-
1
-
-
0000244010
-
The apportionment of human diversity
-
T. Dobzhansky M.K. Hecht W.C. Steere Springer US
-
1 Lewontin, R.C., The apportionment of human diversity. Dobzhansky, T., Hecht, M.K., Steere, W.C., (eds.) Evolutionary Biology, 1972, Springer, US, 381–398.
-
(1972)
Evolutionary Biology
, pp. 381-398
-
-
Lewontin, R.C.1
-
2
-
-
84943171338
-
A global reference for human genetic variation
-
2 The 1000 Genomes Project Consortium, A global reference for human genetic variation. Nature 526 (2015), 68–74.
-
(2015)
Nature
, vol.526
, pp. 68-74
-
-
-
3
-
-
84938415837
-
Implications of the apportionment of human genetic diversity for the apportionment of human phenotypic diversity
-
A thoughtful review and analysis of a simple model to address the implications of population differentiation on neutral quantitative trait differentiation.
-
3•• Edge, M.D., Rosenberg, N.A., Implications of the apportionment of human genetic diversity for the apportionment of human phenotypic diversity. Stud Hist Philos Biol Biomed Sci 52 (2015), 32–45 A thoughtful review and analysis of a simple model to address the implications of population differentiation on neutral quantitative trait differentiation.
-
(2015)
Stud Hist Philos Biol Biomed Sci
, vol.52
, pp. 32-45
-
-
Edge, M.D.1
Rosenberg, N.A.2
-
4
-
-
0042591658
-
Human genetic diversity: Lewontin's fallacy
-
4 Edwards, A.W.F., Human genetic diversity: Lewontin's fallacy. Bioessays 25 (2003), 798–801.
-
(2003)
Bioessays
, vol.25
, pp. 798-801
-
-
Edwards, A.W.F.1
-
5
-
-
33846006923
-
Population structure and eigenanalysis
-
5 Patterson, N., Price, A.L., Reich, D., Population structure and eigenanalysis. PLoS Genet, 2, 2006, e190.
-
(2006)
PLoS Genet
, vol.2
, pp. e190
-
-
Patterson, N.1
Price, A.L.2
Reich, D.3
-
6
-
-
0003675970
-
The History and Geography of Human Genes
-
Princeton University Press
-
6 Cavalli-Sforza, L.L., Menozzi, P., Piazza, A., The History and Geography of Human Genes. 1994, Princeton University Press.
-
(1994)
-
-
Cavalli-Sforza, L.L.1
Menozzi, P.2
Piazza, A.3
-
7
-
-
84895801913
-
Advantages and pitfalls in the application of mixed-model association methods
-
7 Yang, J., Zaitlen, N.A., Goddard, M.E., Visscher, P.M., Price, A.L., Advantages and pitfalls in the application of mixed-model association methods. Nat Genet 46 (2014), 100–106.
-
(2014)
Nat Genet
, vol.46
, pp. 100-106
-
-
Yang, J.1
Zaitlen, N.A.2
Goddard, M.E.3
Visscher, P.M.4
Price, A.L.5
-
8
-
-
84902603117
-
Human genetics. The genetics of Mexico recapitulates Native American substructure and affects biomedical traits
-
8 Moreno-Estrada, A., Gignoux, C.R., Fernández-López, J.C., Zakharia, F., Sikora, M., Contreras, A.V., Acuña-Alonzo, V., Sandoval, K., Eng, C., Romero-Hidalgo, S., et al. Human genetics. The genetics of Mexico recapitulates Native American substructure and affects biomedical traits. Science 344 (2014), 1280–1285.
-
(2014)
Science
, vol.344
, pp. 1280-1285
-
-
Moreno-Estrada, A.1
Gignoux, C.R.2
Fernández-López, J.C.3
Zakharia, F.4
Sikora, M.5
Contreras, A.V.6
Acuña-Alonzo, V.7
Sandoval, K.8
Eng, C.9
Romero-Hidalgo, S.10
-
9
-
-
84878484584
-
Analysis of the genetic basis of disease in the context of worldwide human relationships and migration
-
9 Corona, E., Chen, R., Sikora, M., Morgan, A.A., Patel, C.J., Ramesh, A., Bustamante, C.D., Butte, A.J., Analysis of the genetic basis of disease in the context of worldwide human relationships and migration. PLoS Genet, 9, 2013, e1003447.
-
(2013)
PLoS Genet
, vol.9
, pp. e1003447
-
-
Corona, E.1
Chen, R.2
Sikora, M.3
Morgan, A.A.4
Patel, C.J.5
Ramesh, A.6
Bustamante, C.D.7
Butte, A.J.8
-
10
-
-
70350069921
-
Spatial patterns of variation due to natural selection in humans
-
10 Novembre, J., Di Rienzo, A., Spatial patterns of variation due to natural selection in humans. Nat Rev Genet 10 (2009), 745–755.
-
(2009)
Nat Rev Genet
, vol.10
, pp. 745-755
-
-
Novembre, J.1
Di Rienzo, A.2
-
11
-
-
84879335655
-
Testing for associations between loci and environmental gradients using latent factor mixed models
-
11 Frichot, E., Schoville, S.D., Bouchard, G., François, O., Testing for associations between loci and environmental gradients using latent factor mixed models. Mol Biol Evol 30 (2013), 1687–1699.
-
(2013)
Mol Biol Evol
, vol.30
, pp. 1687-1699
-
-
Frichot, E.1
Schoville, S.D.2
Bouchard, G.3
François, O.4
-
12
-
-
77956491134
-
Using environmental correlations to identify loci underlying local adaptation
-
12 Coop, G., Witonsky, D., Rienzo, A.D., Pritchard, J.K., Using environmental correlations to identify loci underlying local adaptation. Genetics 185 (2010), 1411–1423.
-
(2010)
Genetics
, vol.185
, pp. 1411-1423
-
-
Coop, G.1
Witonsky, D.2
Rienzo, A.D.3
Pritchard, J.K.4
-
13
-
-
3442900016
-
Genetic ancestry and the search for personalized genetic histories
-
13 Shriver, M.D., Kittles, R.A., Genetic ancestry and the search for personalized genetic histories. Nat Rev Genet 5 (2004), 611–618.
-
(2004)
Nat Rev Genet
, vol.5
, pp. 611-618
-
-
Shriver, M.D.1
Kittles, R.A.2
-
14
-
-
84891650180
-
What type of person are you? Old-fashioned thinking even in modern science
-
14 Weiss, K.M., Lambert, B.W., What type of person are you? Old-fashioned thinking even in modern science. Cold Spring Harb Perspect Biol, 6, 2014.
-
(2014)
Cold Spring Harb Perspect Biol
, vol.6
-
-
Weiss, K.M.1
Lambert, B.W.2
-
15
-
-
84929249525
-
Fine-scale human genetic structure in Western France
-
15 Karakachoff, M., Duforet-Frebourg, N., Simonet, F., Le Scouarnec, S., Pellen, N., Lecointe, S., Charpentier, E., Gros, F., Cauchi, S., Froguel, P., et al. Fine-scale human genetic structure in Western France. Eur J Hum Genet 23 (2015), 831–836.
-
(2015)
Eur J Hum Genet
, vol.23
, pp. 831-836
-
-
Karakachoff, M.1
Duforet-Frebourg, N.2
Simonet, F.3
Le Scouarnec, S.4
Pellen, N.5
Lecointe, S.6
Charpentier, E.7
Gros, F.8
Cauchi, S.9
Froguel, P.10
-
16
-
-
84930360813
-
The genetic legacy of the expansion of Turkic-speaking nomads across Eurasia
-
16 Yunusbayev, B., Metspalu, M., Metspalu, E., Valeev, A., Litvinov, S., Valiev, R., Akhmetova, V., Balanovska, E., Balanovsky, O., Turdikulova, S., et al. The genetic legacy of the expansion of Turkic-speaking nomads across Eurasia. PLoS Genet, 11, 2015, e1005068.
-
(2015)
PLoS Genet
, vol.11
, pp. e1005068
-
-
Yunusbayev, B.1
Metspalu, M.2
Metspalu, E.3
Valeev, A.4
Litvinov, S.5
Valiev, R.6
Akhmetova, V.7
Balanovska, E.8
Balanovsky, O.9
Turdikulova, S.10
-
17
-
-
84907803675
-
Ancient human genomes suggest three ancestral populations for present-day Europeans
-
17 Lazaridis, I., Patterson, N., Mittnik, A., Renaud, G., Mallick, S., Kirsanow, K., Sudmant, P.H., Schraiber, J.G., Castellano, S., Lipson, M., Ancient human genomes suggest three ancestral populations for present-day Europeans. Nature 513 (2014), 409–413.
-
(2014)
Nature
, vol.513
, pp. 409-413
-
-
Lazaridis, I.1
Patterson, N.2
Mittnik, A.3
Renaud, G.4
Mallick, S.5
Kirsanow, K.6
Sudmant, P.H.7
Schraiber, J.G.8
Castellano, S.9
Lipson, M.10
-
18
-
-
84906818554
-
Toward a new history and geography of human genes informed by ancient DNA
-
18 Pickrell, J.K., Reich, D., Toward a new history and geography of human genes informed by ancient DNA. Trends Genet 30 (2014), 377–389.
-
(2014)
Trends Genet
, vol.30
, pp. 377-389
-
-
Pickrell, J.K.1
Reich, D.2
-
19
-
-
84930953216
-
Massive migration from the steppe was a source for Indo-European languages in Europe
-
•], a large-scale analysis of Neolithic and Bronze Age ancient DNA samples from Europe and Asia to reveal evidence of major gene flow events from the Pontic-Caspian Steppe region into Europe within the past 5000 years.
-
•], a large-scale analysis of Neolithic and Bronze Age ancient DNA samples from Europe and Asia to reveal evidence of major gene flow events from the Pontic-Caspian Steppe region into Europe within the past 5000 years.
-
(2015)
Nature
, vol.522
, pp. 207-211
-
-
Haak, W.1
Lazaridis, I.2
Patterson, N.3
Rohland, N.4
Mallick, S.5
Llamas, B.6
Brandt, G.7
Nordenfelt, S.8
Harney, E.9
Stewardson, K.10
-
20
-
-
84930940396
-
Population genomics of Bronze Age Eurasia
-
•].
-
•].
-
(2015)
Nature
, vol.522
, pp. 167-172
-
-
Allentoft, M.E.1
Sikora, M.2
Sjögren, K.-G.3
Rasmussen, S.4
Rasmussen, M.5
Stenderup, J.6
Damgaard, P.B.7
Schroeder, H.8
Ahlström, T.9
Vinner, L.10
-
21
-
-
84947618596
-
Methods and models for unravelling human evolutionary history
-
21 Schraiber, J.G., Akey, J.M., Methods and models for unravelling human evolutionary history. Nat Rev Genet 16 (2015), 727–740.
-
(2015)
Nat Rev Genet
, vol.16
, pp. 727-740
-
-
Schraiber, J.G.1
Akey, J.M.2
-
22
-
-
80052748466
-
Perspectives on human population structure at the cusp of the sequencing era
-
22 Novembre, J., Ramachandran, S., Perspectives on human population structure at the cusp of the sequencing era. Annu Rev Genomics Hum Genet 12 (2011), 245–274.
-
(2011)
Annu Rev Genomics Hum Genet
, vol.12
, pp. 245-274
-
-
Novembre, J.1
Ramachandran, S.2
-
23
-
-
84894379012
-
The impact of whole-genome sequencing on the reconstruction of human population history
-
23 Veeramah, K.R., Hammer, M.F., The impact of whole-genome sequencing on the reconstruction of human population history. Nat Rev Genet 15 (2014), 149–162.
-
(2014)
Nat Rev Genet
, vol.15
, pp. 149-162
-
-
Veeramah, K.R.1
Hammer, M.F.2
-
24
-
-
84906493593
-
Impact of range expansions on current human genomic diversity
-
24 Sousa, V., Peischl, S., Excoffier, L., Impact of range expansions on current human genomic diversity. Curr Opin Genet Dev 29 (2014), 22–30.
-
(2014)
Curr Opin Genet Dev
, vol.29
, pp. 22-30
-
-
Sousa, V.1
Peischl, S.2
Excoffier, L.3
-
25
-
-
84865856910
-
Revising the human mutation rate: implications for understanding human evolution
-
25 Scally, A., Durbin, R., Revising the human mutation rate: implications for understanding human evolution. Nat Rev Genet 13 (2012), 745–753.
-
(2012)
Nat Rev Genet
, vol.13
, pp. 745-753
-
-
Scally, A.1
Durbin, R.2
-
26
-
-
84987690881
-
Clustering and assignment methods in landscape genetics
-
John Wiley & Sons, Ltd
-
26 François, O., Waits, L.P., Clustering and assignment methods in landscape genetics. Landscape Genetics, 2015, John Wiley & Sons, Ltd, 114–128.
-
(2015)
Landscape Genetics
, pp. 114-128
-
-
François, O.1
Waits, L.P.2
-
27
-
-
84882653255
-
Nine things to remember about human genome diversity
-
27 Barbujani, G., Ghirotto, S., Tassi, F., Nine things to remember about human genome diversity. Tissue Antigens 82 (2013), 155–164.
-
(2013)
Tissue Antigens
, vol.82
, pp. 155-164
-
-
Barbujani, G.1
Ghirotto, S.2
Tassi, F.3
-
28
-
-
84925238671
-
The fine-scale genetic structure of the British population
-
An impressive revelation of fine-scale structure within the small geographic area of the British Isles using the fineSTRUCTURE method.
-
28•• Leslie, S., Winney, B., Hellenthal, G., Davison, D., Boumertit, A., Day, T., Hutnik, K., Royrvik, E.C., Cunliffe, B., Wellcome Trust Case Control Consortium 2, et al. The fine-scale genetic structure of the British population. Nature 519 (2015), 309–314 An impressive revelation of fine-scale structure within the small geographic area of the British Isles using the fineSTRUCTURE method.
-
(2015)
Nature
, vol.519
, pp. 309-314
-
-
Leslie, S.1
Winney, B.2
Hellenthal, G.3
Davison, D.4
Boumertit, A.5
Day, T.6
Hutnik, K.7
Royrvik, E.C.8
Cunliffe, B.9
-
29
-
-
70349472875
-
Reconstructing Indian population history
-
An important paper for its empirical analysis of a major admixture event in Indian population history and its development of f-statistics.
-
29• Reich, D., Thangaraj, K., Patterson, N., Price, A.L., Singh, L., Reconstructing Indian population history. Nature 461 (2009), 489–494 An important paper for its empirical analysis of a major admixture event in Indian population history and its development of f-statistics.
-
(2009)
Nature
, vol.461
, pp. 489-494
-
-
Reich, D.1
Thangaraj, K.2
Patterson, N.3
Price, A.L.4
Singh, L.5
-
30
-
-
84869057650
-
Ancient admixture in human history
-
A comprehensive presentation of the influential f-statistics with applications.
-
30•• Patterson, N.J., Moorjani, P., Luo, Y., Mallick, S., Rohland, N., Zhan, Y., Genschoreck, T., Webster, T., Reich, D., Ancient admixture in human history. Genetics 192:3 (2012), 1065–1093 A comprehensive presentation of the influential f-statistics with applications.
-
(2012)
Genetics
, vol.192
, Issue.3
, pp. 1065-1093
-
-
Patterson, N.J.1
Moorjani, P.2
Luo, Y.3
Mallick, S.4
Rohland, N.5
Zhan, Y.6
Genschoreck, T.7
Webster, T.8
Reich, D.9
-
31
-
-
84892367625
-
Upper Palaeolithic Siberian genome reveals dual ancestry of Native Americans
-
31 Raghavan, M., Skoglund, P., Graf, K.E., Metspalu, M., Albrechtsen, A., Moltke, I., Rasmussen, S., Stafford, T.W. Jr., Orlando, L., Metspalu, E., et al. Upper Palaeolithic Siberian genome reveals dual ancestry of Native Americans. Nature 505 (2014), 87–91.
-
(2014)
Nature
, vol.505
, pp. 87-91
-
-
Raghavan, M.1
Skoglund, P.2
Graf, K.E.3
Metspalu, M.4
Albrechtsen, A.5
Moltke, I.6
Rasmussen, S.7
Stafford, T.W.8
Orlando, L.9
Metspalu, E.10
-
32
-
-
84926320923
-
Demography and the age of rare variants
-
An innovative paper developing the idea of using shared sequence similarity around doubleton variants to assess recent coalescent times, demographic history, and structure.
-
32• Mathieson, I., McVean, G., Demography and the age of rare variants. PLoS Genet, 10, 2014, e1004528 An innovative paper developing the idea of using shared sequence similarity around doubleton variants to assess recent coalescent times, demographic history, and structure.
-
(2014)
PLoS Genet
, vol.10
, pp. e1004528
-
-
Mathieson, I.1
McVean, G.2
-
33
-
-
84905579746
-
Whole-genome sequence variation, population structure and demographic history of the Dutch population
-
33 The Genome of the Netherlands Consortium, Whole-genome sequence variation, population structure and demographic history of the Dutch population. Nat Genet 46 (2014), 818–825.
-
(2014)
Nat Genet
, vol.46
, pp. 818-825
-
-
The Genome of the Netherlands Consortium1
-
34
-
-
84943182742
-
The UK10K project identifies rare variants in health and disease
-
34 UK10K Consortium, Walter, K., Min, J.L., Huang, J., Crooks, L., Memari, Y., McCarthy, S., Perry, J.R.B., Xu, C., Futema, M., et al. The UK10K project identifies rare variants in health and disease. Nature 526 (2015), 82–90.
-
(2015)
Nature
, vol.526
, pp. 82-90
-
-
UK10K Consortium1
Walter, K.2
Min, J.L.3
Huang, J.4
Crooks, L.5
Memari, Y.6
McCarthy, S.7
Perry, J.R.B.8
Xu, C.9
Futema, M.10
-
35
-
-
84945370533
-
Genome sequencing elucidates Sardinian genetic architecture and augments association analyses for lipid and blood inflammatory markers
-
35 Sidore, C., Busonero, F., Maschio, A., Porcu, E., Naitza, S., Zoledziewska, M., Mulas, A., Pistis, G., Steri, M., Danjou, F., et al. Genome sequencing elucidates Sardinian genetic architecture and augments association analyses for lipid and blood inflammatory markers. Nat Genet 47 (2015), 1272–1281.
-
(2015)
Nat Genet
, vol.47
, pp. 1272-1281
-
-
Sidore, C.1
Busonero, F.2
Maschio, A.3
Porcu, E.4
Naitza, S.5
Zoledziewska, M.6
Mulas, A.7
Pistis, G.8
Steri, M.9
Danjou, F.10
-
36
-
-
84883685094
-
Estimating and interpreting FST: the impact of rare variants
-
36 Bhatia, G., Patterson, N., Sankararaman, S., Price, A.L., Estimating and interpreting FST: the impact of rare variants. Genome Res 23 (2013), 1514–1521.
-
(2013)
Genome Res
, vol.23
, pp. 1514-1521
-
-
Bhatia, G.1
Patterson, N.2
Sankararaman, S.3
Price, A.L.4
-
37
-
-
84876396051
-
The relationship between F(ST) and the frequency of the most frequent allele
-
ST that can help explain differences in values found across different marker types.
-
ST that can help explain differences in values found across different marker types.
-
(2013)
Genetics
, vol.193
, pp. 515-528
-
-
Jakobsson, M.1
Edge, M.D.2
Rosenberg, N.A.3
-
38
-
-
51649095312
-
GST and its relatives do not measure differentiation
-
38 Jost, L., GST and its relatives do not measure differentiation. Mol Ecol 17 (2008), 4015–4026.
-
(2008)
Mol Ecol
, vol.17
, pp. 4015-4026
-
-
Jost, L.1
-
39
-
-
84978827983
-
Admixture, population structure, and F-statistics
-
A synthetic review relating f-statistics to coalescent times and mathematical concepts from phylogenetics.
-
39• Peter, B.M., Admixture, population structure, and F-statistics. Genetics 202 (2016), 1485–1501 A synthetic review relating f-statistics to coalescent times and mathematical concepts from phylogenetics.
-
(2016)
Genetics
, vol.202
, pp. 1485-1501
-
-
Peter, B.M.1
-
40
-
-
84869026948
-
Inference of population splits and mixtures from genome-wide allele frequency data
-
40 Pickrell, J.K., Pritchard, J.K., Inference of population splits and mixtures from genome-wide allele frequency data. PLoS Genet, 8, 2012, e1002967.
-
(2012)
PLoS Genet
, vol.8
, pp. e1002967
-
-
Pickrell, J.K.1
Pritchard, J.K.2
-
41
-
-
84892372058
-
Efficient moment-based inference of admixture parameters and sources of gene flow
-
41 Lipson, M., Loh, P.-R., Levin, A., Reich, D., Patterson, N., Berger, B., Efficient moment-based inference of admixture parameters and sources of gene flow. Mol Biol Evol 30 (2013), 1788–1802.
-
(2013)
Mol Biol Evol
, vol.30
, pp. 1788-1802
-
-
Lipson, M.1
Loh, P.-R.2
Levin, A.3
Reich, D.4
Patterson, N.5
Berger, B.6
-
42
-
-
84955411568
-
Efficient computation of the joint sample frequency spectra for multiple populations
-
arXiv:1503.01133 [math, q-bio] Develops an efficient framework to calculate likelihoods under arbitrary population trees with admixture.
-
42• Kamm, J.A., Terhorst, J., Song, Y.S., Efficient computation of the joint sample frequency spectra for multiple populations. 2015 arXiv:1503.01133 [math, q-bio] Develops an efficient framework to calculate likelihoods under arbitrary population trees with admixture.
-
(2015)
-
-
Kamm, J.A.1
Terhorst, J.2
Song, Y.S.3
-
43
-
-
84924456174
-
Phylogenetic Networks: Concepts, Algorithms and Applications
-
Cambridge University Press Cambridge, UK
-
43 Huson, D.H., Rupp, R., Scornavacca, C., Phylogenetic Networks: Concepts, Algorithms and Applications. 2010, Cambridge University Press, Cambridge, UK.
-
(2010)
-
-
Huson, D.H.1
Rupp, R.2
Scornavacca, C.3
-
44
-
-
84860577768
-
The probability of a gene tree topology within a phylogenetic network with applications to hybridization detection
-
44 Yu, Y., Degnan, J.H., Nakhleh, L., The probability of a gene tree topology within a phylogenetic network with applications to hybridization detection. PLoS Genet, 8, 2012, e1002660.
-
(2012)
PLoS Genet
, vol.8
, pp. e1002660
-
-
Yu, Y.1
Degnan, J.H.2
Nakhleh, L.3
-
45
-
-
0034118493
-
Inference of population structure using multilocus genotype data
-
45 Pritchard, J.K., Stephens, M., Donnelly, P., Inference of population structure using multilocus genotype data. Genetics 155 (2000), 945–959.
-
(2000)
Genetics
, vol.155
, pp. 945-959
-
-
Pritchard, J.K.1
Stephens, M.2
Donnelly, P.3
-
46
-
-
0041817568
-
Inference of population structure using multilocus genotype data: linked loci and correlated allele frequencies
-
46 Falush, D., Stephens, M., Pritchard, J.K., Inference of population structure using multilocus genotype data: linked loci and correlated allele frequencies. Genetics 164 (2003), 1567–1587.
-
(2003)
Genetics
, vol.164
, pp. 1567-1587
-
-
Falush, D.1
Stephens, M.2
Pritchard, J.K.3
-
47
-
-
17644402806
-
Estimation of individual admixture: analytical and study design considerations
-
47 Tang, H., Peng, J., Wang, P., Risch, N.J., Estimation of individual admixture: analytical and study design considerations. Genet Epidemiol 28 (2005), 289–301.
-
(2005)
Genet Epidemiol
, vol.28
, pp. 289-301
-
-
Tang, H.1
Peng, J.2
Wang, P.3
Risch, N.J.4
-
48
-
-
69749099417
-
Fast model-based estimation of ancestry in unrelated individuals
-
48 Alexander, D.H., Novembre, J., Lange, K., Fast model-based estimation of ancestry in unrelated individuals. Genome Res 19 (2009), 1655–1664.
-
(2009)
Genome Res
, vol.19
, pp. 1655-1664
-
-
Alexander, D.H.1
Novembre, J.2
Lange, K.3
-
49
-
-
84902485214
-
fastSTRUCTURE: variational inference of population structure in large SNP datasets
-
49 Raj, A., Stephens, M., Pritchard, J.K., fastSTRUCTURE: variational inference of population structure in large SNP datasets. Genetics 197 (2014), 573–589.
-
(2014)
Genetics
, vol.197
, pp. 573-589
-
-
Raj, A.1
Stephens, M.2
Pritchard, J.K.3
-
50
-
-
84988532250
-
Scaling probabilistic models of genetic variation to millions of humans
-
50 Gopalan, P., Hao, W., Blei, D.M., Storey, J.D., Scaling probabilistic models of genetic variation to millions of humans. bioRxiv, 2015, 10.1101/013227.
-
(2015)
bioRxiv
-
-
Gopalan, P.1
Hao, W.2
Blei, D.M.3
Storey, J.D.4
-
51
-
-
84901301075
-
Enhanced methods for local ancestry assignment in sequenced admixed individuals
-
51 Brown, R., Pasaniuc, B., Enhanced methods for local ancestry assignment in sequenced admixed individuals. PLoS Comput Biol, 10, 2014, e1003555.
-
(2014)
PLoS Comput Biol
, vol.10
, pp. e1003555
-
-
Brown, R.1
Pasaniuc, B.2
-
52
-
-
84931477808
-
Reconstructing past admixture processes from local genomic ancestry using wavelet transformation
-
52 Sanderson, J., Sudoyo, H., Karafet, T.M., Hammer, M.F., Cox, M.P., Reconstructing past admixture processes from local genomic ancestry using wavelet transformation. Genetics 200 (2015), 469–481.
-
(2015)
Genetics
, vol.200
, pp. 469-481
-
-
Sanderson, J.1
Sudoyo, H.2
Karafet, T.M.3
Hammer, M.F.4
Cox, M.P.5
-
53
-
-
84893945338
-
A genetic atlas of human admixture history
-
A large-scale application of methods that detect and characterize admixture without using local ancestry reconstruction.
-
53•• Hellenthal, G., Busby, G.B.J., Band, G., Wilson, J.F., Capelli, C., Falush, D., Myers, S., A genetic atlas of human admixture history. Science 343 (2014), 747–751 A large-scale application of methods that detect and characterize admixture without using local ancestry reconstruction.
-
(2014)
Science
, vol.343
, pp. 747-751
-
-
Hellenthal, G.1
Busby, G.B.J.2
Band, G.3
Wilson, J.F.4
Capelli, C.5
Falush, D.6
Myers, S.7
-
54
-
-
84943456953
-
The role of recent admixture in forming the contemporary West Eurasian genomic landscape
-
54 Busby, G.B.J., Hellenthal, G., Montinaro, F., Tofanelli, S., Bulayeva, K., Rudan, I., Zemunik, T., Hayward, C., Toncheva, D., Karachanak-Yankova, S., et al. The role of recent admixture in forming the contemporary West Eurasian genomic landscape. Curr Biol 25 (2015), 2518–2526.
-
(2015)
Curr Biol
, vol.25
, pp. 2518-2526
-
-
Busby, G.B.J.1
Hellenthal, G.2
Montinaro, F.3
Tofanelli, S.4
Bulayeva, K.5
Rudan, I.6
Zemunik, T.7
Hayward, C.8
Toncheva, D.9
Karachanak-Yankova, S.10
-
55
-
-
84876362318
-
Inferring admixture histories of human populations using linkage disequilibrium
-
55 Loh, P.-R., Lipson, M., Patterson, N., Moorjani, P., Pickrell, J.K., Reich, D., Berger, B., Inferring admixture histories of human populations using linkage disequilibrium. Genetics 193 (2013), 1233–1254.
-
(2013)
Genetics
, vol.193
, pp. 1233-1254
-
-
Loh, P.-R.1
Lipson, M.2
Patterson, N.3
Moorjani, P.4
Pickrell, J.K.5
Reich, D.6
Berger, B.7
-
56
-
-
78049415423
-
Analysis of population structure: a unifying framework and novel methods based on sparse factor analysis
-
56 Engelhardt, B.E., Stephens, M., Analysis of population structure: a unifying framework and novel methods based on sparse factor analysis. PLoS Genet, 6, 2010, e1001117.
-
(2010)
PLoS Genet
, vol.6
, pp. e1001117
-
-
Engelhardt, B.E.1
Stephens, M.2
-
57
-
-
73349108482
-
A genealogical interpretation of principal components analysis
-
57 McVean, G., A genealogical interpretation of principal components analysis. PLoS Genet, 5, 2009, e1000686.
-
(2009)
PLoS Genet
, vol.5
, pp. e1000686
-
-
McVean, G.1
-
58
-
-
84899513456
-
Fast principal component analysis of large-scale genome-wide data
-
58 Abraham, G., Inouye, M., Fast principal component analysis of large-scale genome-wide data. PLoS ONE, 9, 2014, e93766.
-
(2014)
PLoS ONE
, vol.9
, pp. e93766
-
-
Abraham, G.1
Inouye, M.2
-
59
-
-
84960097618
-
Fast principal-component analysis reveals convergent evolution of ADH1B in Europe and East Asia
-
59 Galinsky, K.J., Bhatia, G., Loh, P.-R., Georgiev, S., Mukherjee, S., Patterson, N.J., Price, A.L., Fast principal-component analysis reveals convergent evolution of ADH1B in Europe and East Asia. Am J Hum Genet 98 (2016), 456–472.
-
(2016)
Am J Hum Genet
, vol.98
, pp. 456-472
-
-
Galinsky, K.J.1
Bhatia, G.2
Loh, P.-R.3
Georgiev, S.4
Mukherjee, S.5
Patterson, N.J.6
Price, A.L.7
-
60
-
-
77249170740
-
Comparing spatial maps of human population-genetic variation using Procrustes analysis
-
60 Wang, C., Szpiech, Z.A., Degnan, J.H., Jakobsson, M., Pemberton, T.J., Hardy, J.A., Singleton, A.B., Rosenberg, N.A., Comparing spatial maps of human population-genetic variation using Procrustes analysis. Stat Appl Genet Mol Biol, 9, 2010, Article 13.
-
(2010)
Stat Appl Genet Mol Biol
, vol.9
, pp. Article 13
-
-
Wang, C.1
Szpiech, Z.A.2
Degnan, J.H.3
Jakobsson, M.4
Pemberton, T.J.5
Hardy, J.A.6
Singleton, A.B.7
Rosenberg, N.A.8
-
61
-
-
84898056923
-
Ancestry estimation and control of population stratification for sequence-based association studies
-
61 Wang, C., Zhan, X., Bragg-Gresham, J., Kang, H.M., Stambolian, D., Chew, E.Y., Branham, K.E., Heckenlively, J., Study, FUSION., Fulton, R., et al. Ancestry estimation and control of population stratification for sequence-based association studies. Nat Genet 46 (2014), 409–415.
-
(2014)
Nat Genet
, vol.46
, pp. 409-415
-
-
Wang, C.1
Zhan, X.2
Bragg-Gresham, J.3
Kang, H.M.4
Stambolian, D.5
Chew, E.Y.6
Branham, K.E.7
Heckenlively, J.8
Study, F.9
Fulton, R.10
-
62
-
-
84860132302
-
Origins and genetic legacy of Neolithic farmers and hunter–gatherers in Europe
-
62 Skoglund, P., Malmström, H., Raghavan, M., Storå, J., Hall, P., Willerslev, E., Gilbert, M.T.P., Götherström, A., Jakobsson, M., Origins and genetic legacy of Neolithic farmers and hunter–gatherers in Europe. Science 336 (2012), 466–469.
-
(2012)
Science
, vol.336
, pp. 466-469
-
-
Skoglund, P.1
Malmström, H.2
Raghavan, M.3
Storå, J.4
Hall, P.5
Willerslev, E.6
Gilbert, M.T.P.7
Götherström, A.8
Jakobsson, M.9
-
63
-
-
84960128249
-
Probabilistic models of genetic variation in structured populations applied to global human studies
-
63 Hao, W., Song, M., Storey, J.D., Probabilistic models of genetic variation in structured populations applied to global human studies. Bioinformatics 32 (2016), 713–721.
-
(2016)
Bioinformatics
, vol.32
, pp. 713-721
-
-
Hao, W.1
Song, M.2
Storey, J.D.3
-
64
-
-
84958284610
-
A spatial framework for understanding population structure and admixture
-
Develops a unique and flexible modeling approach that assumes a base model of isolation-by-distance but allows for long-range admixture.
-
64•• Bradburd, G.S., Ralph, P.L., Coop, G.M., A spatial framework for understanding population structure and admixture. PLoS Genet, 12, 2016, e1005703 Develops a unique and flexible modeling approach that assumes a base model of isolation-by-distance but allows for long-range admixture.
-
(2016)
PLoS Genet
, vol.12
, pp. e1005703
-
-
Bradburd, G.S.1
Ralph, P.L.2
Coop, G.M.3
-
65
-
-
42649093791
-
Interpreting principal component analyses of spatial population genetic variation
-
65 Novembre, J., Stephens, M., Interpreting principal component analyses of spatial population genetic variation. Nat Genet 40 (2008), 646–649.
-
(2008)
Nat Genet
, vol.40
, pp. 646-649
-
-
Novembre, J.1
Stephens, M.2
-
66
-
-
84949595494
-
Visualizing spatial population structure with estimated effective migration surfaces
-
A novel approach that visualizes population structure using maps of effective migration.
-
66•• Petkova, D., Novembre, J., Stephens, M., Visualizing spatial population structure with estimated effective migration surfaces. Nat Genet 48 (2016), 94–100 A novel approach that visualizes population structure using maps of effective migration.
-
(2016)
Nat Genet
, vol.48
, pp. 94-100
-
-
Petkova, D.1
Novembre, J.2
Stephens, M.3
-
67
-
-
84878262518
-
Circuit theory and model-based inference for landscape connectivity
-
A novel approach for assessing the contribution of landscape features to patterns of spatial differentiation.
-
67•• Hanks, E.M., Hooten, M.B., Circuit theory and model-based inference for landscape connectivity. J Am Stat Assoc 108 (2013), 22–33 A novel approach for assessing the contribution of landscape features to patterns of spatial differentiation.
-
(2013)
J Am Stat Assoc
, vol.108
, pp. 22-33
-
-
Hanks, E.M.1
Hooten, M.B.2
-
68
-
-
84898057367
-
Nonstationary patterns of isolation-by-distance: inferring measure of local genetic differentiation with Bayesian kriging
-
68 Duforet-Frebourg, N., Blum, M.G.B., Nonstationary patterns of isolation-by-distance: inferring measure of local genetic differentiation with Bayesian kriging. Evolution 68 (2014), 1110–1123.
-
(2014)
Evolution
, vol.68
, pp. 1110-1123
-
-
Duforet-Frebourg, N.1
Blum, M.G.B.2
-
69
-
-
84873589790
-
Anisotropic isolation by distance: the main orientations of human genetic differentiation
-
69 Jay, F., Sjödin, P., Jakobsson, M., Blum, M.G.B., Anisotropic isolation by distance: the main orientations of human genetic differentiation. Mol Biol Evol 30 (2013), 513–525.
-
(2013)
Mol Biol Evol
, vol.30
, pp. 513-525
-
-
Jay, F.1
Sjödin, P.2
Jakobsson, M.3
Blum, M.G.B.4
-
70
-
-
84855427476
-
Combining markers into haplotypes can improve population structure inference
-
70 Gattepaille, L.M., Jakobsson, M., Combining markers into haplotypes can improve population structure inference. Genetics 190 (2012), 159–174.
-
(2012)
Genetics
, vol.190
, pp. 159-174
-
-
Gattepaille, L.M.1
Jakobsson, M.2
-
71
-
-
84938078255
-
HaploPOP: a software that improves population assignment by combining markers into haplotypes
-
71 Duforet-Frebourg, N., Gattepaille, L.M., Blum, M.G.B., Jakobsson, M., HaploPOP: a software that improves population assignment by combining markers into haplotypes. BMC Bioinform, 16, 2015, 242.
-
(2015)
BMC Bioinform
, vol.16
, pp. 242
-
-
Duforet-Frebourg, N.1
Gattepaille, L.M.2
Blum, M.G.B.3
Jakobsson, M.4
-
72
-
-
84868450328
-
Length distributions of identity by descent reveal fine-scale demographic history
-
72 Palamara, P.F., Lencz, T., Darvasi, A., Pe'er, I., Length distributions of identity by descent reveal fine-scale demographic history. Am J Hum Genet 91 (2012), 809–822.
-
(2012)
Am J Hum Genet
, vol.91
, pp. 809-822
-
-
Palamara, P.F.1
Lencz, T.2
Darvasi, A.3
Pe'er, I.4
-
73
-
-
84878314759
-
The geography of recent genetic ancestry across Europe
-
An impressive demonstration of how long haplotype sharing can reveal finer structure and includes models for inferring coalescent time distributions from shared haplotypes.
-
73• Ralph, P., Coop, G., The geography of recent genetic ancestry across Europe. PLoS Biol, 11, 2013, e1001555 An impressive demonstration of how long haplotype sharing can reveal finer structure and includes models for inferring coalescent time distributions from shared haplotypes.
-
(2013)
PLoS Biol
, vol.11
, pp. e1001555
-
-
Ralph, P.1
Coop, G.2
-
74
-
-
84974530800
-
The great migration and African-American genomic diversity
-
74 Baharian, S., Barakatt, M., Gignoux, C.R., Shringarpure, S., Errington, J., Blot, W.J., Bustamante, C.D., Kenny, E.E., Williams, S.M., Aldrich, M.C., et al. The great migration and African-American genomic diversity. PLoS Genet, 12, 2016, e1006059.
-
(2016)
PLoS Genet
, vol.12
, pp. e1006059
-
-
Baharian, S.1
Barakatt, M.2
Gignoux, C.R.3
Shringarpure, S.4
Errington, J.5
Blot, W.J.6
Bustamante, C.D.7
Kenny, E.E.8
Williams, S.M.9
Aldrich, M.C.10
-
75
-
-
84966425163
-
Conflation of short identity-by-descent segments bias their inferred length distribution
-
75 Chiang, C.W.K., Ralph, P., Novembre, J., Conflation of short identity-by-descent segments bias their inferred length distribution. G3 6 (2016), 1287–1296.
-
(2016)
G3
, vol.6
, pp. 1287-1296
-
-
Chiang, C.W.K.1
Ralph, P.2
Novembre, J.3
-
76
-
-
84857477622
-
Inference of population structure using dense haplotype data
-
Introduces an efficient framework to model very-recent population genetic structure and admixture based on the Li and Stephens haplotype copying model.
-
76•• Lawson, D.J., Hellenthal, G., Myers, S., Falush, D., Inference of population structure using dense haplotype data. PLoS Genet, 8, 2012, e1002453 Introduces an efficient framework to model very-recent population genetic structure and admixture based on the Li and Stephens haplotype copying model.
-
(2012)
PLoS Genet
, vol.8
, pp. e1002453
-
-
Lawson, D.J.1
Hellenthal, G.2
Myers, S.3
Falush, D.4
-
77
-
-
84867422922
-
Population identification using genetic data
-
77 Lawson, D.J., Falush, D., Population identification using genetic data. Annu Rev Genomics Hum Genet 13 (2012), 337–361.
-
(2012)
Annu Rev Genomics Hum Genet
, vol.13
, pp. 337-361
-
-
Lawson, D.J.1
Falush, D.2
-
78
-
-
0347361674
-
Modeling linkage disequilibrium and identifying recombination hotspots using single-nucleotide polymorphism data
-
78 Li, N., Stephens, M., Modeling linkage disequilibrium and identifying recombination hotspots using single-nucleotide polymorphism data. Genetics 165 (2003), 2213–2233.
-
(2003)
Genetics
, vol.165
, pp. 2213-2233
-
-
Li, N.1
Stephens, M.2
-
79
-
-
79960914105
-
Inference of human population history from individual whole-genome sequences
-
79 Li, H., Durbin, R., Inference of human population history from individual whole-genome sequences. Nature 475 (2011), 493–496.
-
(2011)
Nature
, vol.475
, pp. 493-496
-
-
Li, H.1
Durbin, R.2
-
80
-
-
84905572361
-
Inferring human population size and separation history from multiple genome sequences
-
80 Schiffels, S., Durbin, R., Inferring human population size and separation history from multiple genome sequences. Nat Genet 46 (2014), 919–925.
-
(2014)
Nat Genet
, vol.46
, pp. 919-925
-
-
Schiffels, S.1
Durbin, R.2
-
81
-
-
84879671007
-
Inferring demographic history from a spectrum of shared haplotype lengths
-
81 Harris, K., Nielsen, R., Inferring demographic history from a spectrum of shared haplotype lengths. PLoS Genet, 9, 2013, e1003521.
-
(2013)
PLoS Genet
, vol.9
, pp. e1003521
-
-
Harris, K.1
Nielsen, R.2
-
82
-
-
84901640930
-
Genome-wide inference of ancestral recombination graphs
-
82 Rasmussen, M.D., Hubisz, M.J., Gronau, I., Siepel, A., Genome-wide inference of ancestral recombination graphs. PLoS Genet, 10, 2014, e1004342.
-
(2014)
PLoS Genet
, vol.10
, pp. e1004342
-
-
Rasmussen, M.D.1
Hubisz, M.J.2
Gronau, I.3
Siepel, A.4
-
83
-
-
84899540087
-
Efficient haplotype matching and storage using the positional Burrows–Wheeler transform (PBWT)
-
Presents a conceptual breakthrough promising efficient algorithms for analysis of large-scale haplotype data.
-
83•• Durbin, R., Efficient haplotype matching and storage using the positional Burrows–Wheeler transform (PBWT). Bioinformatics 30 (2014), 1266–1272 Presents a conceptual breakthrough promising efficient algorithms for analysis of large-scale haplotype data.
-
(2014)
Bioinformatics
, vol.30
, pp. 1266-1272
-
-
Durbin, R.1
-
84
-
-
84985016478
-
Fast haplotype matching in very large cohorts using the Li and Stephens model
-
Presents an algorithm for using the framework of the Positional Burrows Wheeler Transform to efficiently compute likelihoods under the Li and Stephens copying model.
-
84• Lunter, G., Fast haplotype matching in very large cohorts using the Li and Stephens model. bioRxiv, 2016 Presents an algorithm for using the framework of the Positional Burrows Wheeler Transform to efficiently compute likelihoods under the Li and Stephens copying model.
-
(2016)
bioRxiv
-
-
Lunter, G.1
-
85
-
-
38949212271
-
Analysis and application of European genetic substructure using 300 K SNP information
-
85 Tian, C., Plenge, R.M., Ransom, M., Lee, A., Villoslada, P., Selmi, C., Klareskog, L., Pulver, A.E., Qi, L., Gregersen, P.K., et al. Analysis and application of European genetic substructure using 300 K SNP information. PLoS Genet, 4, 2008, e4.
-
(2008)
PLoS Genet
, vol.4
, pp. e4
-
-
Tian, C.1
Plenge, R.M.2
Ransom, M.3
Lee, A.4
Villoslada, P.5
Selmi, C.6
Klareskog, L.7
Pulver, A.E.8
Qi, L.9
Gregersen, P.K.10
-
86
-
-
84907225774
-
Error-prone polymerase activity causes multinucleotide mutations in humans
-
86 Harris, K., Nielsen, R., Error-prone polymerase activity causes multinucleotide mutations in humans. Genome Res 24 (2014), 1445–1454.
-
(2014)
Genome Res
, vol.24
, pp. 1445-1454
-
-
Harris, K.1
Nielsen, R.2
-
87
-
-
84912077079
-
A population genetic signal of polygenic adaptation
-
87 Berg, J.J., Coop, G., A population genetic signal of polygenic adaptation. PLoS Genet, 7, 2014, e1004412.
-
(2014)
PLoS Genet
, vol.7
, pp. e1004412
-
-
Berg, J.J.1
Coop, G.2
-
88
-
-
84988508632
-
Visualizing the geography of genetic variants
-
88 Marcus, J., Novembre, J., Visualizing the geography of genetic variants. bioRxiv, 2016.
-
(2016)
bioRxiv
-
-
Marcus, J.1
Novembre, J.2
-
89
-
-
84861918068
-
ALFRED: an allele frequency resource for research and teaching
-
89 Rajeevan, H., Soundararajan, U., Kidd, J.R., Pakstis, A.J., Kidd, K.K., ALFRED: an allele frequency resource for research and teaching. Nucleic Acids Res 40 (2012), D1010–D1015.
-
(2012)
Nucleic Acids Res
, vol.40
, pp. D1010-D1015
-
-
Rajeevan, H.1
Soundararajan, U.2
Kidd, J.R.3
Pakstis, A.J.4
Kidd, K.K.5
-
90
-
-
0036727834
-
ALFRED: an allele frequency database for anthropology
-
90 Osier, M.V., Cheung, K.-H., Kidd, J.R., Pakstis, A.J., Miller, P.L., Kidd, K.K., ALFRED: an allele frequency database for anthropology. Am J Phys Anthropol 119 (2002), 77–83.
-
(2002)
Am J Phys Anthropol
, vol.119
, pp. 77-83
-
-
Osier, M.V.1
Cheung, K.-H.2
Kidd, J.R.3
Pakstis, A.J.4
Miller, P.L.5
Kidd, K.K.6
-
91
-
-
66049157487
-
Signals of recent positive selection in a worldwide sample of human populations
-
91 Pickrell, J.K., Coop, G., Novembre, J., Kudaravalli, S., Li, J.Z., Absher, D., Srinivasan, B.S., Barsh, G.S., Myers, R.M., Feldman, M.W., et al. Signals of recent positive selection in a worldwide sample of human populations. Genome Res 19 (2009), 826–837.
-
(2009)
Genome Res
, vol.19
, pp. 826-837
-
-
Pickrell, J.K.1
Coop, G.2
Novembre, J.3
Kudaravalli, S.4
Li, J.Z.5
Absher, D.6
Srinivasan, B.S.7
Barsh, G.S.8
Myers, R.M.9
Feldman, M.W.10
-
92
-
-
55549115654
-
Genes mirror geography within Europe
-
92 Novembre, J., Johnson, T., Bryc, K., Kutalik, Z., Boyko, A.R., Auton, A., Indap, A., King, K.S., Bergmann, S., Nelson, M.R., et al. Genes mirror geography within Europe. Nature 456 (2008), 98–101.
-
(2008)
Nature
, vol.456
, pp. 98-101
-
-
Novembre, J.1
Johnson, T.2
Bryc, K.3
Kutalik, Z.4
Boyko, A.R.5
Auton, A.6
Indap, A.7
King, K.S.8
Bergmann, S.9
Nelson, M.R.10
|