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Simon Gravel, Ph.D. - Publications

Affiliations: 
2009 Cornell University, Ithaca, NY, United States 
Area:
Condensed Matter Physics, Computer Science, Mathematics
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37 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
2020 Adrion JR, Cole CB, Dukler N, Galloway JG, Gladstein AL, Gower G, Kyriazis CC, Ragsdale AP, Tsambos G, Baumdicker F, Carlson J, Cartwright RA, Durvasula A, Gronau I, Kim BY, ... ... Gravel S, et al. A community-maintained standard library of population genetic models. Elife. 9. PMID 32573438 DOI: 10.7554/Elife.54967  0.358
2020 Nelson D, Kelleher J, Ragsdale AP, Moreau C, McVean G, Gravel S. Accounting for long-range correlations in genome-wide simulations of large cohorts. Plos Genetics. 16: e1008619. PMID 32369493 DOI: 10.1371/Journal.Pgen.1008619  0.323
2020 Adrion JR, Cole CB, Dukler N, Galloway JG, Gladstein AL, Gower G, Kyriazis CC, Ragsdale AP, Tsambos G, Baumdicker F, Carlson J, Cartwright RA, Durvasula A, Gronau I, Kim BY, ... ... Gravel S, et al. Author response: A community-maintained standard library of population genetic models Elife. DOI: 10.7554/Elife.54967.Sa2  0.305
2019 Ragsdale AP, Gravel S. Unbiased estimation of linkage disequilibrium from unphased data. Molecular Biology and Evolution. PMID 31697386 DOI: 10.1093/Molbev/Msz265  0.344
2019 Diaz-Papkovich A, Anderson-Trocmé L, Ben-Eghan C, Gravel S. UMAP reveals cryptic population structure and phenotype heterogeneity in large genomic cohorts. Plos Genetics. 15: e1008432. PMID 31675358 DOI: 10.1371/Journal.Pgen.1008432  0.397
2019 Anderson-Trocmé L, Farouni R, Bourgey M, Kamatani Y, Higasa K, Seo JS, Kim C, Matsuda F, Gravel S. Legacy Data Confounds Genomics Studies. Molecular Biology and Evolution. PMID 31504792 DOI: 10.1093/Molbev/Msz201  0.362
2019 Ragsdale AP, Gravel S. Models of archaic admixture and recent history from two-locus statistics. Plos Genetics. 15: e1008204. PMID 31181058 DOI: 10.1371/Journal.Pgen.1008204  0.385
2018 Nelson D, Moreau C, de Vriendt M, Zeng Y, Preuss C, Vézina H, Milot E, Andelfinger G, Labuda D, Gravel S. Inferring Transmission Histories of Rare Alleles in Population-Scale Genealogies. American Journal of Human Genetics. 103: 893-906. PMID 30526866 DOI: 10.1016/J.Ajhg.2018.10.017  0.385
2018 Ragsdale AP, Moreau C, Gravel S. Genomic inference using diffusion models and the allele frequency spectrum. Current Opinion in Genetics & Development. 53: 140-147. PMID 30366252 DOI: 10.1016/J.Gde.2018.10.001  0.374
2018 Baharian S, Gravel S. On the decidability of population size histories from finite allele frequency spectra. Theoretical Population Biology. PMID 29305873 DOI: 10.1016/J.Tpb.2017.12.008  0.375
2017 Jouganous J, Long W, Ragsdale AP, Gravel S. Inferring the Joint Demographic History of Multiple Populations: Beyond the Diffusion Approximation. Genetics. PMID 28495960 DOI: 10.1534/Genetics.117.200493  0.351
2017 Martin AR, Gignoux CR, Walters RK, Wojcik GL, Neale BM, Gravel S, Daly MJ, Bustamante CD, Kenny EE. Human Demographic History Impacts Genetic Risk Prediction across Diverse Populations. American Journal of Human Genetics. PMID 28366442 DOI: 10.1016/J.Ajhg.2017.03.004  0.383
2016 Baharian S, Barakatt M, Gignoux CR, Shringarpure S, Errington J, Blot WJ, Bustamante CD, Kenny EE, Williams SM, Aldrich MC, Gravel S. The Great Migration and African-American Genomic Diversity. Plos Genetics. 12: e1006059. PMID 27232753 DOI: 10.1371/Journal.Pgen.1006059  0.32
2016 Gravel S. When is Selection Effective? Genetics. PMID 27010021 DOI: 10.1534/Genetics.115.184630  0.397
2015 Homburger JR, Moreno-Estrada A, Gignoux CR, Nelson D, Sanchez E, Ortiz-Tello P, Pons-Estel BA, Acevedo-Vasquez E, Miranda P, Langefeld CD, Gravel S, Alarcón-Riquelme ME, Bustamante CD. Genomic Insights into the Ancestry and Demographic History of South America. Plos Genetics. 11: e1005602. PMID 26636962 DOI: 10.1371/Journal.Pgen.1005602  0.356
2015 Coffman AJ, Hsieh P, Gravel S, Gutenkunst RN. Computationally efficient composite likelihood statistics for demographic inference. Molecular Biology and Evolution. PMID 26545922 DOI: 10.1093/Molbev/Msv255  0.319
2015 Henn BM, Botigué LR, Bustamante CD, Clark AG, Gravel S. Estimating the mutation load in human genomes. Nature Reviews. Genetics. 16: 333-43. PMID 25963372 DOI: 10.1038/Nrg3931  0.327
2015 Gravel S, Steel M. The existence and abundance of ghost ancestors in biparental populations. Theoretical Population Biology. 101: 47-53. PMID 25703300 DOI: 10.1016/J.Tpb.2015.02.002  0.342
2014 Perry GH, Foll M, Grenier JC, Patin E, Nédélec Y, Pacis A, Barakatt M, Gravel S, Zhou X, Nsobya SL, Excoffier L, Quintana-Murci L, Dominy NJ, Barreiro LB. Adaptive, convergent origins of the pygmy phenotype in African rainforest hunter-gatherers. Proceedings of the National Academy of Sciences of the United States of America. 111: E3596-603. PMID 25136101 DOI: 10.1073/Pnas.1402875111  0.352
2014 Gravel S. Predicting discovery rates of genomic features. Genetics. 197: 601-10. PMID 24637199 DOI: 10.1534/Genetics.114.162149  0.369
2014 Patin E, Siddle KJ, Laval G, Quach H, Harmant C, Becker N, Froment A, Régnault B, Lemée L, Gravel S, Hombert JM, Van der Veen L, Dominy NJ, Perry GH, Barreiro LB, et al. The impact of agricultural emergence on the genetic history of African rainforest hunter-gatherers and agriculturalists. Nature Communications. 5: 3163. PMID 24495941 DOI: 10.1038/Ncomms4163  0.385
2013 Gravel S, Zakharia F, Moreno-Estrada A, Byrnes JK, Muzzio M, Rodriguez-Flores JL, Kenny EE, Gignoux CR, Maples BK, Guiblet W, Dutil J, Via M, Sandoval K, Bedoya G, et al. Reconstructing Native American migrations from whole-genome and whole-exome data. Plos Genetics. 9: e1004023. PMID 24385924 DOI: 10.1371/Journal.Pgen.1004023  0.4
2013 Moreno-Estrada A, Gravel S, Zakharia F, McCauley JL, Byrnes JK, Gignoux CR, Ortiz-Tello PA, Martínez RJ, Hedges DJ, Morris RW, Eng C, Sandoval K, Acevedo-Acevedo S, Norman PJ, Layrisse Z, et al. Reconstructing the population genetic history of the Caribbean. Plos Genetics. 9: e1003925. PMID 24244192 DOI: 10.1371/Journal.Pgen.1003925  0.383
2013 Maples BK, Gravel S, Kenny EE, Bustamante CD. RFMix: a discriminative modeling approach for rapid and robust local-ancestry inference. American Journal of Human Genetics. 93: 278-88. PMID 23910464 DOI: 10.1016/J.Ajhg.2013.06.020  0.328
2013 Botigué LR, Henn BM, Gravel S, Maples BK, Gignoux CR, Corona E, Atzmon G, Burns E, Ostrer H, Flores C, Bertranpetit J, Comas D, Bustamante CD. Gene flow from North Africa contributes to differential human genetic diversity in southern Europe. Proceedings of the National Academy of Sciences of the United States of America. 110: 11791-6. PMID 23733930 DOI: 10.1073/Pnas.1306223110  0.324
2012 Kidd JM, Gravel S, Byrnes J, Moreno-Estrada A, Musharoff S, Bryc K, Degenhardt JD, Brisbin A, Sheth V, Chen R, McLaughlin SF, Peckham HE, Omberg L, Bormann Chung CA, Stanley S, et al. Population genetic inference from personal genome data: impact of ancestry and admixture on human genomic variation. American Journal of Human Genetics. 91: 660-71. PMID 23040495 DOI: 10.1016/J.Ajhg.2012.08.025  0.39
2012 Tennessen JA, Bigham AW, O'Connor TD, Fu W, Kenny EE, Gravel S, McGee S, Do R, Liu X, Jun G, Kang HM, Jordan D, Leal SM, Gabriel S, Rieder MJ, et al. Evolution and functional impact of rare coding variation from deep sequencing of human exomes. Science (New York, N.Y.). 337: 64-9. PMID 22604720 DOI: 10.1126/Science.1219240  0.342
2012 Gravel S. Population genetics models of local ancestry. Genetics. 191: 607-19. PMID 22491189 DOI: 10.1534/Genetics.112.139808  0.388
2011 Marth GT, Yu F, Indap AR, Garimella K, Gravel S, Leong WF, Tyler-Smith C, Bainbridge M, Blackwell T, Zheng-Bradley X, Chen Y, Challis D, Clarke L, Ball EV, Cibulskis K, et al. The functional spectrum of low-frequency coding variation. Genome Biology. 12: R84. PMID 21917140 DOI: 10.1186/Gb-2011-12-9-R84  0.357
2011 Gravel S, Henn BM, Gutenkunst RN, Indap AR, Marth GT, Clark AG, Yu F, Gibbs RA, Bustamante CD. Demographic history and rare allele sharing among human populations. Proceedings of the National Academy of Sciences of the United States of America. 108: 11983-8. PMID 21730125 DOI: 10.1073/Pnas.1019276108  0.405
2011 Gravel S, Elser V, Kallus Y. Upper Bound on the Packing Density of Regular Tetrahedra and Octahedra Discrete and Computational Geometry. 46: 799-818. DOI: 10.1007/S00454-010-9304-X  0.532
2010 Kallus Y, Elser V, Gravel S. Method for dense packing discovery. Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics. 82: 056707. PMID 21230619 DOI: 10.1103/Physreve.82.056707  0.557
2010 Henn BM, Gravel S, Moreno-Estrada A, Acevedo-Acevedo S, Bustamante CD. Fine-scale population structure and the era of next-generation sequencing. Human Molecular Genetics. 19: R221-6. PMID 20876616 DOI: 10.1093/Hmg/Ddq403  0.402
2010 Kallus Y, Elser V, Gravel S. Dense periodic packings of tetrahedra with small repeating units Discrete and Computational Geometry. 44: 245-252. DOI: 10.1007/S00454-010-9254-3  0.536
2010 Elser V, Gravel S. Laminating lattices with symmetrical glue Discrete and Computational Geometry. 43: 363-374. DOI: 10.1007/S00454-008-9112-8  0.521
2008 Gravel S, Elser V. Divide and concur: a general approach to constraint satisfaction. Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics. 78: 036706. PMID 18851188 DOI: 10.1103/Physreve.78.036706  0.538
2008 Clément JF, Bibeau-Poirier A, Gravel SP, Grandvaux N, Bonneil E, Thibault P, Meloche S, Servant MJ. Phosphorylation of IRF-3 on Ser 339 generates a hyperactive form of IRF-3 through regulation of dimerization and CBP association. Journal of Virology. 82: 3984-96. PMID 18272581 DOI: 10.1128/Jvi.02526-07  0.364
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