-
1
-
-
84975742565
-
A map of human genome variation from population-scale sequencing
-
1000 Genomes Project Consortium
-
1000 Genomes Project Consortium, 2010 A map of human genome variation from population-scale sequencing. Nature 467 (7319): 1061-1073.
-
(2010)
Nature
, vol.467
, Issue.7319
, pp. 1061-1073
-
-
-
2
-
-
77958134755
-
An integrated map of 2010 Ascertainment biases in snp chips affect measures of population divergence
-
1000 Genomes Project Consortium
-
1000 Genomes Project Consortium, 2012 An integrated map of 2010 Ascertainment biases in snp chips affect measures of population divergence. Mol. Biol. Evol. 27(11): 2534-2547.
-
(2012)
Mol. Biol. Evol
, vol.27
, Issue.11
, pp. 2534-2547
-
-
-
3
-
-
84859636918
-
A fine-scale chimpanzee genetic map from population sequencing
-
Auton, A., A. Fledel-Alon, S. Pfeifer, O. Venn, L. Segurel et al., 2012 A fine-scale chimpanzee genetic map from population sequencing. Science 336(6078): 193-198.
-
(2012)
Science
, vol.336
, Issue.6078
, pp. 193-198
-
-
Auton, A.1
Fledel-Alon, A.2
Pfeifer, S.3
Venn, O.4
Segurel, L.5
-
4
-
-
0042634161
-
Likelihood-based inference for genetic correlation coefficients
-
Balding, D. J., 2003 Likelihood-based inference for genetic correlation coefficients. Theor. Popul. Biol. 63(3): 221-230.
-
(2003)
Theor. Popul. Biol
, vol.63
, Issue.3
, pp. 221-230
-
-
Balding, D.J.1
-
5
-
-
0029199341
-
A method for quantifying differentiation between populations at multi-allelic loci and its implications for investigating identity and paternity
-
Balding, D. J., and R. A. Nichols, 1995 A method for quantifying differentiation between populations at multi-allelic loci and its implications for investigating identity and paternity. Genetica 96 (1/2): 3-12.
-
(1995)
Genetica
, vol.96
, Issue.1-2
, pp. 3-12
-
-
Balding, D.J.1
Nichols, R.A.2
-
6
-
-
1642269679
-
Identifying adaptive genetic divergence among populations from genome scans
-
Beaumont, M. A., and D. J. Balding, 2004 Identifying adaptive genetic divergence among populations from genome scans. Mol. Ecol. 13(4): 969-980.
-
(2004)
Mol. Ecol
, vol.13
, Issue.4
, pp. 969-980
-
-
Beaumont, M.A.1
Balding, D.J.2
-
7
-
-
84876057069
-
Assessing the accuracy and power of population genetic inference from low-pass next-generation sequencing data
-
Crawford, J. E., and B. P. Lazzaro, 2012 Assessing the accuracy and power of population genetic inference from low-pass next-generation sequencing data. Frontiers Genet. 3: 66.
-
(2012)
Frontiers Genet
, vol.3
, pp. 66
-
-
Crawford, J.E.1
Lazzaro, B.P.2
-
10
-
-
58149347836
-
A genome-scan method to identify selected loci appropriate for both dominant and codominant markers: A Bayesian perspective
-
Foll, M., and O. Gaggiotti, 2008 A genome-scan method to identify selected loci appropriate for both dominant and codominant markers: a Bayesian perspective. Genetics 180: 977-993.
-
(2008)
Genetics
, vol.180
, pp. 977-993
-
-
Foll, M.1
Gaggiotti, O.2
-
11
-
-
79953184676
-
A hierarchical Bayesian model for next-generation population genomics
-
Gompert, Z., and C. A. Buerkle, 2011 A hierarchical Bayesian model for next-generation population genomics. Genetics 187: 903-917.
-
(2011)
Genetics
, vol.187
, pp. 903-917
-
-
Gompert, Z.1
Buerkle, C.A.2
-
12
-
-
84863512164
-
Genomic regions with a history of divergent selection affect fitness of hybrids between two butterfly species
-
Gompert, Z., L. K. Lucas, C. C. Nice, J. A. Fordyce, M. L. Forister et al., 2012 Genomic regions with a history of divergent selection affect fitness of hybrids between two butterfly species. Evolution 66(7): 2167-2181.
-
(2012)
Evolution
, vol.66
, Issue.7
, pp. 2167-2181
-
-
Gompert, Z.1
Lucas, L.K.2
Nice, C.C.3
Fordyce, J.A.4
Forister, M.L.5
-
13
-
-
46449121800
-
Population genetic analysis of shotgun assemblies of genomic sequences from multiple individuals
-
Hellmann, I., Y. Mang, Z. Gu, P. Li, F. M. de la Vega et al., 2008 Population genetic analysis of shotgun assemblies of genomic sequences from multiple individuals. Genome Res. 18(7): 1020-1029.
-
(2008)
Genome Res
, vol.18
, Issue.7
, pp. 1020-1029
-
-
Hellmann, I.1
Mang, Y.2
Gu, Z.3
Li, P.4
de la Vega, F.M.5
-
14
-
-
67349176068
-
Genetics in geographically structured populations: Defining, estimating and interpreting f (st)
-
Holsinger, K. E., and B. S. Weir, 2009 Genetics in geographically structured populations: defining, estimating and interpreting f (st). Nat. Rev. Genet. 10(9): 639-650.
-
(2009)
Nat. Rev. Genet
, vol.10
, Issue.9
, pp. 639-650
-
-
Holsinger, K.E.1
Weir, B.S.2
-
15
-
-
0035983456
-
A Bayesian approach to inferring population structure from dominant markers
-
Holsinger, K. E., P. O. Lewis, and D. K. Dey, 2002 A Bayesian approach to inferring population structure from dominant markers. Mol. Ecol. 11(7):1157-1164.
-
(2002)
Mol. Ecol
, vol.11
, Issue.7
, pp. 1157-1164
-
-
Holsinger, K.E.1
Lewis, P.O.2
Dey, D.K.3
-
16
-
-
84867875610
-
A map of rice genome variation reveals the origin of cultivated rice
-
Huang, X., N. Kurata, X. Wei, Z. X. Wang, A. Wang et al., 2012 A map of rice genome variation reveals the origin of cultivated rice. Nature 490(7421): 497-501.
-
(2012)
Nature
, vol.490
, Issue.7421
, pp. 497-501
-
-
Huang, X.1
Kurata, N.2
Wei, X.3
Wang, Z.X.4
Wang, A.5
-
17
-
-
0026709389
-
Estimation of levels of gene flow from dna sequence data
-
Hudson, R. R., M. Slatkin, and W. P. Maddison, 1992 Estimation of levels of gene flow from dna sequence data. Genetics 132: 583-589.
-
(1992)
Genetics
, vol.132
, pp. 583-589
-
-
Hudson, R.R.1
Slatkin, M.2
Maddison, W.P.3
-
18
-
-
38349088696
-
Accounting for bias from sequencing error in population genetic estimates
-
Johnson, P. L., and M. Slatkin, 2008 Accounting for bias from sequencing error in population genetic estimates. Mol. Biol. Evol. 25(1): 199-206.
-
(2008)
Mol. Biol. Evol
, vol.25
, Issue.1
, pp. 199-206
-
-
Johnson, P.L.1
Slatkin, M.2
-
19
-
-
80053985877
-
Inference of population mutation rate and detection of segregating sites from next-generation sequence data
-
Kang, C. J., and P. Marjoram, 2011 Inference of population mutation rate and detection of segregating sites from next-generation sequence data. Genetics 189: 595-605.
-
(2011)
Genetics
, vol.189
, pp. 595-605
-
-
Kang, C.J.1
Marjoram, P.2
-
20
-
-
80051532482
-
Inference of site frequency spectra from high-throughput sequence data: Quantification of selection on nonsynonymous and synonymous sites in humans
-
Keightley, P. D., and D. L. Halligan, 2011 Inference of site frequency spectra from high-throughput sequence data: quantification of selection on nonsynonymous and synonymous sites in humans. Genetics 188: 931-940.
-
(2011)
Genetics
, vol.188
, pp. 931-940
-
-
Keightley, P.D.1
Halligan, D.L.2
-
21
-
-
77954198372
-
Design of association studies with pooled or un-pooled next-generation sequencing data
-
Kim, S. Y., Y. Li, Y. Guo, R. Li, J. Holmkvist et al., 2010 Design of association studies with pooled or un-pooled next-generation sequencing data. Genet. Epidemiol. 34(5): 479-491.
-
(2010)
Genet. Epidemiol
, vol.34
, Issue.5
, pp. 479-491
-
-
Kim, S.Y.1
Li, Y.2
Guo, Y.3
Li, R.4
Holmkvist, J.5
-
22
-
-
79958078775
-
Estimation of allele frequency and association mapping using next-generation sequencing data
-
Kim, S. Y., K. E. Lohmueller, A. Albrechtsen, Y. Li, T. Korneliussen et al., 2011 Estimation of allele frequency and association mapping using next-generation sequencing data. BMC Bioinformatics 12: 231.
-
(2011)
BMC Bioinformatics
, vol.12
, pp. 231
-
-
Kim, S.Y.1
Lohmueller, K.E.2
Albrechtsen, A.3
Li, Y.4
Korneliussen, T.5
-
23
-
-
80054915847
-
A statistical framework for snp calling, mutation discovery, association mapping and population genetical parameter estimation from sequencing data
-
Li, H., 2011 A statistical framework for snp calling, mutation discovery, association mapping and population genetical parameter estimation from sequencing data. Bioinformatics 27(21): 2987-2993.
-
(2011)
Bioinformatics
, vol.27
, Issue.21
, pp. 2987-2993
-
-
Li, H.1
-
24
-
-
68549104404
-
The sequence alignment/map format and samtools
-
Li, H., B. Handsaker, A. Wysoker, T. Fennell, J. Ruan et al., 2009 The sequence alignment/map format and samtools. Bio-informatics 25(16): 2078-2079.
-
(2009)
Bio-informatics
, vol.25
, Issue.16
, pp. 2078-2079
-
-
Li, H.1
Handsaker, B.2
Wysoker, A.3
Fennell, T.4
Ruan, J.5
-
25
-
-
78049323331
-
Resequencing of 200 human exomes identifies an excess of low-frequency non-synonymous coding variants
-
Li, Y., N. Vinckenbosch, G. Tian, E. Huerta-Sanchez, T. Jiang et al., 2010 Resequencing of 200 human exomes identifies an excess of low-frequency non-synonymous coding variants. Nat. Genet. 42(11): 969-972.
-
(2010)
Nat. Genet
, vol.42
, Issue.11
, pp. 969-972
-
-
Li, Y.1
Vinckenbosch, N.2
Tian, G.3
Huerta-Sanchez, E.4
Jiang, T.5
-
26
-
-
67849128665
-
Estimation of allele frequencies from high-coverage genome-sequencing projects
-
Lynch, M., 2009 Estimation of allele frequencies from high-coverage genome-sequencing projects. Genetics 182: 295-301.
-
(2009)
Genetics
, vol.182
, pp. 295-301
-
-
Lynch, M.1
-
27
-
-
18744391360
-
Discussion on the meeting on statistical modelling and analysis of genetic data
-
Marchini, J. L., and L. Cardon, 2002 Discussion on the meeting on statistical modelling and analysis of genetic data. J. R. Stat. Soc. Series B Stat. Methodol. 64(4): 737-775.
-
(2002)
J. R. Stat. Soc. Series B Stat. Methodol
, vol.64
, Issue.4
, pp. 737-775
-
-
Marchini, J.L.1
Cardon, L.2
-
28
-
-
77956295988
-
The genome analysis toolkit: A mapreduce framework for analyzing next-generation dna sequencing data
-
McKenna, A., M. Hanna, E. Banks, A. Sivachenko, K. Cibulskis et al., 2010 The genome analysis toolkit: a mapreduce framework for analyzing next-generation dna sequencing data. Genome Res. 20(9): 1297-1303.
-
(2010)
Genome Res
, vol.20
, Issue.9
, pp. 1297-1303
-
-
McKenna, A.1
Hanna, M.2
Banks, E.3
Sivachenko, A.4
Cibulskis, K.5
-
29
-
-
72849144434
-
Sequencing technologies: The next generation
-
Metzker, M. L., 2010 Sequencing technologies: the next generation. Nat. Rev. Genet. 11(1): 31-46.
-
(2010)
Nat. Rev. Genet
, vol.11
, Issue.1
, pp. 31-46
-
-
Metzker, M.L.1
-
30
-
-
80455126001
-
Evaluation of genomic high-throughput sequencing data generated on illumina hiseq and genome analyzer systems
-
Minoche, A. E., J. C. Dohm, and H. Himmelbauer, 2011 Evaluation of genomic high-throughput sequencing data generated on illumina hiseq and genome analyzer systems. Genome Biol. 12(11): R112.
-
(2011)
Genome Biol
, vol.12
, Issue.11
-
-
Minoche, A.E.1
Dohm, J.C.2
Himmelbauer, H.3
-
31
-
-
0036435078
-
Assessing population differentiation and isolation from single-nucleotide polymorphism data
-
Nicholson, G., A. V. Smith, F. Jonsson, O. Gustafsson, K. Stefansson et al., 2002 Assessing population differentiation and isolation from single-nucleotide polymorphism data. J. R. Stat. Soc. Series B Stat. Methodol. 64: 695-715.
-
(2002)
J. R. Stat. Soc. Series B Stat. Methodol
, vol.64
, pp. 695-715
-
-
Nicholson, G.1
Smith, A.V.2
Jonsson, F.3
Gustafsson, O.4
Stefansson, K.5
-
32
-
-
29444452921
-
Molecular signatures of natural selection
-
Nielsen, R., 2005 Molecular signatures of natural selection. Annu. Rev. Genet. 39: 197-218.
-
(2005)
Annu. Rev. Genet
, vol.39
, pp. 197-218
-
-
Nielsen, R.1
-
33
-
-
79956314887
-
Genotype and snp calling from next-generation sequencing data
-
Nielsen, R., J. S. Paul, A. Albrechtsen, and Y. S. Song, 2011 Genotype and snp calling from next-generation sequencing data. Nat. Rev. Genet. 12(6): 443-451.
-
(2011)
Nat. Rev. Genet
, vol.12
, Issue.6
, pp. 443-451
-
-
Nielsen, R.1
Paul, J.S.2
Albrechtsen, A.3
Song, Y.S.4
-
34
-
-
84864273210
-
Snp calling, genotype calling, and sample allele frequency estimation from new-generation sequencing data
-
Nielsen, R., T. Korneliussen, A. Albrechtsen, Y. Li, and J. Wang, 2012 Snp calling, genotype calling, and sample allele frequency estimation from new-generation sequencing data. PLoS ONE 7(7): e37558.
-
(2012)
PLoS ONE
, vol.7
, Issue.7
-
-
Nielsen, R.1
Korneliussen, T.2
Albrechtsen, A.3
Li, Y.4
Wang, J.5
-
35
-
-
0036858782
-
Bayesian principal component analysis
-
Nounou, M. N., B. R. Bakshi, P. K. Goel, and X. Shen, 2002 Bayesian principal component analysis. J. Chemometr. 16: 576-595.
-
(2002)
J. Chemometr
, vol.16
, pp. 576-595
-
-
Nounou, M.N.1
Bakshi, B.R.2
Goel, P.K.3
Shen, X.4
-
36
-
-
33846006923
-
Population structure and eigenanalysis
-
Patterson, N., A. L. Price, and D. Reich, 2006 Population structure and eigenanalysis. PLoS Genet. 2(12): e190.
-
(2006)
PLoS Genet
, vol.2
, Issue.12
-
-
Patterson, N.1
Price, A.L.2
Reich, D.3
-
37
-
-
0003474751
-
-
Ed. 3. Cambridge University Press, Cambridge, UK
-
Press, W., S. Teukolsky, W. Vetterling, and B. Flannery, 2007 Numerical Recipes: The Art of Scientific Computing, Ed. 3. Cambridge University Press, Cambridge, UK.
-
(2007)
Numerical Recipes: The Art of Scientific Computing
-
-
Press, W.1
Teukolsky, S.2
Vetterling, W.3
Flannery, B.4
-
38
-
-
33746512512
-
Principal components analysis corrects for stratification in genome-wide association studies
-
Price, A. L., N. J. Patterson, R. M. Plenge, M. E. Weinblatt, N. A. Shadick et al., 2006 Principal components analysis corrects for stratification in genome-wide association studies. Nat. Genet. 38(8): 904-909.
-
(2006)
Nat. Genet
, vol.38
, Issue.8
, pp. 904-909
-
-
Price, A.L.1
Patterson, N.J.2
Plenge, R.M.3
Weinblatt, M.E.4
Shadick, N.A.5
-
39
-
-
0035528928
-
Case-control studies of association in structured or admixed populations
-
Pritchard, J. K., and P. Donnelly, 2001 Case-control studies of association in structured or admixed populations. Theor. Popul. Biol. 60(3): 227-237.
-
(2001)
Theor. Popul. Biol
, vol.60
, Issue.3
, pp. 227-237
-
-
Pritchard, J.K.1
Donnelly, P.2
-
40
-
-
0021038163
-
Estimation of the coancestry coefficient: Basis for a short-term genetic distance
-
Reynolds, J., B. S. Weir, and C. C. Cockerham, 1983 Estimation of the coancestry coefficient: basis for a short-term genetic distance. Genetics 105: 767-779.
-
(1983)
Genetics
, vol.105
, pp. 767-779
-
-
Reynolds, J.1
Weir, B.S.2
Cockerham, C.C.3
-
41
-
-
55149087864
-
A stochastic version of the price equation reveals the interplay of deterministic and stochastic processes in evolution
-
Rice, S. H., 2008 A stochastic version of the price equation reveals the interplay of deterministic and stochastic processes in evolution. BMC Evol. Biol. 8: 262.
-
(2008)
BMC Evol. Biol
, vol.8
, pp. 262
-
-
Rice, S.H.1
-
42
-
-
70350523804
-
Evolution with stochastic fitness and stochastic migration
-
Rice, S. H., and A. Papadopoulos, 2009 Evolution with stochastic fitness and stochastic migration. PLoS ONE 4(10): e7130.
-
(2009)
PLoS ONE
, vol.4
, Issue.10
-
-
Rice, S.H.1
Papadopoulos, A.2
-
43
-
-
45149108400
-
Bayesian variable selection for detecting adaptive genomic differences among populations
-
Riebler, A., L. Held, and W. Stephan, 2008 Bayesian variable selection for detecting adaptive genomic differences among populations. Genetics 178: 1817-1829.
-
(2008)
Genetics
, vol.178
, pp. 1817-1829
-
-
Riebler, A.1
Held, L.2
Stephan, W.3
-
44
-
-
77950080740
-
Whole-genome resequencing reveals loci under selection during chicken domestication
-
Rubin, C. J., M. C. Zody, J. Eriksson, J. R. Meadows, E. Sherwood et al., 2010 Whole-genome resequencing reveals loci under selection during chicken domestication. Nature 464(7288): 587-591.
-
(2010)
Nature
, vol.464
, Issue.7288
, pp. 587-591
-
-
Rubin, C.J.1
Zody, M.C.2
Eriksson, J.3
Meadows, J.R.4
Sherwood, E.5
-
45
-
-
81055126188
-
Archaic human ancestry in East Asia
-
Skoglund, P., and M. Jakobsson, 2011 Archaic human ancestry in East Asia. Proc. Natl. Acad. Sci. USA 108(45): 18301-18306.
-
(2011)
Proc. Natl. Acad. Sci. USA
, vol.108
, Issue.45
, pp. 18301-18306
-
-
Skoglund, P.1
Jakobsson, M.2
-
46
-
-
84862249935
-
Association testing for next-generation sequencing data using score statistics
-
Skotte, L., T. S. Korneliussen, and A. Albrechtsen, 2012 Association testing for next-generation sequencing data using score statistics. Genet. Epidemiol. 36(5): 430-437.
-
(2012)
Genet. Epidemiol
, vol.36
, Issue.5
, pp. 430-437
-
-
Skotte, L.1
Korneliussen, T.S.2
Albrechtsen, A.3
-
47
-
-
77249170740
-
Comparing spatial maps of human population-genetic variation using procrustes analysis
-
Wang, C., Z. A. Szpiech, J. H. Degnan, M. Jakobsson, T. J. Pemberton et al., 2010 Comparing spatial maps of human population-genetic variation using procrustes analysis. Stat. Appl. Genet. Mol. Biol. 9(1): 13.
-
(2010)
Stat. Appl. Genet. Mol. Biol
, vol.9
, Issue.1
, pp. 13
-
-
Wang, C.1
Szpiech, Z.A.2
Degnan, J.H.3
Jakobsson, M.4
Pemberton, T.J.5
-
49
-
-
0021566877
-
Estimating f-statistics for the analysis of population structure
-
Weir, B. S., and C. C. Cockerham, 1984 Estimating f-statistics for the analysis of population structure. Evolution 38: 1358-1370.
-
(1984)
Evolution
, vol.38
, pp. 1358-1370
-
-
Weir, B.S.1
Cockerham, C.C.2
-
50
-
-
0036957370
-
Estimating f-statistics
-
Weir, B. S., and W. G. Hill, 2002 Estimating f-statistics. Annu. Rev. Genet. 36: 721-750.
-
(2002)
Annu. Rev. Genet
, vol.36
, pp. 721-750
-
-
Weir, B.S.1
Hill, W.G.2
-
51
-
-
0001679299
-
Maximum likelihood principal component analysis
-
Wentzell, P. D., D. Andrews, D. C. Hamilton, F. Faber, and B. R. Kowalski, 1997 Maximum likelihood principal component analysis. J. Chemometr. 11: 339-366.
-
(1997)
J. Chemometr
, vol.11
, pp. 339-366
-
-
Wentzell, P.D.1
Andrews, D.2
Hamilton, D.C.3
Faber, F.4
Kowalski, B.R.5
-
52
-
-
84890417804
-
The genetical structure of populations
-
Wright, S. 1951 The genetical structure of populations. Ann. Eugenics 15: 323-354.
-
(1951)
Ann. Eugenics
, vol.15
, pp. 323-354
-
-
Wright, S.1
-
53
-
-
70350134644
-
Complete resequencing of 40 genomes reveals domestication events and genes in silkworm (bombyx)
-
Xia, Q., Y. Guo, Z. Zhang, D. Li, Z. Xuan et al., 2009 Complete resequencing of 40 genomes reveals domestication events and genes in silkworm (bombyx). Science 326(5951): 433-436.
-
(2009)
Science
, vol.326
, Issue.5951
, pp. 433-436
-
-
Xia, Q.1
Guo, Y.2
Zhang, Z.3
Li, D.4
Xuan, Z.5
-
54
-
-
84862936211
-
Resequencing 50 accessions of cultivated and wild rice yields markers for identifying agronomically important genes
-
Xu, X., X. Liu, S. Ge, J. D. Jensen, F. Hu et al., 2011 Resequencing 50 accessions of cultivated and wild rice yields markers for identifying agronomically important genes. Nat. Biotechnol. 30(1): 105-111.
-
(2011)
Nat. Biotechnol
, vol.30
, Issue.1
, pp. 105-111
-
-
Xu, X.1
Liu, X.2
Ge, S.3
Jensen, J.D.4
Hu, F.5
-
55
-
-
77954319020
-
Sequencing of 50 human exomes reveals adaptation to high altitude
-
Yi, X., Y. Liang, E. Huerta-Sanchez, X. Jin, Z. X. Cuo et al., 2010 Sequencing of 50 human exomes reveals adaptation to high altitude. Science 329(5987): 75-78.
-
(2010)
Science
, vol.329
, Issue.5987
, pp. 75-78
-
-
Yi, X.1
Liang, Y.2
Huerta-Sanchez, E.3
Jin, X.4
Cuo, Z.X.5
-
56
-
-
84859256908
-
Genotype calling from next-generation sequencing data using haplotype information of reads
-
Zhi, D., J. Wu, N. Liu, and K. Zhang, 2012 Genotype calling from next-generation sequencing data using haplotype information of reads. Bioinformatics 28(7): 938-946.
-
(2012)
Bioinformatics
, vol.28
, Issue.7
, pp. 938-946
-
-
Zhi, D.1
Wu, J.2
Liu, N.3
Zhang, K.4
|