| Year |
Citation |
Score |
| 2024 |
Zhao S, Crouse W, Qian S, Luo K, Stephens M, He X. Adjusting for genetic confounders in transcriptome-wide association studies improves discovery of risk genes of complex traits. Nature Genetics. PMID 38279041 DOI: 10.1038/s41588-023-01648-9 |
0.399 |
|
| 2023 |
Zou Y, Carbonetto P, Xie D, Wang G, Stephens M. Fast and flexible joint fine-mapping of multiple traits via the Sum of Single Effects model. Biorxiv : the Preprint Server For Biology. PMID 37425935 DOI: 10.1101/2023.04.14.536893 |
0.634 |
|
| 2023 |
Morgante F, Carbonetto P, Wang G, Zou Y, Sarkar A, Stephens M. A flexible empirical Bayes approach to multivariate multiple regression, and its improved accuracy in predicting multi-tissue gene expression from genotypes. Plos Genetics. 19: e1010539. PMID 37418505 DOI: 10.1371/journal.pgen.1010539 |
0.612 |
|
| 2022 |
Zou Y, Carbonetto P, Wang G, Stephens M. Fine-mapping from summary data with the "Sum of Single Effects" model. Plos Genetics. 18: e1010299. PMID 35853082 DOI: 10.1371/journal.pgen.1010299 |
0.602 |
|
| 2021 |
Barbeira AN, Bonazzola R, Gamazon ER, Liang Y, Park Y, Kim-Hellmuth S, Wang G, Jiang Z, Zhou D, Hormozdiari F, Liu B, Rao A, Hamel AR, Pividori MD, Aguet F, ... ... Stephens M, et al. Exploiting the GTEx resources to decipher the mechanisms at GWAS loci. Genome Biology. 22: 49. PMID 33499903 DOI: 10.1186/s13059-020-02252-4 |
0.699 |
|
| 2021 |
Gerard D, Stephens M. Unifying and Generalizing Methods for Removing Unwanted Variation Based on Negative Controls Statistica Sinica. DOI: 10.5705/Ss.202018.0345 |
0.395 |
|
| 2020 |
Wang G, Sarkar A, Carbonetto P, Stephens M. A simple new approach to variable selection in regression, with application to genetic fine mapping. Journal of the Royal Statistical Society. Series B, Statistical Methodology. 82: 1273-1300. PMID 37220626 DOI: 10.1111/rssb.12388 |
0.594 |
|
| 2020 |
Kim-Hellmuth S, Aguet F, Oliva M, Muñoz-Aguirre M, Kasela S, Wucher V, Castel SE, Hamel AR, Viñuela A, Roberts AL, Mangul S, Wen X, Wang G, Barbeira AN, Garrido-Martín D, ... ... Stephens M, et al. Cell type-specific genetic regulation of gene expression across human tissues. Science (New York, N.Y.). 369. PMID 32913075 DOI: 10.1126/Science.Aaz8528 |
0.686 |
|
| 2020 |
Oliva M, Muñoz-Aguirre M, Kim-Hellmuth S, Wucher V, Gewirtz ADH, Cotter DJ, Parsana P, Kasela S, Balliu B, Viñuela A, Castel SE, Mohammadi P, Aguet F, Zou Y, Khramtsova EA, ... ... Stephens M, et al. The impact of sex on gene expression across human tissues. Science (New York, N.Y.). 369. PMID 32913072 DOI: 10.1126/Science.Aba3066 |
0.687 |
|
| 2020 |
Zhang Z, Luo K, Zou Z, Qiu M, Tian J, Sieh L, Shi H, Zou Y, Wang G, Morrison J, Zhu AC, Qiao M, Li Z, Stephens M, He X, et al. Genetic analyses support the contribution of mRNA N-methyladenosine (mA) modification to human disease heritability. Nature Genetics. PMID 32601472 DOI: 10.1038/S41588-020-0644-Z |
0.785 |
|
| 2020 |
Morrison J, Knoblauch N, Marcus JH, Stephens M, He X. Publisher Correction: Mendelian randomization accounting for correlated and uncorrelated pleiotropic effects using genome-wide summary statistics. Nature Genetics. PMID 32472065 DOI: 10.1038/S41588-020-0655-9 |
0.699 |
|
| 2020 |
Morrison J, Knoblauch N, Marcus JH, Stephens M, He X. Mendelian randomization accounting for correlated and uncorrelated pleiotropic effects using genome-wide summary statistics. Nature Genetics. PMID 32451458 DOI: 10.1038/S41588-020-0631-4 |
0.743 |
|
| 2020 |
Wang G, Sarkar A, Carbonetto P, Stephens M. A simple new approach to variable selection in regression, with application to genetic fine mapping Journal of the Royal Statistical Society Series B-Statistical Methodology. DOI: 10.1111/Rssb.12388 |
0.623 |
|
| 2019 |
Turchin MC, Stephens M. Bayesian multivariate reanalysis of large genetic studies identifies many new associations. Plos Genetics. 15: e1008431. PMID 31596850 DOI: 10.1371/Journal.Pgen.1008431 |
0.794 |
|
| 2019 |
Zhao S, Liu J, Nanga P, Liu Y, Cicek AE, Knoblauch N, He C, Stephens M, He X. Detailed modeling of positive selection improves detection of cancer driver genes. Nature Communications. 10: 3399. PMID 31363082 DOI: 10.1038/S41467-019-11284-9 |
0.329 |
|
| 2019 |
Sarkar AK, Tung PY, Blischak JD, Burnett JE, Li YI, Stephens M, Gilad Y. Discovery and characterization of variance QTLs in human induced pluripotent stem cells. Plos Genetics. 15: e1008045. PMID 31002671 DOI: 10.1371/Journal.Pgen.1008045 |
0.431 |
|
| 2019 |
Al-Asadi H, Petkova D, Stephens M, Novembre J. Estimating recent migration and population-size surfaces. Plos Genetics. 15: e1007908. PMID 30640906 DOI: 10.1371/Journal.Pgen.1007908 |
0.792 |
|
| 2019 |
Urbut SM, Wang G, Carbonetto P, Stephens M. Flexible statistical methods for estimating and testing effects in genomic studies with multiple conditions. Nature Genetics. 51: 187-195. PMID 30478440 DOI: 10.1038/S41588-018-0268-8 |
0.648 |
|
| 2018 |
Zhu X, Stephens M. Large-scale genome-wide enrichment analyses identify new trait-associated genes and pathways across 31 human phenotypes. Nature Communications. 9: 4361. PMID 30341297 DOI: 10.1038/S41467-018-06805-X |
0.439 |
|
| 2018 |
Gerard D, Ferrão LFV, Garcia AAF, Stephens M. Genotyping Polyploids from Messy Sequencing Data. Genetics. PMID 30185430 DOI: 10.1534/Genetics.118.301468 |
0.411 |
|
| 2018 |
Gerard D, Stephens M. Empirical Bayes shrinkage and false discovery rate estimation, allowing for unwanted variation. Biostatistics (Oxford, England). PMID 29985984 DOI: 10.1093/Biostatistics/Kxy029 |
0.409 |
|
| 2018 |
Ferrão LFV, Ferrão RG, Ferrão MAG, Fonseca A, Carbonetto P, Stephens M, Garcia AAF. Accurate genomic prediction of Coffea canephora in multiple environments using whole-genome statistical models. Heredity. PMID 29941997 DOI: 10.1038/S41437-018-0105-Y |
0.409 |
|
| 2018 |
Ward MC, Zhao S, Luo K, Pavlovic BJ, Karimi MM, Stephens M, Gilad Y. Silencing of transposable elements may not be a major driver of regulatory evolution in primate iPSCs. Elife. 7. PMID 29648536 DOI: 10.7554/Elife.33084 |
0.313 |
|
| 2018 |
Smith J, Coop G, Stephens M, Novembre J. Estimating time to the common ancestor for a beneficial allele. Molecular Biology and Evolution. PMID 29361025 DOI: 10.1093/Molbev/Msy006 |
0.408 |
|
| 2017 |
Zhu X, Stephens M. BAYESIAN LARGE-SCALE MULTIPLE REGRESSION WITH SUMMARY STATISTICS FROM GENOME-WIDE ASSOCIATION STUDIES. The Annals of Applied Statistics. 11: 1561-1592. PMID 29399241 DOI: 10.1214/17-Aoas1046 |
0.458 |
|
| 2017 |
Dey KK, Hsiao CJ, Stephens M. Visualizing the structure of RNA-seq expression data using grade of membership models. Plos Genetics. 13: e1006599. PMID 28333934 DOI: 10.1371/Journal.Pgen.1006599 |
0.374 |
|
| 2017 |
Schor IE, Degner JF, Harnett D, Cannavò E, Casale FP, Shim H, Garfield DA, Birney E, Stephens M, Stegle O, Furlong EE. Promoter shape varies across populations and affects promoter evolution and expression noise. Nature Genetics. PMID 28191888 DOI: 10.1038/Ng.3791 |
0.343 |
|
| 2016 |
Stephens M. False discovery rates: a new deal. Biostatistics (Oxford, England). PMID 27756721 DOI: 10.1093/Biostatistics/Kxw041 |
0.346 |
|
| 2016 |
Lu M, Stephens M. Variance Adaptive Shrinkage (vash): Flexible Empirical Bayes estimation of variances. Bioinformatics (Oxford, England). PMID 27436563 DOI: 10.1093/Bioinformatics/Btw483 |
0.4 |
|
| 2016 |
Raj A, Wang SH, Shim H, Harpak A, Li YI, Engelmann B, Stephens M, Gilad Y, Pritchard JK. Thousands of novel translated open reading frames in humans inferred by ribosome footprint profiling. Elife. 5. PMID 27232982 DOI: 10.7554/Elife.13328 |
0.309 |
|
| 2015 |
Shim H, Stephens M. WAVELET-BASED GENETIC ASSOCIATION ANALYSIS OF FUNCTIONAL PHENOTYPES ARISING FROM HIGH-THROUGHPUT SEQUENCING ASSAYS. The Annals of Applied Statistics. 9: 655-686. PMID 29399242 DOI: 10.1214/14-Aoas776 |
0.489 |
|
| 2015 |
Petkova D, Novembre J, Stephens M. Visualizing spatial population structure with estimated effective migration surfaces. Nature Genetics. PMID 26642242 DOI: 10.1038/Ng.3464 |
0.788 |
|
| 2015 |
Shiraishi Y, Tremmel G, Miyano S, Stephens M. A Simple Model-Based Approach to Inferring and Visualizing Cancer Mutation Signatures. Plos Genetics. 11: e1005657. PMID 26630308 DOI: 10.1371/Journal.Pgen.1005657 |
0.334 |
|
| 2015 |
Mondol S, Moltke I, Hart J, Keigwin M, Brown L, Stephens M, Wasser SK. New evidence for hybrid zones of forest and savanna elephants in Central and West Africa. Molecular Ecology. PMID 26577954 DOI: 10.1111/Mec.13472 |
0.354 |
|
| 2015 |
Raj A, Shim H, Gilad Y, Pritchard JK, Stephens M. msCentipede: Modeling Heterogeneity across Genomic Sites and Replicates Improves Accuracy in the Inference of Transcription Factor Binding. Plos One. 10: e0138030. PMID 26406244 DOI: 10.1371/Journal.Pone.0138030 |
0.313 |
|
| 2015 |
Shim H, Chasman DI, Smith JD, Mora S, Ridker PM, Nickerson DA, Krauss RM, Stephens M. A multivariate genome-wide association analysis of 10 LDL subfractions, and their response to statin treatment, in 1868 Caucasians. Plos One. 10: e0120758. PMID 25898129 DOI: 10.1371/Journal.Pone.0120758 |
0.404 |
|
| 2015 |
Tung J, Zhou X, Alberts SC, Stephens M, Gilad Y. The genetic architecture of gene expression levels in wild baboons. Elife. 4. PMID 25714927 DOI: 10.7554/Elife.04729 |
0.437 |
|
| 2015 |
Gao Z, Waggoner D, Stephens M, Ober C, Przeworski M. An estimate of the average number of recessive lethal mutations carried by humans. Genetics. 199: 1243-54. PMID 25697177 DOI: 10.1534/Genetics.114.173351 |
0.352 |
|
| 2015 |
Tung J, Zhou X, Alberts SC, Stephens M, Gilad Y. Author response: The genetic architecture of gene expression levels in wild baboons Elife. DOI: 10.7554/Elife.04729.028 |
0.363 |
|
| 2015 |
Ardlie KG, DeLuca DS, Segrè AV, Sullivan TJ, Young TR, Gelfand ET, Trowbridge CA, Maller JB, Tukiainen T, Lek M, Ward LD, Kheradpour P, Iriarte B, Meng Y, Palmer CD, ... ... Stephens M, et al. The Genotype-Tissue Expression (GTEx) pilot analysis: Multitissue gene regulation in humans Science. 348: 648-660. DOI: 10.1126/science.1262110 |
0.438 |
|
| 2014 |
Wen X, Stephens M. BAYESIAN METHODS FOR GENETIC ASSOCIATION ANALYSIS WITH HETEROGENEOUS SUBGROUPS: FROM META-ANALYSES TO GENE-ENVIRONMENT INTERACTIONS. The Annals of Applied Statistics. 8: 176-203. PMID 26413181 DOI: 10.1214/13-Aoas695 |
0.623 |
|
| 2014 |
Zhou X, Cain CE, Myrthil M, Lewellen N, Michelini K, Davenport ER, Stephens M, Pritchard JK, Gilad Y. Epigenetic modifications are associated with inter-species gene expression variation in primates. Genome Biology. 15: 547. PMID 25468404 DOI: 10.1186/S13059-014-0547-3 |
0.334 |
|
| 2014 |
Mangravite LM, Engelhardt BE, Stephens M, Krauss RM. Mangravite et al. reply. Nature. 513: E3. PMID 25230670 DOI: 10.1038/Nature13630 |
0.641 |
|
| 2014 |
Raj A, Stephens M, Pritchard JK. fastSTRUCTURE: variational inference of population structure in large SNP data sets. Genetics. 197: 573-89. PMID 24700103 DOI: 10.1534/Genetics.114.164350 |
0.419 |
|
| 2014 |
Nair SC, Pattaradilokrat S, Zilversmit MM, Dommer J, Nagarajan V, Stephens MT, Xiao W, Tan JC, Su XZ. Genome-wide polymorphisms and development of a microarray platform to detect genetic variations in Plasmodium yoelii. Molecular and Biochemical Parasitology. 194: 9-15. PMID 24685548 DOI: 10.1016/J.Molbiopara.2014.03.006 |
0.314 |
|
| 2014 |
Zhou X, Stephens M. Efficient multivariate linear mixed model algorithms for genome-wide association studies. Nature Methods. 11: 407-9. PMID 24531419 DOI: 10.1038/Nmeth.2848 |
0.371 |
|
| 2013 |
Carbonetto P, Stephens M. Integrated enrichment analysis of variants and pathways in genome-wide association studies indicates central role for IL-2 signaling genes in type 1 diabetes, and cytokine signaling genes in Crohn's disease. Plos Genetics. 9: e1003770. PMID 24098138 DOI: 10.1371/Journal.Pgen.1003770 |
0.352 |
|
| 2013 |
Mangravite LM, Engelhardt BE, Medina MW, Smith JD, Brown CD, Chasman DI, Mecham BH, Howie B, Shim H, Naidoo D, Feng Q, Rieder MJ, Chen YD, Rotter JI, Ridker PM, ... ... Stephens M, et al. A statin-dependent QTL for GATM expression is associated with statin-induced myopathy. Nature. 502: 377-80. PMID 23995691 DOI: 10.1038/Nature12508 |
0.686 |
|
| 2013 |
Stephens M. A unified framework for association analysis with multiple related phenotypes. Plos One. 8: e65245. PMID 23861737 DOI: 10.1371/Journal.Pone.0065245 |
0.446 |
|
| 2013 |
Flutre T, Wen X, Pritchard J, Stephens M. A statistical framework for joint eQTL analysis in multiple tissues. Plos Genetics. 9: e1003486. PMID 23671422 DOI: 10.1371/Journal.Pgen.1003486 |
0.493 |
|
| 2013 |
Luca F, Maranville JC, Richards AL, Witonsky DB, Stephens M, Di Rienzo A. Genetic, functional and molecular features of glucocorticoid receptor binding. Plos One. 8: e61654. PMID 23637875 DOI: 10.1371/Journal.Pone.0061654 |
0.342 |
|
| 2013 |
Zhou X, Carbonetto P, Stephens M. Polygenic modeling with bayesian sparse linear mixed models. Plos Genetics. 9: e1003264. PMID 23408905 DOI: 10.1371/Journal.Pgen.1003264 |
0.394 |
|
| 2012 |
Pai AA, Cain CE, Mizrahi-Man O, De Leon S, Lewellen N, Veyrieras JB, Degner JF, Gaffney DJ, Pickrell JK, Stephens M, Pritchard JK, Gilad Y. The contribution of RNA decay quantitative trait loci to inter-individual variation in steady-state gene expression levels. Plos Genetics. 8: e1003000. PMID 23071454 DOI: 10.1371/Journal.Pgen.1003000 |
0.39 |
|
| 2012 |
Hart AB, Engelhardt BE, Wardle MC, Sokoloff G, Stephens M, de Wit H, Palmer AA. Genome-wide association study of d-amphetamine response in healthy volunteers identifies putative associations, including cadherin 13 (CDH13). Plos One. 7: e42646. PMID 22952603 DOI: 10.1371/Journal.Pone.0042646 |
0.675 |
|
| 2012 |
Howie B, Fuchsberger C, Stephens M, Marchini J, Abecasis GR. Fast and accurate genotype imputation in genome-wide association studies through pre-phasing. Nature Genetics. 44: 955-9. PMID 22820512 DOI: 10.1038/Ng.2354 |
0.408 |
|
| 2012 |
Zhou X, Stephens M. Genome-wide efficient mixed-model analysis for association studies. Nature Genetics. 44: 821-4. PMID 22706312 DOI: 10.1038/Ng.2310 |
0.408 |
|
| 2012 |
Fu AQ, Genereux DP, Stöger R, Burden AF, Laird CD, Stephens M. Statistical inference of in vivo properties of human DNA methyltransferases from double-stranded methylation patterns. Plos One. 7: e32225. PMID 22442664 DOI: 10.1371/Journal.Pone.0032225 |
0.31 |
|
| 2012 |
Maranville JC, Luca F, Stephens M, Di Rienzo A. Mapping gene-environment interactions at regulatory polymorphisms: insights into mechanisms of phenotypic variation. Transcription. 3: 56-62. PMID 22414753 DOI: 10.4161/trns.19497 |
0.314 |
|
| 2012 |
Veyrieras JB, Gaffney DJ, Pickrell JK, Gilad Y, Stephens M, Pritchard JK. Exon-specific QTLs skew the inferred distribution of expression QTLs detected using gene expression array data. Plos One. 7: e30629. PMID 22359548 DOI: 10.1371/Journal.Pone.0030629 |
0.415 |
|
| 2012 |
Degner JF, Pai AA, Pique-Regi R, Veyrieras JB, Gaffney DJ, Pickrell JK, De Leon S, Michelini K, Lewellen N, Crawford GE, Stephens M, Gilad Y, Pritchard JK. DNase I sensitivity QTLs are a major determinant of human expression variation. Nature. 482: 390-4. PMID 22307276 DOI: 10.1038/Nature10808 |
0.487 |
|
| 2012 |
Gaffney DJ, Veyrieras JB, Degner JF, Pique-Regi R, Pai AA, Crawford GE, Stephens M, Gilad Y, Pritchard JK. Dissecting the regulatory architecture of gene expression QTLs. Genome Biology. 13: R7. PMID 22293038 DOI: 10.1186/Gb-2012-13-1-R7 |
0.425 |
|
| 2012 |
Perry GH, Melsted P, Marioni JC, Wang Y, Bainer R, Pickrell JK, Michelini K, Zehr S, Yoder AD, Stephens M, Pritchard JK, Gilad Y. Comparative RNA sequencing reveals substantial genetic variation in endangered primates. Genome Research. 22: 602-10. PMID 22207615 DOI: 10.1101/Gr.130468.111 |
0.412 |
|
| 2012 |
Mechanic LE, Chen HS, Amos CI, Chatterjee N, Cox NJ, Divi RL, Fan R, Harris EL, Jacobs K, Kraft P, Leal SM, McAllister K, Moore JH, Paltoo DN, Province MA, ... ... Stephens M, et al. Next generation analytic tools for large scale genetic epidemiology studies of complex diseases. Genetic Epidemiology. 36: 22-35. PMID 22147673 DOI: 10.1002/Gepi.20652 |
0.425 |
|
| 2012 |
Carbonetto P, Stephens M. Scalable variational inference for bayesian variable selection in regression, and its accuracy in genetic association studies Bayesian Analysis. 7: 73-108. DOI: 10.1214/12-Ba703 |
0.391 |
|
| 2011 |
Howie B, Marchini J, Stephens M. Genotype imputation with thousands of genomes. G3 (Bethesda, Md.). 1: 457-70. PMID 22384356 DOI: 10.1534/G3.111.001198 |
0.467 |
|
| 2011 |
Maranville JC, Luca F, Richards AL, Wen X, Witonsky DB, Baxter S, Stephens M, Di Rienzo A. Interactions between glucocorticoid treatment and cis-regulatory polymorphisms contribute to cellular response phenotypes. Plos Genetics. 7: e1002162. PMID 21750684 DOI: 10.1371/Journal.Pgen.1002162 |
0.538 |
|
| 2011 |
Fledel-Alon A, Leffler EM, Guan Y, Stephens M, Coop G, Przeworski M. Variation in human recombination rates and its genetic determinants. Plos One. 6: e20321. PMID 21698098 DOI: 10.1371/Journal.Pone.0020321 |
0.578 |
|
| 2011 |
Guan Y, Stephens M. Bayesian variable selection regression for genome-wide association studies and other large-scale problems Annals of Applied Statistics. 5: 1780-1815. DOI: 10.1214/11-Aoas455 |
0.58 |
|
| 2010 |
Fu AQ, Genereux DP, Stöger R, Laird CD, Stephens M. STATISTICAL INFERENCE OF TRANSMISSION FIDELITY OF DNA METHYLATION PATTERNS OVER SOMATIC CELL DIVISIONS IN MAMMALS. The Annals of Applied Statistics. 4: 871-892. PMID 21625348 DOI: 10.1214/09-Aoas297Suppa |
0.324 |
|
| 2010 |
Wen X, Stephens M. USING LINEAR PREDICTORS TO IMPUTE ALLELE FREQUENCIES FROM SUMMARY OR POOLED GENOTYPE DATA. The Annals of Applied Statistics. 4: 1158-1182. PMID 21479081 DOI: 10.1214/10-Aoas338 |
0.597 |
|
| 2010 |
Engelhardt BE, Stephens M. Analysis of population structure: a unifying framework and novel methods based on sparse factor analysis. Plos Genetics. 6: e1001117. PMID 20862358 DOI: 10.1371/Journal.Pgen.1001117 |
0.685 |
|
| 2010 |
Barber MJ, Mangravite LM, Hyde CL, Chasman DI, Smith JD, McCarty CA, Li X, Wilke RA, Rieder MJ, Williams PT, Ridker PM, Chatterjee A, Rotter JI, Nickerson DA, Stephens M, et al. Genome-wide association of lipid-lowering response to statins in combined study populations. Plos One. 5: e9763. PMID 20339536 DOI: 10.1371/Journal.Pone.0009763 |
0.546 |
|
| 2010 |
Pickrell JK, Marioni JC, Pai AA, Degner JF, Engelhardt BE, Nkadori E, Veyrieras JB, Stephens M, Gilad Y, Pritchard JK. Understanding mechanisms underlying human gene expression variation with RNA sequencing. Nature. 464: 768-72. PMID 20220758 DOI: 10.1038/Nature08872 |
0.702 |
|
| 2010 |
Blekhman R, Marioni JC, Zumbo P, Stephens M, Gilad Y. Sex-specific and lineage-specific alternative splicing in primates. Genome Research. 20: 180-9. PMID 20009012 DOI: 10.1101/Gr.099226.109 |
0.341 |
|
| 2010 |
Basu S, Stephens M, Pankow JS, Thompson EA. A likelihood-based trait-model-free approach for linkage detection of binary trait Biometrics. 66: 205-213. PMID 19459835 DOI: 10.1111/J.1541-0420.2009.01270.X |
0.458 |
|
| 2009 |
Hubisz MJ, Falush D, Stephens M, Pritchard JK. Inferring weak population structure with the assistance of sample group information. Molecular Ecology Resources. 9: 1322-32. PMID 21564903 DOI: 10.1111/J.1755-0998.2009.02591.X |
0.37 |
|
| 2009 |
Stephens M, Balding DJ. Bayesian statistical methods for genetic association studies. Nature Reviews. Genetics. 10: 681-90. PMID 19763151 DOI: 10.1038/Nrg2615 |
0.467 |
|
| 2008 |
Guan Y, Stephens M. Practical issues in imputation-based association mapping. Plos Genetics. 4: e1000279. PMID 19057666 DOI: 10.1371/Journal.Pgen.1000279 |
0.579 |
|
| 2008 |
Veyrieras JB, Kudaravalli S, Kim SY, Dermitzakis ET, Gilad Y, Stephens M, Pritchard JK. High-resolution mapping of expression-QTLs yields insight into human gene regulation. Plos Genetics. 4: e1000214. PMID 18846210 DOI: 10.1371/Journal.Pgen.1000214 |
0.381 |
|
| 2008 |
Wasser SK, Joseph Clark W, Drori O, Stephen Kisamo E, Mailand C, Mutayoba B, Stephens M. Combating the illegal trade in African elephant ivory with DNA forensics. Conservation Biology : the Journal of the Society For Conservation Biology. 22: 1065-71. PMID 18786100 DOI: 10.1111/J.1523-1739.2008.01012.X |
0.302 |
|
| 2008 |
Novembre J, Johnson T, Bryc K, Kutalik Z, Boyko AR, Auton A, Indap A, King KS, Bergmann S, Nelson MR, Stephens M, Bustamante CD. Genes mirror geography within Europe. Nature. 456: 98-101. PMID 18758442 DOI: 10.1038/Nature07331 |
0.468 |
|
| 2008 |
Scheet P, Stephens M. Linkage disequilibrium-based quality control for large-scale genetic studies. Plos Genetics. 4: e1000147. PMID 18670630 DOI: 10.1371/Journal.Pgen.1000147 |
0.623 |
|
| 2008 |
Marioni JC, Mason CE, Mane SM, Stephens M, Gilad Y. RNA-seq: an assessment of technical reproducibility and comparison with gene expression arrays. Genome Research. 18: 1509-17. PMID 18550803 DOI: 10.1101/Gr.079558.108 |
0.351 |
|
| 2008 |
Reiner AP, Barber MJ, Guan Y, Ridker PM, Lange LA, Chasman DI, Walston JD, Cooper GM, Jenny NS, Rieder MJ, Durda JP, Smith JD, Novembre J, Tracy RP, Rotter JI, ... Stephens M, et al. Polymorphisms of the HNF1A gene encoding hepatocyte nuclear factor-1 alpha are associated with C-reactive protein. American Journal of Human Genetics. 82: 1193-201. PMID 18439552 DOI: 10.1016/J.Ajhg.2008.03.017 |
0.632 |
|
| 2008 |
Novembre J, Stephens M. Interpreting principal component analyses of spatial population genetic variation Nature Genetics. 40: 646-649. PMID 18425127 DOI: 10.1038/Ng.139 |
0.418 |
|
| 2007 |
Falush D, Stephens M, Pritchard JK. Inference of population structure using multilocus genotype data: dominant markers and null alleles. Molecular Ecology Notes. 7: 574-578. PMID 18784791 DOI: 10.1111/J.1471-8286.2007.01758.X |
0.427 |
|
| 2007 |
Sabeti PC, Varilly P, Fry B, Lohmueller J, Hostetter E, Cotsapas C, Xie X, Byrne EH, McCarroll SA, Gaudet R, Schaffner SF, Lander ES, Frazer KA, Ballinger DG, ... ... Stephens M, et al. Genome-wide detection and characterization of positive selection in human populations. Nature. 449: 913-8. PMID 17943131 DOI: 10.1038/Nature06250 |
0.595 |
|
| 2007 |
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, ... ... Stephens M, et al. A second generation human haplotype map of over 3.1 million SNPs. Nature. 449: 851-61. PMID 17943122 DOI: 10.1038/Nature06258 |
0.613 |
|
| 2007 |
Servin B, Stephens M. Imputation-based analysis of association studies: candidate regions and quantitative traits. Plos Genetics. 3: e114. PMID 17676998 DOI: 10.1371/Journal.Pgen.0030114 |
0.44 |
|
| 2007 |
Roychoudhury A, Stephens M. Fast and accurate estimation of the population-scaled mutation rate, theta, from microsatellite genotype data. Genetics. 176: 1363-6. PMID 17579241 DOI: 10.1534/Genetics.105.049080 |
0.381 |
|
| 2007 |
Wasser SK, Mailand C, Booth R, Mutayoba B, Kisamo E, Clark B, Stephens M. Using DNA to track the origin of the largest ivory seizure since the 1989 trade ban. Proceedings of the National Academy of Sciences of the United States of America. 104: 4228-33. PMID 17360505 DOI: 10.1073/Pnas.0609714104 |
0.322 |
|
| 2007 |
Hellenthal G, Stephens M. msHOT: modifying Hudson's ms simulator to incorporate crossover and gene conversion hotspots. Bioinformatics (Oxford, England). 23: 520-1. PMID 17150995 DOI: 10.1093/Bioinformatics/Btl622 |
0.678 |
|
| 2006 |
Raedt TD, Stephens M, Heyns I, Brems H, Thijs D, Messiaen L, Stephens K, Lazaro C, Wimmer K, Kehrer-Sawatzki H, Vidaud D, Kluwe L, Marynen P, Legius E. Conservation of hotspots for recombination in low-copy repeats associated with the NF1 microdeletion. Nature Genetics. 38: 1419-23. PMID 17115058 DOI: 10.1038/Ng1920 |
0.362 |
|
| 2006 |
Bhangale TR, Stephens M, Nickerson DA. Automating resequencing-based detection of insertion-deletion polymorphisms. Nature Genetics. 38: 1457-62. PMID 17115056 DOI: 10.1038/Ng1925 |
0.401 |
|
| 2006 |
Hellenthal G, Stephens M. Insights into recombination from population genetic variation. Current Opinion in Genetics & Development. 16: 565-72. PMID 17049225 DOI: 10.1016/J.Gde.2006.10.001 |
0.712 |
|
| 2006 |
Scheet P, Stephens M. A fast and flexible statistical model for large-scale population genotype data: applications to inferring missing genotypes and haplotypic phase. American Journal of Human Genetics. 78: 629-44. PMID 16532393 DOI: 10.1086/502802 |
0.636 |
|
| 2006 |
Stephens M, Sloan JS, Robertson PD, Scheet P, Nickerson DA. Automating sequence-based detection and genotyping of SNPs from diploid samples. Nature Genetics. 38: 375-81. PMID 16493422 DOI: 10.1038/Ng1746 |
0.6 |
|
| 2006 |
Marchini J, Cutler D, Patterson N, Stephens M, Eskin E, Halperin E, Lin S, Qin ZS, Munro HM, Abecasis GR, Donnelly P. A comparison of phasing algorithms for trios and unrelated individuals. American Journal of Human Genetics. 78: 437-50. PMID 16465620 DOI: 10.1086/500808 |
0.574 |
|
| 2006 |
Hellenthal G, Pritchard JK, Stephens M. The effects of genotype-dependent recombination, and transmission asymmetry, on linkage disequilibrium. Genetics. 172: 2001-5. PMID 16387890 DOI: 10.1534/Genetics.104.039271 |
0.675 |
|
| 2006 |
Gottardo R, Besag J, Stephens M, Murua A. Probabilistic segmentation and intensity estimation for microarray images. Biostatistics (Oxford, England). 7: 85-99. PMID 16049139 DOI: 10.1093/Biostatistics/Kxi042 |
0.301 |
|
| 2005 |
Stephens M, Scheet P. Accounting for decay of linkage disequilibrium in haplotype inference and missing-data imputation. American Journal of Human Genetics. 76: 449-62. PMID 15700229 DOI: 10.1086/428594 |
0.633 |
|
| 2004 |
Wasser SK, Shedlock AM, Comstock K, Ostrander EA, Mutayoba B, Stephens M. Assigning African elephant DNA to geographic region of origin: applications to the ivory trade. Proceedings of the National Academy of Sciences of the United States of America. 101: 14847-52. PMID 15459317 DOI: 10.1073/Pnas.0403170101 |
0.39 |
|
| 2004 |
Ptak SE, Roeder AD, Stephens M, Gilad Y, Pääbo S, Przeworski M. Absence of the TAP2 human recombination hotspot in chimpanzees. Plos Biology. 2: e155. PMID 15208713 DOI: 10.1371/Journal.Pbio.0020155 |
0.378 |
|
| 2004 |
Crawford DC, Bhangale T, Li N, Hellenthal G, Rieder MJ, Nickerson DA, Stephens M. Evidence for substantial fine-scale variation in recombination rates across the human genome. Nature Genetics. 36: 700-6. PMID 15184900 DOI: 10.1038/Ng1376 |
0.695 |
|
| 2003 |
Li N, Stephens M. Modeling linkage disequilibrium and identifying recombination hotspots using single-nucleotide polymorphism data. Genetics. 165: 2213-33. PMID 14704198 |
0.336 |
|
| 2003 |
Stephens M, Donnelly P. A comparison of bayesian methods for haplotype reconstruction from population genotype data. American Journal of Human Genetics. 73: 1162-9. PMID 14574645 DOI: 10.1086/379378 |
0.547 |
|
| 2003 |
Stephens M, Donnelly P. Ancestral Inference in Population Genetics Models with Selection (with Discussion) Australian & New Zealand Journal of Statistics. 45: 395-430. DOI: 10.1111/1467-842X.00295 |
0.578 |
|
| 2002 |
Balding DJ, Carothers AD, Marchini JL, Cardon LR, Vetta A, Griffiths B, Weir BS, Hill WG, Goldstein D, Strimmer K, Myers S, Beaumont MA, Glasbey CA, Mayer CD, Richardson S, ... ... Stephens M, et al. Discussion on the meeting on 'statistical modelling and analysis of genetic data' Journal of the Royal Statistical Society. Series B: Statistical Methodology. 64: 737-775. DOI: 10.1111/1467-9868.00359 |
0.46 |
|
| 2001 |
Stephens M, Smith NJ, Donnelly P. A new statistical method for haplotype reconstruction from population data. American Journal of Human Genetics. 68: 978-89. PMID 11254454 DOI: 10.1086/319501 |
0.588 |
|
| 2001 |
Stephens M, Smith NJ, Donnelly P. Reply to Zhang et al. American Journal of Human Genetics. 69: 912-914. DOI: 10.1086/323623 |
0.564 |
|
| 2000 |
Pritchard JK, Stephens M, Rosenberg NA, Donnelly P. Association mapping in structured populations. American Journal of Human Genetics. 67: 170-81. PMID 10827107 DOI: 10.1086/302959 |
0.603 |
|
| 2000 |
Stephens M. Times on trees, and the age of an allele. Theoretical Population Biology. 57: 109-119. PMID 10792976 DOI: 10.1006/Tpbi.1999.1442 |
0.308 |
|
| 2000 |
Stephens M, Donnelly P. Inference in molecular population genetics Journal of the Royal Statistical Society. Series B: Statistical Methodology. 62: 605-655. DOI: 10.1111/1467-9868.00254 |
0.563 |
|
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