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Volumn 4, Issue 12, 2014, Pages 2505-2518

Spatial localization of recent ancestors for admixed individuals

Author keywords

Admixture; Ancestry inference; Genetic continuum; Genetic variation; Localization

Indexed keywords

ANCESTRY GROUP; ARTICLE; DIPLOIDY; EUROPE; EUROPEAN; GENE FREQUENCY; GENE LINKAGE DISEQUILIBRIUM; GENE LOCATION; GENETIC ASSOCIATION; GENETIC DISTANCE; GENETIC ISOLATION BY DISTANCE; GENETIC VARIABILITY; GENOTYPE; GEOGRAPHIC DISTRIBUTION; GRANDPARENT; HAPLOTYPE; HIDDEN MARKOV MODEL; HUMAN; HUMAN GENOME; POPULATION GENETICS; ALGORITHM; BIOLOGICAL MODEL; CAUCASIAN; GENE LOCUS; GENETICS; PROBABILITY;

EID: 84964313408     PISSN: None     EISSN: 21601836     Source Type: Journal    
DOI: 10.1534/g3.114.014274     Document Type: Article
Times cited : (12)

References (44)
  • 1
    • 69749099417 scopus 로고    scopus 로고
    • Fast model-based estimation of ancestry in unrelated individuals
    • Alexander, D. H., J. Novembre, and K. Lange, 2009 Fast model-based estimation of ancestry in unrelated individuals. Genome Res. 19: 1655-1664.
    • (2009) Genome Res. , vol.19 , pp. 1655-1664
    • Alexander, D.H.1    Novembre, J.2    Lange, K.3
  • 3
    • 84878885949 scopus 로고    scopus 로고
    • Enhanced localization of genetic samples through linkagedisequilibrium correction
    • Baran, Y., I. Quintela, A. Carracedo, B. Pasaniuc, and E. Halperin, 2013 Enhanced localization of genetic samples through linkagedisequilibrium correction. Am. J. Hum. Genet. 92: 882-894.
    • (2013) Am. J. Hum. Genet. , vol.92 , pp. 882-894
    • Baran, Y.1    Quintela, I.2    Carracedo, A.3    Pasaniuc, B.4    Halperin, E.5
  • 4
    • 53749102951 scopus 로고    scopus 로고
    • Genome-wide distribution of ancestry in Mexican Americans
    • Basu, A., H. Tang, X. Zhu, C. C. Gu, C. Hanis et al., 2008 Genome-wide distribution of ancestry in Mexican Americans. Hum. Genet. 124: 207-214.
    • (2008) Hum. Genet. , vol.124 , pp. 207-214
    • Basu, A.1    Tang, H.2    Zhu, X.3    Gu, C.C.4    Hanis, C.5
  • 5
    • 34250108028 scopus 로고
    • Model selection and Akaike's information criterion (AIC): The general theory and its analytical extensions
    • Bozdogan, H., 1987 Model selection and Akaike's information criterion (AIC): The general theory and its analytical extensions. Psychometrika 52: 345-370.
    • (1987) Psychometrika , vol.52 , pp. 345-370
    • Bozdogan, H.1
  • 6
    • 84872074517 scopus 로고    scopus 로고
    • PCAdmix: principal components-based assignment of ancestry along each chromosome in individuals with admixed ancestry from two or more populations
    • Brisbin, A., K. Bryc, J. Byrnes, F. Zakharia, L. Omberg et al., 2012 PCAdmix: principal components-based assignment of ancestry along each chromosome in individuals with admixed ancestry from two or more populations. Hum. Biol. 84: 343-364.
    • (2012) Hum. Biol. , vol.84 , pp. 343-364
    • Brisbin, A.1    Bryc, K.2    Byrnes, J.3    Zakharia, F.4    Omberg, L.5
  • 7
    • 77952324523 scopus 로고    scopus 로고
    • Genome-wide patterns of population structure and admixture among Hispanic/Latino populations
    • Bryc, K., C. Velez, T. Karafet, A. Moreno-Estrada, A. Reynolds et al., 2010 Genome-wide patterns of population structure and admixture among Hispanic/Latino populations. Proc. Natl. Acad. Sci. USA 107: 8954-8961.
    • (2010) Proc. Natl. Acad. Sci. USA , vol.107 , pp. 8954-8961
    • Bryc, K.1    Velez, C.2    Karafet, T.3    Moreno-Estrada, A.4    Reynolds, A.5
  • 8
    • 0002629270 scopus 로고
    • Maximum likelihood from incomplete data via the EM algorithm
    • Dempster, A. P., N. M. Laird, and D. B. Rubin, 1977 Maximum likelihood from incomplete data via the EM algorithm. J. R. Stat. Soc., B 39: 1-38.
    • (1977) J. R. Stat. Soc., B , vol.39 , pp. 1-38
    • Dempster, A.P.1    Laird, N.M.2    Rubin, D.B.3
  • 9
    • 77957857734 scopus 로고    scopus 로고
    • Inferring geographic coordinates of origin for Europeans using small panels of ancestry informative markers
    • Drineas, P., J. Lewis, and P. Paschou, 2010 Inferring geographic coordinates of origin for Europeans using small panels of ancestry informative markers. PLoS One 5: e11892.
    • (2010) PLoS One , vol.5
    • Drineas, P.1    Lewis, J.2    Paschou, P.3
  • 10
    • 84899845427 scopus 로고    scopus 로고
    • Geographic population structure analysis of worldwide human populations infers their biogeographical origins
    • Elhaik, E., T. Tatarinova, D. Chebotarev, I. S. Piras, C. M. Calò et al., 2014 Geographic population structure analysis of worldwide human populations infers their biogeographical origins. Nat. Commun. 5: 3513.
    • (2014) Nat. Commun. , vol.5 , pp. 3513
    • Elhaik, E.1    Tatarinova, T.2    Chebotarev, D.3    Piras, I.S.4    Calò, C.M.5
  • 11
    • 0041817568 scopus 로고    scopus 로고
    • Inference of population structure using multilocus genotype data: linked loci and correlated allele frequencies
    • Falush, D., M. Stephens, and J. K. Pritchard, 2003 Inference of population structure using multilocus genotype data: linked loci and correlated allele frequencies. Genetics 164: 1567-1587.
    • (2003) Genetics , vol.164 , pp. 1567-1587
    • Falush, D.1    Stephens, M.2    Pritchard, J.K.3
  • 12
    • 84862587557 scopus 로고    scopus 로고
    • Population genetics models of local ancestry
    • Gravel, S., 2012 Population genetics models of local ancestry. Genetics 191: 607-619.
    • (2012) Genetics , vol.191 , pp. 607-619
    • Gravel, S.1
  • 14
    • 80051679387 scopus 로고    scopus 로고
    • The landscape of recombination in African Americans
    • Hinch, A., A. Tandon, N. Patterson, Y. Song, N. Rohland et al., 2011 The landscape of recombination in African Americans. Nature 476: 170-175.
    • (2011) Nature , vol.476 , pp. 170-175
    • Hinch, A.1    Tandon, A.2    Patterson, N.3    Song, Y.4    Rohland, N.5
  • 15
    • 84860557929 scopus 로고    scopus 로고
    • Patterns of ancestry, signatures of natural selection, and genetic association with stature in Western African pygmies
    • Jarvis, J., L. Scheinfeldt, S. Soi, C. Lambert, L. Omberg et al., 2012 Patterns of ancestry, signatures of natural selection, and genetic association with stature in Western African pygmies. PLoS Genet. 8: e1002641.
    • (2012) PLoS Genet. , vol.8
    • Jarvis, J.1    Scheinfeldt, L.2    Soi, S.3    Lambert, C.4    Omberg, L.5
  • 16
    • 84855288572 scopus 로고    scopus 로고
    • Ancestral components of admixed genomes in a Mexican cohort
    • Johnson, N., M. Coram, M. Shriver, I. Romieu, G. Barsh et al., 2011 Ancestral components of admixed genomes in a Mexican cohort. PLoS Genet. 7: e1002410.
    • (2011) PLoS Genet. , vol.7
    • Johnson, N.1    Coram, M.2    Shriver, M.3    Romieu, I.4    Barsh, G.5
  • 17
    • 84881665614 scopus 로고    scopus 로고
    • RFMix: a discriminative modeling approach for rapid and robust local-ancestry inference
    • Maples, B. K., S. Gravel, E. E. Kenny, and C. D. Bustamante, 2013 RFMix: a discriminative modeling approach for rapid and robust local-ancestry inference. Am. J. Hum. Genet. 93: 278-288.
    • (2013) Am. J. Hum. Genet. , vol.93 , pp. 278-288
    • Maples, B.K.1    Gravel, S.2    Kenny, E.E.3    Bustamante, C.D.4
  • 18
    • 73349108482 scopus 로고    scopus 로고
    • A genealogical interpretation of principal components analysis
    • McVean, G., 2009 A genealogical interpretation of principal components analysis. PLoS Genet. 5: e1000686.
    • (2009) PLoS Genet. , vol.5
    • McVean, G.1
  • 20
    • 80055080761 scopus 로고    scopus 로고
    • Identification, replication, and fine-mapping of loci associated with adult height in individuals of African ancestry
    • N'Diaye, A., G. K. Chen, C. D. Palmer, B. Ge, B. Tayo et al., 2011 Identification, replication, and fine-mapping of loci associated with adult height in individuals of African ancestry. PLoS Genet. 7: e1002298.
    • (2011) PLoS Genet. , vol.7
    • N'Diaye, A.1    Chen, G.K.2    Palmer, C.D.3    Ge, B.4    Tayo, B.5
  • 21
    • 50949096560 scopus 로고    scopus 로고
    • The population reference sample, POPRES: a resource for population, disease, and pharmacological genetics research
    • Nelson, M. R., K. Bryc, K. S. King, A. Indap, A. R. Boyko et al., 2008 The population reference sample, POPRES: a resource for population, disease, and pharmacological genetics research. Am. J. Hum. Genet. 83: 347-358.
    • (2008) Am. J. Hum. Genet. , vol.83 , pp. 347-358
    • Nelson, M.R.1    Bryc, K.2    King, K.S.3    Indap, A.4    Boyko, A.R.5
  • 23
    • 66349088624 scopus 로고    scopus 로고
    • Inference of locus-specific ancestry in closely related populations
    • Pasxaniuc, B., S. Sankararaman, G. Kimmel, and E. Halperin, 2009 Inference of locus-specific ancestry in closely related populations. Bioinformatics 25: i213-i221.
    • (2009) Bioinformatics , vol.25 , pp. i213-i221
    • Pasxaniuc, B.1    Sankararaman, S.2    Kimmel, G.3    Halperin, E.4
  • 24
    • 84878275481 scopus 로고    scopus 로고
    • Analysis of Latino populations from GALA and MEC studies reveals genomic loci with biased local ancestry estimation
    • Pasaniuc, B., S. Sankararaman, D. G. Torgerson, C. Gignoux, N. Zaitlen et al., 2013 Analysis of Latino populations from GALA and MEC studies reveals genomic loci with biased local ancestry estimation. Bioinformatics 29: 1407-1415.
    • (2013) Bioinformatics , vol.29 , pp. 1407-1415
    • Pasaniuc, B.1    Sankararaman, S.2    Torgerson, D.G.3    Gignoux, C.4    Zaitlen, N.5
  • 25
    • 34848879778 scopus 로고    scopus 로고
    • PCA-correlated SNPs for structure identification in worldwide human populations
    • Paschou, P., E. Ziv, E. G. Burchard, S. Choudhry, W. Rodriguez-Cintron et al., 2007 PCA-correlated SNPs for structure identification in worldwide human populations. PLoS Genet. 3: e160.
    • (2007) PLoS Genet. , vol.3
    • Paschou, P.1    Ziv, E.2    Burchard, G.3    Choudhry, S.4    Rodriguez-Cintron, W.5
  • 26
    • 48249148358 scopus 로고    scopus 로고
    • Tracing sub-structure in the European American population with PCA-informative markers
    • Paschou, P., P. Drineas, J. Lewis, C. M. Nievergelt, D. A. Nickerson et al., 2008 Tracing sub-structure in the European American population with PCA-informative markers. PLoS Genet. 4: e1000114.
    • (2008) PLoS Genet. , vol.4
    • Paschou, P.1    Drineas, P.2    Lewis, P.3    Nievergelt, C.M.4    Nickerson, D.A.5
  • 28
    • 84883135237 scopus 로고    scopus 로고
    • Genetic variants associated with warfarin dose in African- American individuals: a genome-wide association study
    • Perera, M. A., L. H. Cavallari, N. A. Limdi, E. R. Gamazon, A. Konkashbaev et al., 2013 Genetic variants associated with warfarin dose in African- American individuals: a genome-wide association study. Lancet 382: 790- 796.
    • (2013) Lancet , vol.382 , pp. 790-796
    • Perera, M.A.1    Cavallari, L.H.2    Limdi, N.A.3    Gamazon, E.R.4    Konkashbaev, A.5
  • 29
    • 33746512512 scopus 로고    scopus 로고
    • Principal components analysis corrects for stratification in genome-wide association studies
    • Price, A., N. Patterson, R. Plenge, M. Weinblatt, N. Shadick et al., 2006 Principal components analysis corrects for stratification in genome-wide association studies. Nat. Genet. 38: 904-909.
    • (2006) Nat. Genet. , vol.38 , pp. 904-909
    • Price, A.1    Patterson, N.2    Plenge, R.3    Weinblatt, M.4    Shadick, N.5
  • 30
    • 67651225410 scopus 로고    scopus 로고
    • Sensitive detection of chromosomal segments of distinct ancestry in admixed populations
    • Price, A., A. Tandon, N. Patterson, K. Barnes, N. Rafaels et al., 2009 Sensitive detection of chromosomal segments of distinct ancestry in admixed populations. PLoS Genet. 5: e1000519.
    • (2009) PLoS Genet. , vol.5
    • Price, A.1    Tandon, A.2    Patterson, N.3    Barnes, K.4    Rafaels, N.5
  • 31
    • 77953811255 scopus 로고    scopus 로고
    • New approaches to population stratification in genome-wide association studies
    • Price, A., N. Zaitlen, D. Reich, and N. Patterson, 2010 New approaches to population stratification in genome-wide association studies. Nat. Rev. Genet. 11: 459-463.
    • (2010) Nat. Rev. Genet. , vol.11 , pp. 459-463
    • Price, A.1    Zaitlen, N.2    Reich, D.3    Patterson, N.4
  • 32
    • 0034118493 scopus 로고    scopus 로고
    • Inference of population structure using multilocus genotype data
    • Pritchard, J. K., M. Stephens, and P. Donnelly, 2000 Inference of population structure using multilocus genotype data. Genetics 155: 945-959.
    • (2000) Genetics , vol.155 , pp. 945-959
    • Pritchard, J.K.1    Stephens, M.2    Donnelly, P.3
  • 33
    • 0347362518 scopus 로고    scopus 로고
    • Informativeness of genetic markers for inference of ancestry
    • Rosenberg, N. A., L. M. Li, R. Ward, and J. K. Pritchard, 2003 Informativeness of genetic markers for inference of ancestry. Am. J. Hum. Genet. 73: 1402-1422.
    • (2003) Am. J. Hum. Genet. , vol.73 , pp. 1402-1422
    • Rosenberg, N.A.1    Li, L.M.2    Ward, R.3    Pritchard, J.K.4
  • 35
    • 33749372240 scopus 로고    scopus 로고
    • European population substructure: clustering of northern and southern populations
    • Seldin, M. F., R. Shigeta, P. Villoslada, C. Selmi, J. Tuomilehto et al., 2006 European population substructure: clustering of northern and southern populations. PLoS Genet. 2: e143.
    • (2006) PLoS Genet. , vol.2
    • Seldin, M.F.1    Shigeta, R.2    Villoslada, P.3    Selmi, C.4    Tuomilehto, J.5
  • 36
    • 79960566302 scopus 로고    scopus 로고
    • New approaches to disease mapping in admixed populations
    • Seldin, M., B. Pasaniuc, and A. Price, 2011 New approaches to disease mapping in admixed populations. Nat. Rev. Genet. 12: 523-528.
    • (2011) Nat. Rev. Genet. , vol.12 , pp. 523-528
    • Seldin, M.1    Pasaniuc, B.2    Price, A.3
  • 37
    • 68949216310 scopus 로고    scopus 로고
    • mStruct: inference of population structure in light of both genetic admixing and allele mutations
    • Shringarpure, S., and E. P. Xing, 2009 mStruct: inference of population structure in light of both genetic admixing and allele mutations. Genetics 182: 575-593.
    • (2009) Genetics , vol.182 , pp. 575-593
    • Shringarpure, S.1    Xing, E.P.2
  • 39
    • 84935113569 scopus 로고    scopus 로고
    • Error bounds for convolutional codes and an asymptotically optimum decoding algorithm
    • Viterbi, A., 2006 Error bounds for convolutional codes and an asymptotically optimum decoding algorithm. IEEE Trans. Inf. Theory 13: 260-269.
    • (2006) IEEE Trans. Inf. Theory , vol.13 , pp. 260-269
    • Viterbi, A.1
  • 40
    • 6944244068 scopus 로고    scopus 로고
    • Assigning African elephant DNA to geographic region of origin: applications to the ivory trade
    • Wasser, S. K., A. M. Shedlock, K. Comstock, E. A. Ostrander, B. Mutayoba et al., 2004 Assigning African elephant DNA to geographic region of origin: applications to the ivory trade. Proc. Natl. Acad. Sci. USA 101: 14847-14852.
    • (2004) Proc. Natl. Acad. Sci. USA , vol.101 , pp. 14847-14852
    • Wasser, S.K.1    Shedlock, A.M.2    Comstock, K.3    Ostrander, E.A.4    Mutayoba, B.5
  • 41
    • 34247281946 scopus 로고    scopus 로고
    • Using DNA to track the origin of the largest ivory seizure since the 1989 trade ban
    • Wasser, S. K., C. Mailand, R. Booth, B. Mutayoba, E. Kisamo et al., 2007 Using DNA to track the origin of the largest ivory seizure since the 1989 trade ban. Proc. Natl. Acad. Sci. USA 104: 4228-4233.
    • (2007) Proc. Natl. Acad. Sci. USA , vol.104 , pp. 4228-4233
    • Wasser, S.K.1    Mailand, C.2    Booth, R.3    Mutayoba, B.4    Kisamo, E.5
  • 42
    • 80052249755 scopus 로고    scopus 로고
    • Recombination rates in admixed individuals identified by ancestry-based inference
    • Wegmann, D., D. Kessner, K. Veeramah, R. Mathias, D. Nicolae et al., 2011 Recombination rates in admixed individuals identified by ancestry-based inference. Nat. Genet. 43: 847-853.
    • (2011) Nat. Genet. , vol.43 , pp. 847-853
    • Wegmann, D.1    Kessner, D.2    Veeramah, K.3    Mathias, R.4    Nicolae, D.35
  • 43
    • 84861597739 scopus 로고    scopus 로고
    • A model-based approach for analysis of spatial structure in genetic data
    • Yang, W., J. Novembre, E. Eskin, and E. Halperin, 2012 A model-based approach for analysis of spatial structure in genetic data. Nat. Genet. 44: 725-731.
    • (2012) Nat. Genet. , vol.44 , pp. 725-731
    • Yang, W.1    Novembre, J.2    Eskin, E.3    Halperin, E.4
  • 44
    • 76249114566 scopus 로고    scopus 로고
    • Characterizing the admixed African ancestry of African Americans
    • Zakharia, F., A. Basu, D. Absher, T. L. Assimes, A. S. Go et al., 2009 Characterizing the admixed African ancestry of African Americans. Genome Biol. 10: R141.
    • (2009) Genome Biol. , vol.10
    • Zakharia, F.1    Basu, A.2    Absher, D.3    Assimes, T.L.4    Go, A.S.5


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