메뉴 건너뛰기




Volumn 8, Issue 9, 2013, Pages

Determining Ancestry Proportions in Complex Admixture Scenarios in South Africa Using a Novel Proxy Ancestry Selection Method

Author keywords

[No Author keywords available]

Indexed keywords

ADMIXED POPULATION; ARTICLE; BOTTLENECK POPULATION; GENE FREQUENCY; GENE LINKAGE DISEQUILIBRIUM; GENETIC VARIABILITY; GENOTYPE; HUMAN; MATHEMATICAL ANALYSIS; POPULATION GENETICS; PROXY ANCESTRAL POPULATION; PROXYANC; SINGLE NUCLEOTIDE POLYMORPHISM; SOUTH AFRICA;

EID: 84884197020     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0073971     Document Type: Article
Times cited : (29)

References (43)
  • 1
    • 40749112276 scopus 로고    scopus 로고
    • Admixture mapping and the role of population structure for localizing disease genes
    • Zhu X, Tang H, Risch N (2008) Admixture mapping and the role of population structure for localizing disease genes. Adv Genet 60, 547-69.
    • (2008) Adv Genet , vol.60 , pp. 547-569
    • Zhu, X.1    Tang, H.2    Risch, N.3
  • 3
    • 34249816498 scopus 로고    scopus 로고
    • Admixture mapping as a tool in gene discovery
    • Seldin M, (2007) Admixture mapping as a tool in gene discovery. Genet Dev 17: 177-181.
    • (2007) Genet Dev , vol.17 , pp. 177-181
    • Seldin, M.1
  • 4
    • 0031037972 scopus 로고    scopus 로고
    • Mapping genes underlying ethnic differences in disease risk by linkage disequilibrium in recently admixed populations
    • McKeigue P, (1997) Mapping genes underlying ethnic differences in disease risk by linkage disequilibrium in recently admixed populations. Am J Hum Genet 60: 188-196.
    • (1997) Am J Hum Genet , vol.60 , pp. 188-196
    • McKeigue, P.1
  • 5
    • 84861127863 scopus 로고    scopus 로고
    • Fast and accurate inference of local ancestry in latino populations
    • Baran Y, Bogdan P, Sankararaman S, Dara G, Gignoux C, et al. (2012) Fast and accurate inference of local ancestry in latino populations. Bioinformatics 28, 1359-1367.
    • (2012) Bioinformatics , vol.28 , pp. 1359-1367
    • Baran, Y.1    Bogdan, P.2    Sankararaman, S.3    Dara, G.4    Gignoux, C.5
  • 6
    • 67651028392 scopus 로고    scopus 로고
    • The impact of divergence time on the nature of population structure: An example from Iceland
    • Price A, Helgason A, Palsson S, Stefansson H, Clair D, et al. (2009) The impact of divergence time on the nature of population structure: An example from Iceland. PLoS Genet 5(6), e1000505.
    • (2009) PLoS Genet , vol.5 , Issue.6
    • Price, A.1    Helgason, A.2    Palsson, S.3    Stefansson, H.4    Clair, D.5
  • 8
    • 41649121004 scopus 로고    scopus 로고
    • On the inference of ancestries in admixed populations
    • Sankararaman S, Kimmel G, Halperin E, Jordan M (2008) On the inference of ancestries in admixed populations. Genome Res 18(4), 668-675.
    • (2008) Genome Res , vol.18 , Issue.4 , pp. 668-675
    • Sankararaman, S.1    Kimmel, G.2    Halperin, E.3    Jordan, M.4
  • 10
    • 33746512512 scopus 로고    scopus 로고
    • Principal components analysis corrects for stratification in genome-wide association studies
    • Price A, Patterson N, Plenge R, Weinblatt M, Shadick N, et al. (2006) Principal components analysis corrects for stratification in genome-wide association studies. Nature Genet 38, 904-909.
    • (2006) Nature Genet , vol.38 , pp. 904-909
    • Price, A.1    Patterson, N.2    Plenge, R.3    Weinblatt, M.4    Shadick, N.5
  • 11
    • 69749099417 scopus 로고    scopus 로고
    • Fast model-based estimation of ancestry in unrelated individuals
    • Alexander D, Novembre J, Lange L (2009) Fast model-based estimation of ancestry in unrelated individuals. Genome Research 19, 1655-1664.
    • (2009) Genome Research , vol.19 , pp. 1655-1664
    • Alexander, D.1    Novembre, J.2    Lange, L.3
  • 12
    • 0037648359 scopus 로고    scopus 로고
    • Control of confounding of genetic associations in stratified populations
    • Hoggart C, Parra E, Shriver M, Bonilla C, Kittles R, et al. (2003) Control of confounding of genetic associations in stratified populations. Am J Hum Genet 72: 1492-1504.
    • (2003) Am J Hum Genet , vol.72 , pp. 1492-1504
    • Hoggart, C.1    Parra, E.2    Shriver, M.3    Bonilla, C.4    Kittles, R.5
  • 13
    • 0041817568 scopus 로고    scopus 로고
    • Inference of population structure: Extensions to linked loci and correlated allele frequencies
    • Falush D, Stephens A, Pritchard J (2003) Inference of population structure: Extensions to linked loci and correlated allele frequencies. Am J Hum Genet 164, 1567-1587.
    • (2003) Am J Hum Genet , vol.164 , pp. 1567-1587
    • Falush, D.1    Stephens, A.2    Pritchard, J.3
  • 14
    • 67651225410 scopus 로고    scopus 로고
    • Sensitive detection of chromosomal segments of distinct ancestry in admixed populations
    • Price A, Tandon A, Patterson N, Barnes K, Rafaels N, 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
  • 15
    • 84871044214 scopus 로고    scopus 로고
    • Multiway admixture deconvolution using phased or unphased ancestral panels
    • Churchhouse C, Marchini J (2012) Multiway admixture deconvolution using phased or unphased ancestral panels. Genet Epidemiology 37, 1-12.
    • (2012) Genet Epidemiology , vol.37 , pp. 1-12
    • Churchhouse, C.1    Marchini, J.2
  • 16
    • 84885430918 scopus 로고    scopus 로고
    • Genomic ancestry of north Africans supports back-to-Africa migrations
    • Henn B, Botigue L, Gravel S, Wang W, Brisbin A, et al. (2012) Genomic ancestry of north Africans supports back-to-Africa migrations. Nat Comm 3 (1143) 2140.
    • (2012) Nat Comm , vol.3 , Issue.1143 , pp. 2140
    • Henn, B.1    Botigue, L.2    Gravel, S.3    Wang, W.4    Brisbin, A.5
  • 18
    • 66249116333 scopus 로고    scopus 로고
    • The genetic structure and history of Africans and African Americans
    • Tishkoff S, Reed F, Friendlaender F, Ehret C, Ranciaro A (2009) The genetic structure and history of Africans and African Americans. Sciences 324, 1035-1044.
    • (2009) Sciences , vol.324 , pp. 1035-1044
    • Tishkoff, S.1    Reed, F.2    Friendlaender, F.3    Ehret, C.4    Ranciaro, A.5
  • 19
    • 77955296064 scopus 로고    scopus 로고
    • Genome-wide analysis of the structure of the south African Coloured population in the western Cape
    • deWit E, Delport W, Chimusa R, Meintjes A, Moller M, et al. (2010) Genome-wide analysis of the structure of the south African Coloured population in the western Cape. Hum Genet 128, 15-53.
    • (2010) Hum Genet , vol.128 , pp. 15-53
    • Dewit, E.1    Delport, W.2    Chimusa, R.3    Meintjes, A.4    Moller, M.5
  • 20
    • 77949897520 scopus 로고    scopus 로고
    • Genetic structure of a unique admixed population: Implications for medical research
    • Patterson N, Petersen D, vanderRoss R, Sudoyo H, Glashoff R, et al. (2010) Genetic structure of a unique admixed population: implications for medical research. Hum Mol Genet 19, 411-419.
    • (2010) Hum Mol Genet , vol.19 , pp. 411-419
    • Patterson, N.1    Petersen, D.2    Vanderross, R.3    Sudoyo, H.4    Glashoff, R.5
  • 21
    • 77950339174 scopus 로고    scopus 로고
    • Strong maternal Khoesan contribution to the south African Coloured population: A case of gender-biased admixture
    • Quintana-Murci L, Harmant C, Quach H, Balanovsky O, Bormans Z, et al. (2010) Strong maternal Khoesan contribution to the south African Coloured population: A case of gender-biased admixture. Am Soc of Hum Genet 86, 611-620.
    • (2010) Am Soc of Hum Genet , vol.86 , pp. 611-620
    • Quintana-Murci, L.1    Harmant, C.2    Quach, H.3    Balanovsky, O.4    Bormans, Z.5
  • 23
    • 84867669367 scopus 로고    scopus 로고
    • Genomic variation in seven Khoe-San groups reveals adaptation and complex African history
    • Schlebusch C, Skoglund P, Sjodin P, Gattepaille L, Hernandez D, et al. (2012) Genomic variation in seven Khoe-San groups reveals adaptation and complex African history. Science 338, 374-379.
    • (2012) Science , vol.338 , pp. 374-379
    • Schlebusch, C.1    Skoglund, P.2    Sjodin, P.3    Gattepaille, L.4    Hernandez, D.5
  • 24
    • 53149106680 scopus 로고    scopus 로고
    • Comparing algorithms for genotype imputation
    • Marchini J, Howie B (2008) Comparing algorithms for genotype imputation. Am J Hum Genet 83, 535-539.
    • (2008) Am J Hum Genet , vol.83 , pp. 535-539
    • Marchini, J.1    Howie, B.2
  • 25
    • 84859305845 scopus 로고    scopus 로고
    • The impact of imputation on meta-analysis of genome-wide association studies
    • Li J, Guo Y, Pei Y, Hong-Wen D (2012) The impact of imputation on meta-analysis of genome-wide association studies. PLoS ONE 7(4), e34486.
    • (2012) PLoS ONE , vol.7 , Issue.4
    • Li, J.1    Guo, Y.2    Pei, Y.3    Hong-Wen, D.4
  • 26
    • 79955103752 scopus 로고    scopus 로고
    • Hunter-gatherer genomic diversity suggests a southern African origin for modern humans
    • Henn B, Gignouxb C, Jobinc M, Grankae J, Macphersonf, et al. (2011) Hunter-gatherer genomic diversity suggests a southern African origin for modern humans. PNAS 108, 5154-5162.
    • (2011) PNAS , vol.108 , pp. 5154-5162
    • Henn, B.1    Gignouxb, C.2    Jobinc, M.3    Grankae, J.4    Macphersonf5
  • 28
    • 35348983887 scopus 로고    scopus 로고
    • A second generation human haplotype map of over 3.1 million SNPs
    • Frazer K, et al. (2007) A second generation human haplotype map of over 3.1 million SNPs. Nature 449, 851-861.
    • (2007) Nature , vol.449 , pp. 851-861
    • Frazer, K.1
  • 30
    • 0035163561 scopus 로고    scopus 로고
    • Population structure in admixed populations: Effect of admixture dynamics on the pattern of linkage disequilibrium
    • Pfaff CL, Parra EJ, Bonilla C, Hiester K, McKeigue PM, et al. (2001) Population structure in admixed populations: effect of admixture dynamics on the pattern of linkage disequilibrium. Am J Hum Genet 68: 198-207.
    • (2001) Am J Hum Genet , vol.68 , pp. 198-207
    • Pfaff, C.L.1    Parra, E.J.2    Bonilla, C.3    Hiester, K.4    McKeigue, P.M.5
  • 31
    • 0024209791 scopus 로고    scopus 로고
    • Admixture as a tool for finding linked genes and detecting that difference from allelic association between loci
    • Chakravati R, Weiss K (1998) Admixture as a tool for finding linked genes and detecting that difference from allelic association between loci. Proc Nat Acad Science 85, 9119-9123.
    • (1998) Proc Nat Acad Science , vol.85 , pp. 9119-9123
    • Chakravati, R.1    Weiss, K.2
  • 32
    • 22944467804 scopus 로고    scopus 로고
    • Mapping by admixture linkage disequilibrium: Advances, limitations and guidelines
    • Smith MW, O'Brien SJ (2005) Mapping by admixture linkage disequilibrium: advances, limitations and guidelines. Nature Rev Genet 6, 623-632.
    • (2005) Nature Rev Genet , vol.6 , pp. 623-632
    • Smith, M.W.1    O'Brien, S.J.2
  • 35
    • 77249155642 scopus 로고    scopus 로고
    • Complete Khoisan and Bantu genomes from southern Africa
    • Schuster S, Miller W, Ratan A, Tomsho L, Giardine B, et al. (2010) Complete Khoisan and Bantu genomes from southern Africa. Nature, 463, 943-947.
    • (2010) Nature , vol.463 , pp. 943-947
    • Schuster, S.1    Miller, W.2    Ratan, A.3    Tomsho, L.4    Giardine, B.5
  • 37
    • 34548292504 scopus 로고    scopus 로고
    • Plink: A tool set for whole-genome association and population-based linkage analyses
    • Purcell S, Neale B, Todd-Brown K, Thomas L, Ferreira M, et al. (2007) Plink: a tool set for whole-genome association and population-based linkage analyses. Am J Hum Genet 81, 559-575.
    • (2007) Am J Hum Genet , vol.81 , pp. 559-575
    • Purcell, S.1    Neale, B.2    Todd-Brown, K.3    Thomas, L.4    Ferreira, M.5
  • 38
    • 33846006923 scopus 로고    scopus 로고
    • Population structure and eigenanlysis
    • Patterson N, Price A, Reich D (2006) Population structure and eigenanlysis. PLoS Genet 2(12), e190.
    • (2006) PLoS Genet , vol.2 , Issue.12
    • Patterson, N.1    Price, A.2    Reich, D.3
  • 39
    • 62649155943 scopus 로고    scopus 로고
    • A unified approach to genotype imputation and haplotype-phase inference for large data sets of trios and unrelated individuals
    • Browning BL, Browning SR (2009) A unified approach to genotype imputation and haplotype-phase inference for large data sets of trios and unrelated individuals. Pam J Hum Genet 84, 210-223.
    • (2009) Pam J Hum Genet , vol.84 , pp. 210-223
    • Browning, B.L.1    Browning, S.R.2
  • 40
    • 1342331102 scopus 로고    scopus 로고
    • Distruct: A program for the graphical display of population structure
    • Rosenberg N (2004) Distruct: a program for the graphical display of population structure. Molecular Ecology Notes 4, 137-138.
    • (2004) Molecular Ecology Notes , vol.4 , pp. 137-138
    • Rosenberg, N.1
  • 41
    • 0033039497 scopus 로고    scopus 로고
    • Prospects for whole-genome linkage disequilibrium mapping of common disease genes
    • Kruglyak L (1999) Prospects for whole-genome linkage disequilibrium mapping of common disease genes. Nat Genet 22, 139-144.
    • (1999) Nat Genet , vol.22 , pp. 139-144
    • Kruglyak, L.1
  • 43
    • 77957999545 scopus 로고    scopus 로고
    • Signatures of founder effects, admixture, and selection in the ashkenazi jewish population
    • Bray S, Mulle J, Dodd A, Pulver A, Wooding S, et al. (2010) Signatures of founder effects, admixture, and selection in the ashkenazi jewish population. Proc Nat Ac Sci 107: 162-16227.
    • (2010) Proc Nat Ac Sci , vol.107 , pp. 162-16227
    • Bray, S.1    Mulle, J.2    Dodd, A.3    Pulver, A.4    Wooding, S.5


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.