surveillance and parasite tracking in Sri Lanka. Malaria Journal. 19: 342. PMID 32958025 DOI: 10.1186/S12936-020-03386-3  0.709
2020 Daniels RF, Schaffner SF, Dieye Y, Dieng G, Hainsworth M, Fall FB, Diouf CN, Ndiop M, Cisse M, Gueye AB, Sarr O, Guinot P, Deme AB, Bei AK, Sy M, et al. Genetic evidence for imported malaria and local transmission in Richard Toll, Senegal. Malaria Journal. 19: 276. PMID 32746830 DOI: 10.1186/S12936-020-03346-X  0.673
2020 Lozovsky ER, Daniels RF, Heffernan GD, Jacobus DP, Hartl DL. Relevance of Higher-Order Epistasis in Drug Resistance. Molecular Biology and Evolution. PMID 32745183 DOI: 10.1093/Molbev/Msaa196  0.448
2020 Finn TP, Porter TR, Moonga H, Silumbe K, Daniels RF, Volkman SK, Yukich JO, Keating J, Bennett A, Steketee RW, Miller JM, Eisele TP. Adherence to Mass Drug Administration with Dihydroartemisinin-Piperaquine and Clearance in Southern Province, Zambia. The American Journal of Tropical Medicine and Hygiene. PMID 32618267 DOI: 10.4269/Ajtmh.19-0667  0.443
2020 Daniels RF, Schaffner SF, Bennett A, Porter TR, Yukich JO, Mulube C, Mambwe B, Mwenda MC, Chishimba S, Bridges DJ, Moonga H, Hamainza B, Chizema Kawesha E, Miller JM, Steketee RW, et al. Evidence for Reduced Malaria Parasite Population after Application of Population-Level Antimalarial Drug Strategies in Southern Province, Zambia. The American Journal of Tropical Medicine and Hygiene. PMID 32618255 DOI: 10.4269/Ajtmh.19-0666  0.709
2019 Chauhan G, McClure J, Hekman J, Marsh PW, Bailey JA, Daniels RF, Genereux DP, Karlsson EK. Combining Citizen Science and Genomics to Investigate Tick, Pathogen, and Commensal Microbiome at Single-Tick Resolution. Frontiers in Genetics. 10: 1322. PMID 32038704 DOI: 10.3389/Fgene.2019.01322  0.416
2019 Diédhiou CK, Moussa RA, Bei AK, Daniels R, Papa Mze N, Ndiaye D, Faye N, Wirth D, Amambua-Ngwa A, Mboup S, Ahouidi AD. Temporal changes in Plasmodium falciparum reticulocyte binding protein homolog 2b (PfRh2b) in Senegal and The Gambia. Malaria Journal. 18: 239. PMID 31311552 DOI: 10.1186/S12936-019-2868-X  0.582
2019 Early AM, Daniels RF, Farrell TM, Grimsby J, Volkman SK, Wirth DF, MacInnis BL, Neafsey DE. Detection of low-density Plasmodium falciparum infections using amplicon deep sequencing. Malaria Journal. 18: 219. PMID 31262308 DOI: 10.1186/S12936-019-2856-1  0.583
2018 Bankole BE, Kayode AT, Nosamiefan IO, Eromon P, Baniecki ML, Daniels RF, Hamilton EJ, Durfee K, MacInnis B, Okafor H, Sowunmi A, Volkman SK, Sabeti P, Wirth D, Happi CT, et al. Characterization of Plasmodium falciparum structure in Nigeria with malaria SNPs barcode. Malaria Journal. 17: 472. PMID 30558627 DOI: 10.1186/S12936-018-2623-8  0.71
2018 Grignard L, Gonçalves BP, Early AM, Daniels RF, Tiono AB, Guelbéogo WM, Ouédraogo A, van Veen EM, Lanke K, Diarra A, Nebie I, Sirima SB, Targett GA, Volkman SK, Neafsey DE, et al. Transmission of molecularly undetectable circulating parasite clones leads to high infection complexity in mosquitoes post feeding. International Journal For Parasitology. PMID 29738740 DOI: 10.1016/J.Ijpara.2018.02.005  0.651
2018 Bei AK, Niang M, Deme AB, Daniels RF, Sarr FD, Sokhna C, Talla C, Faye J, Diagne N, Doucoure S, Mboup S, Wirth DF, Tall A, Ndiaye D, Hartl DL, et al. Dramatic Changes in Malaria Population Genetic Complexity in Dielmo and Ndiop, Senegal, Revealed Using Genomic Surveillance. The Journal of Infectious Diseases. PMID 29325146 DOI: 10.1093/Infdis/Jix580  0.689
2018 Daniels R, Greenhouse B, Schaffner S. Decision letter: The origins and relatedness structure of mixed infections vary with local prevalence of P. falciparum malaria Elife. DOI: 10.7554/Elife.40845.039  0.409
2017 Seck MC, Thwing J, Fall FB, Gomis JF, Deme A, Ndiaye YD, Daniels R, Volkman SK, Ndiop M, Ba M, Ndiaye D. Malaria prevalence, prevention and treatment seeking practices among nomadic pastoralists in northern Senegal. Malaria Journal. 16: 413. PMID 29029619 DOI: 10.1186/S12936-017-2055-X  0.424
2017 Mukherjee A, Bopp S, Magistrado P, Wong W, Daniels R, Demas A, Schaffner S, Amaratunga C, Lim P, Dhorda M, Miotto O, Woodrow C, Ashley EA, Dondorp AM, White NJ, et al. Artemisinin resistance without pfkelch13 mutations in Plasmodium falciparum isolates from Cambodia. Malaria Journal. 16: 195. PMID 28494763 DOI: 10.1186/S12936-017-1845-5  0.59
2017 Gunawardena S, Daniels RF, Yahathugoda TC, Weerasooriya MV, Durfee K, Volkman SK, Wirth DF, Karunaweera ND. Case report of Plasmodium ovale curtisi malaria in Sri Lanka: relevance for the maintenance of elimination status. Bmc Infectious Diseases. 17: 307. PMID 28438137 DOI: 10.1186/S12879-017-2411-Z  0.646
2017 Ndiaye YD, Diédhiou CK, Bei AK, Dieye B, Mbaye A, Mze NP, Daniels RF, Ndiaye IM, Déme AB, Gaye A, Sy M, Ndiaye T, Badiane AS, Ndiaye M, Premji Z, et al. High resolution melting: a useful field-deployable method to measure dhfr and dhps drug resistance in both highly and lowly endemic Plasmodium populations. Malaria Journal. 16: 153. PMID 28420422 DOI: 10.1186/S12936-017-1811-2  0.622
2017 Adomako-Ankomah Y, Chenoweth MS, Durfee K, Doumbia S, Konate D, Doumbouya M, Keita AS, Nikolaeva D, Tullo GS, Anderson JM, Fairhurst RM, Daniels R, Volkman SK, Diakite M, Miura K, et al. High Plasmodium falciparum longitudinal prevalence is associated with high multiclonality and reduced clinical malaria risk in a seasonal transmission area of Mali. Plos One. 12: e0170948. PMID 28158202 DOI: 10.1371/Journal.Pone.0170948  0.496
2017 Wong W, Griggs AD, Daniels RF, Schaffner SF, Ndiaye D, Bei AK, Deme AB, MacInnis B, Volkman SK, Hartl DL, Neafsey DE, Wirth DF. Genetic relatedness analysis reveals the cotransmission of genetically related Plasmodium falciparum parasites in Thiès, Senegal. Genome Medicine. 9: 5. PMID 28118860 DOI: 10.1186/S13073-017-0398-0  0.643
2017 Talundzic E, Ndiaye YD, Deme AB, Olsen C, Patel DS, Biliya S, Daniels R, Vannberg FO, Volkman SK, Udhayakumar V, Ndiaye D. The molecular epidemiology of Pf k13 mutations in Senegal using targeted amplicon deep sequencing. Antimicrobial Agents and Chemotherapy. PMID 28069653 DOI: 10.1128/Aac.02116-16  0.519
2017 Daniels RF, Deme AB, Gomis JF, Dieye B, Durfee K, Thwing JI, Fall FB, Ba M, Ndiop M, Badiane AS, Ndiaye YD, Wirth DF, Volkman SK, Ndiaye D. Evidence of non-Plasmodium falciparum malaria infection in Kédougou, Sénégal. Malaria Journal. 16: 9. PMID 28049489 DOI: 10.1186/S12936-016-1661-3  0.674
2016 Dieye B, Affara M, Sangare L, Joof F, Ndiaye YD, Gomis JF, Ndiaye M, Mbaye A, Diakite M, Sy N, Mbengue B, Deme AB, Daniels R, Ahouidi AD, Dieye T, et al. West Africa International Centers of Excellence for Malaria Research: Drug Resistance Patterns to Artemether-Lumefantrine in Senegal, Mali, and The Gambia. The American Journal of Tropical Medicine and Hygiene. PMID 27549635 DOI: 10.4269/Ajtmh.16-0053  0.657
2016 Chang HH, Meibalan E, Zelin J, Daniels R, Eziefula AC, Meyer EC, Tadesse F, Grignard L, Joice RC, Drakeley C, Wirth DF, Volkman SK, Buckee C, Bousema T, Marti M. Persistence of Plasmodium falciparum parasitemia after artemisinin combination therapy: evidence from a randomized trial in Uganda. Scientific Reports. 6: 26330. PMID 27197604 DOI: 10.1038/Srep26330  0.659
2016 Charles M, Das S, Daniels R, Kirkman L, Delva GG, Destine R, Escalante A, Villegas L, Daniels NM, Shigyo K, Volkman SK, Pape JW, Golightly LM. Plasmodium falciparum K76T pfcrt Gene Mutations and Parasite Population Structure, Haiti, 2006-2009. Emerging Infectious Diseases. 22: 786-793. PMID 27089479 DOI: 10.3201/Eid2205.150359  0.587
2016 Obaldía Iii N, Dow GS, Gerena L, Kyle D, Otero W, Mantel PY, Baro N, Daniels R, Mukherjee A, Childs LM, Buckee C, Duraisingh MT, Volkman SK, Wirth DF, Marti M. Altered drug susceptibility during host adaptation of a Plasmodium falciparum strain in a non-human primate model. Scientific Reports. 6: 21216. PMID 26880111 DOI: 10.1038/Srep21216  0.691
2015 Daniels R, Hamilton EJ, Durfee K, Ndiaye D, Wirth DF, Hartl DL, Volkman SK. Methods to Increase the Sensitivity of High Resolution Melting Single Nucleotide Polymorphism Genotyping in Malaria. Journal of Visualized Experiments : Jove. PMID 26575471 DOI: 10.3791/52839  0.708
2015 Papa Mze N, Ndiaye YD, Diedhiou CK, Rahamatou S, Dieye B, Daniels RF, Hamilton EJ, Diallo M, Bei AK, Wirth DF, Mboup S, Volkman SK, Ahouidi AD, Ndiaye D. RDTs as a source of DNA to study Plasmodium falciparum drug resistance in isolates from Senegal and the Comoros Islands. Malaria Journal. 14: 373. PMID 26415927 DOI: 10.1186/S12936-015-0861-6  0.61
2015 Daniels RF, Schaffner SF, Wenger EA, Proctor JL, Chang HH, Wong W, Baro N, Ndiaye D, Fall FB, Ndiop M, Ba M, Milner DA, Taylor TE, Neafsey DE, Volkman SK, et al. Modeling malaria genomics reveals transmission decline and rebound in Senegal. Proceedings of the National Academy of Sciences of the United States of America. 112: 7067-72. PMID 25941365 DOI: 10.1073/Pnas.1505691112  0.671
2015 Daniels RF, Rice BL, Daniels NM, Volkman SK, Hartl DL. The utility of genomic data for Plasmodium vivax population surveillance. Pathogens and Global Health. 109: 153-61. PMID 25892032 DOI: 10.1179/2047773215Y.0000000014  0.459
2015 Baniecki ML, Faust AL, Schaffner SF, Park DJ, Galinsky K, Daniels RF, Hamilton E, Ferreira MU, Karunaweera ND, Serre D, Zimmerman PA, Sá JM, Wellems TE, Musset L, Legrand E, et al. Development of a single nucleotide polymorphism barcode to genotype Plasmodium vivax infections. Plos Neglected Tropical Diseases. 9: e0003539. PMID 25781890 DOI: 10.1371/Journal.Pntd.0003539  0.698
2015 Galinsky K, Valim C, Salmier A, de Thoisy B, Musset L, Legrand E, Faust A, Baniecki ML, Ndiaye D, Daniels RF, Hartl DL, Sabeti PC, Wirth DF, Volkman SK, Neafsey DE. COIL: a methodology for evaluating malarial complexity of infection using likelihood from single nucleotide polymorphism data. Malaria Journal. 14: 4. PMID 25599890 DOI: 10.1186/1475-2875-14-4  0.612
2015 Bei AK, Diouf A, Miura K, Larremore DB, Ribacke U, Tullo G, Moss EL, Neafsey DE, Daniels RF, Zeituni AE, Nosamiefan I, Volkman SK, Ahouidi AD, Ndiaye D, Dieye T, et al. Immune characterization of Plasmodium falciparum parasites with a shared genetic signature in a region of decreasing transmission. Infection and Immunity. 83: 276-85. PMID 25368109 DOI: 10.1128/Iai.01979-14  0.676
2015 Obaldia N, Baro NK, Calzada JE, Santamaria AM, Daniels R, Wong W, Chang HH, Hamilton EJ, Arevalo-Herrera M, Herrera S, Wirth DF, Hartl DL, Marti M, Volkman SK. Clonal outbreak of Plasmodium falciparum infection in eastern Panama. The Journal of Infectious Diseases. 211: 1087-96. PMID 25336725 DOI: 10.1093/Infdis/Jiu575  0.731
2015 Volkman S, Daniels R, Chang H, Park D, Neafsey D, Schaffner S, Lukens A, Mboup S, Sabeti P, Wirth D, Hartl D. Genotyping malaria parasites to understand malaria transmission Annals of Global Health. 81: 82. DOI: 10.1016/J.Aogh.2015.02.694  0.799
2014 Mharakurwa S, Daniels R, Scott A, Wirth DF, Thuma P, Volkman SK. Pre-amplification methods for tracking low-grade Plasmodium falciparum populations during scaled-up interventions in Southern Zambia. Malaria Journal. 13: 89. PMID 24618119 DOI: 10.1186/1475-2875-13-89  0.657
2013 Ndiaye D, Dieye B, Ndiaye YD, Van Tyne D, Daniels R, Bei AK, Mbaye A, Valim C, Lukens A, Mboup S, Ndir O, Wirth DF, Volkman S. Polymorphism in dhfr/dhps genes, parasite density and ex vivo response to pyrimethamine in Plasmodium falciparum malaria parasites in Thies, Senegal. International Journal For Parasitology. Drugs and Drug Resistance. 3: 135-42. PMID 24533303 DOI: 10.1016/J.Ijpddr.2013.07.001  0.799
2013 Van Tyne D, Dieye B, Valim C, Daniels RF, Sène PD, Lukens AK, Ndiaye M, Bei AK, Ndiaye YD, Hamilton EJ, Ndir O, Mboup S, Volkman SK, Wirth DF, Ndiaye D. Changes in drug sensitivity and anti-malarial drug resistance mutations over time among Plasmodium falciparum parasites in Senegal. Malaria Journal. 12: 441. PMID 24314037 DOI: 10.1186/1475-2875-12-441  0.797
2013 Daniels R, Chang HH, Séne PD, Park DC, Neafsey DE, Schaffner SF, Hamilton EJ, Lukens AK, Van Tyne D, Mboup S, Sabeti PC, Ndiaye D, Wirth DF, Hartl DL, Volkman SK. Genetic surveillance detects both clonal and epidemic transmission of malaria following enhanced intervention in Senegal. Plos One. 8: e60780. PMID 23593309 DOI: 10.1371/Journal.Pone.0060780  0.817
2013 Chang HH, Daniels RF, Hartl DL. Population Genetics and Parasite Diversity Evolution of Virulence in Eukaryotic Microbes. 1-16. DOI: 10.1002/9781118308165.ch1  0.369
2012 Daniels R, Ndiaye D, Wall M, McKinney J, Séne PD, Sabeti PC, Volkman SK, Mboup S, Wirth DF. Rapid, field-deployable method for genotyping and discovery of single-nucleotide polymorphisms associated with drug resistance in Plasmodium falciparum. Antimicrobial Agents and Chemotherapy. 56: 2976-86. PMID 22430961 DOI: 10.1128/Aac.05737-11  0.703
2012 Milner DA, Vareta J, Valim C, Montgomery J, Daniels RF, Volkman SK, Neafsey DE, Park DJ, Schaffner SF, Mahesh NC, Barnes KG, Rosen DM, Lukens AK, Van Tyne D, Wiegand RC, et al. Human cerebral malaria and Plasmodium falciparum genotypes in Malawi. Malaria Journal. 11: 35. PMID 22314206 DOI: 10.1186/1475-2875-11-35  0.802
2012 Volkman SK, Ndiaye D, Diakite M, Koita OA, Nwakanma D, Daniels RF, Park DJ, Neafsey DE, Muskavitch MA, Krogstad DJ, Sabeti PC, Hartl DL, Wirth DF. Application of genomics to field investigations of malaria by the international centers of excellence for malaria research. Acta Tropica. 121: 324-32. PMID 22182668 DOI: 10.1016/J.Actatropica.2011.12.002  0.671
2012 Doumbia SO, Ndiaye D, Koita OA, Diakité M, Nwakanma D, Coulibaly M, Traoré SF, Keating J, Milner DA, Ndiaye JL, Sene PD, Ahouidi A, Dieye TN, Gaye O, Okebe J, ... ... Daniels R, et al. Improving malaria control in West Africa: interruption of transmission as a paradigm shift. Acta Tropica. 121: 175-83. PMID 22142790 DOI: 10.1016/J.Actatropica.2011.11.009  0.591
2011 Zhang JJ, Senaratne TN, Daniels R, Valim C, Alifrangis M, Amerasinghe P, Konradsen F, Rajakaruna R, Wirth DF, Karunaweera ND. Distribution pattern of Plasmodium falciparum chloroquine transporter (pfcrt) gene haplotypes in Sri Lanka 1996-2006. The American Journal of Tropical Medicine and Hygiene. 85: 811-4. PMID 22049031 DOI: 10.4269/Ajtmh.2011.11-0167  0.659
2011 Melnikov A, Galinsky K, Rogov P, Fennell T, Van Tyne D, Russ C, Daniels R, Barnes KG, Bochicchio J, Ndiaye D, Sene PD, Wirth DF, Nusbaum C, Volkman SK, Birren BW, et al. Hybrid selection for sequencing pathogen genomes from clinical samples. Genome Biology. 12: R73. PMID 21835008 DOI: 10.1186/Gb-2011-12-8-R73  0.721
2011 Van Tyne D, Park DJ, Schaffner SF, Neafsey DE, Angelino E, Cortese JF, Barnes KG, Rosen DM, Lukens AK, Daniels RF, Milner DA, Johnson CA, Shlyakhter I, Grossman SR, Becker JS, et al. Identification and functional validation of the novel antimalarial resistance locus PF10_0355 in Plasmodium falciparum. Plos Genetics. 7: e1001383. PMID 21533027 DOI: 10.1371/Journal.Pgen.1001383  0.809
2008 Neafsey DE, Schaffner SF, Volkman SK, Park D, Montgomery P, Milner DA, Lukens A, Rosen D, Daniels R, Houde N, Cortese JF, Tyndall E, Gates C, Stange-Thomann N, Sarr O, et al. Genome-wide SNP genotyping highlights the role of natural selection in Plasmodium falciparum population divergence. Genome Biology. 9: R171. PMID 19077304 DOI: 10.1186/Gb-2008-9-12-R171  0.764
2008 Daniels R, Volkman SK, Milner DA, Mahesh N, Neafsey DE, Park DJ, Rosen D, Angelino E, Sabeti PC, Wirth DF, Wiegand RC. A general SNP-based molecular barcode for Plasmodium falciparum identification and tracking. Malaria Journal. 7: 223. PMID 18959790 DOI: 10.1186/1475-2875-7-223  0.672
Show low-probability matches.