메뉴 건너뛰기




Volumn 27, Issue 11, 2010, Pages 2534-2547

Ascertainment biases in SNP chips affect measures of population divergence

Author keywords

ascertainment bias; demography; population genetics; single nucleotide polymorphisms; SNP chip data

Indexed keywords

ALGORITHM; ARTICLE; DEMOGRAPHY; GENETIC SELECTION; GENETIC VARIABILITY; GENOTYPE; HIGH THROUGHPUT SCREENING; HUMAN; POPULATION GENETICS; PRINCIPAL COMPONENT ANALYSIS; SEQUENCE ANALYSIS; SINGLE NUCLEOTIDE POLYMORPHISM;

EID: 77958134755     PISSN: 07374038     EISSN: 15371719     Source Type: Journal    
DOI: 10.1093/molbev/msq148     Document Type: Article
Times cited : (257)

References (37)
  • 3
    • 44949129000 scopus 로고    scopus 로고
    • Assessing the evolutionary impact of amino acid mutations in the human genome
    • (14 co-authors)
    • Boyko AR, Williamson SH, Indap AR, et al. (14 co-authors). 2008. Assessing the evolutionary impact of amino acid mutations in the human genome. PLoS Genet. 4:e1000083.
    • (2008) PLoS Genet , vol.4
    • Boyko, A.R.1    Williamson, S.H.2    Indap, A.R.3
  • 4
    • 27144539145 scopus 로고    scopus 로고
    • Natural selection on protein-coding genes in the human genome
    • (14 co-authors)
    • Bustamante CD, Fledel-Alon A, Williamson S, et al. (14 co-authors). 2005. Natural selection on protein-coding genes in the human genome. Nature 437:1153-1157.
    • (2005) Nature , vol.437 , pp. 1153-1157
    • Bustamante, C.D.1    Fledel-Alon, A.2    Williamson, S.3
  • 5
    • 0037066430 scopus 로고    scopus 로고
    • A human genome diversity cell line panel
    • (41 co-authors)
    • Cann HM, de Toma C, Cazes L, et al. (41 co-authors). 2002. A human genome diversity cell line panel. Science 296:261-262.
    • (2002) Science , vol.296 , pp. 261-262
    • Cann, H.M.1    De Toma, C.2    Cazes, L.3
  • 7
    • 0034948214 scopus 로고    scopus 로고
    • Effects ofascertainment bias on recovering human demographic history
    • Eller E. 2001. Effects ofascertainment bias on recovering human demographic history. Hum Biol. 73:411-427.
    • (2001) Hum Biol , vol.73 , pp. 411-427
    • Eller, E.1
  • 8
    • 49849094302 scopus 로고    scopus 로고
    • An approximate Bayesian computation approach to overcome biases that arise when using amplified fragment length polymorphism markers to study population structure
    • Foll M, Beaumont MA, Gaggiotti O. 2008. An approximate Bayesian computation approach to overcome biases that arise when using amplified fragment length polymorphism markers to study population structure. Genetics 179:927-939.
    • (2008) Genetics , vol.179 , pp. 927-939
    • Foll, M.1    Ma, B.2    Gaggiotti, O.3
  • 9
    • 60149100272 scopus 로고    scopus 로고
    • Correcting for ascertainment bias in the inference of population structure
    • Guillot G, Foll M. 2009. Correcting for ascertainment bias in the inference of population structure. Bioinformatics 25:552-554.
    • (2009) Bioinformatics , vol.25 , pp. 552-554
    • Guillot, G.1    Foll, M.2
  • 11
    • 13144306071 scopus 로고    scopus 로고
    • Genome-wide association studies for common diseases and complex traits
    • DOI 10.1038/nrg1521
    • Hirschhorn J, Daly M. 2005. Genome-wide association studies for common diseases and complex traits. Nat Rev Genet. 6:95-108. (Pubitemid 40179532)
    • (2005) Nature Reviews Genetics , vol.6 , Issue.2 , pp. 95-108
    • Hirschhorn, J.N.1    Daly, M.J.2
  • 12
    • 39749197456 scopus 로고    scopus 로고
    • Genotype, haplotype and copy-number variation in worldwide human populations
    • (24 co-authors)
    • Jakobsson M, Scholz SW, Scheet P, et al. (24 co-authors). 2008. Genotype, haplotype and copy-number variation in worldwide human populations. Nature 451:998-1003.
    • (2008) Nature , vol.451 , pp. 998-1003
    • Jakobsson, M.1    Scholz, S.W.2    Scheet, P.3
  • 13
    • 40049101431 scopus 로고    scopus 로고
    • Genomewide association studies: Progress and potential for drug discovery and development
    • Kingsmore S, Lindquist I, Mudge J, Gessler D, Beavis W. 2008. Genomewide association studies: progress and potential for drug discovery and development. Nat Rev Drug Discov. 7:221-230.
    • (2008) Nat Rev Drug Discov , vol.7 , pp. 221-230
    • Kingsmore, S.1    Lindquist, I.2    Mudge, J.3    Gessler, D.4    Beavis, W.5
  • 14
    • 0033832928 scopus 로고    scopus 로고
    • Usefulnessofsingle nucleotide polymorphism data for estimating population parameters
    • Kuhner MK, Beerli P, Yamato J, Felsenstein J. 2000. Usefulnessofsingle nucleotide polymorphism data for estimating population parameters. Genetics 156:439-447.
    • (2000) Genetics , vol.156 , pp. 439-447
    • Kuhner, M.K.1    Beerli, P.2    Yamato, J.3    Felsenstein, J.4
  • 15
    • 49649084390 scopus 로고    scopus 로고
    • Correlation between genetic and geographic structure in Europe
    • (33 co-authors)
    • Lao O, Lu TT, Nothnagel M, et al. (33 co-authors). 2008. Correlation between genetic and geographic structure in Europe. Curr Biol. 18:1241-1248.
    • (2008) Curr Biol , vol.18 , pp. 1241-1248
    • Lao, O.1    Lu, T.T.2    Nothnagel, M.3
  • 16
    • 39749181521 scopus 로고    scopus 로고
    • Worldwide human relationships inferred from genome-wide patterns of variation
    • (11 co-authors)
    • Li JZ, Absher DM, Tang H, et al. (11 co-authors). 2008. Worldwide human relationships inferred from genome-wide patterns of variation. Science319:1100-1104.
    • (2008) Science , vol.319 , pp. 1100-1104
    • Li, J.Z.1    Absher, D.M.2    Tang, H.3
  • 18
    • 39749139577 scopus 로고    scopus 로고
    • Proportionally more deleterious genetic variation in European than in African populations
    • (12 co-authors)
    • Lohmueller KE, Indap AR, Schmidt S, et al. (12 co-authors). 2008. Proportionally more deleterious genetic variation in European than in African populations. Nature 451:994-997.
    • (2008) Nature , vol.451 , pp. 994-997
    • Lohmueller, K.E.1    Indap, A.R.2    Schmidt, S.3
  • 19
    • 50949096560 scopus 로고    scopus 로고
    • The Population Reference Sample, POPRES: A resource for population, disease, and pharmacological genetics research
    • (23 co-authors)
    • Nelson MR, Bryc K, King KS, et al. (23 co-authors). 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
  • 21
    • 0033965571 scopus 로고    scopus 로고
    • Estimation of population parameters and recombination rates from single nucleotide polymorphisms
    • Nielsen R. 2000. Estimation of population parameters and recombination rates from single nucleotide polymorphisms. Genetics 154:931-942.
    • (2000) Genetics , vol.154 , pp. 931-942
    • Nielsen, R.1
  • 22
    • 3442885665 scopus 로고    scopus 로고
    • Population genetic analysis ofascertained SNP data
    • Nielsen R. 2004. Population genetic analysis ofascertained SNP data. Hum Genomics 1:218-224.
    • (2004) Hum Genomics , vol.1 , pp. 218-224
    • Nielsen, R.1
  • 23
    • 11244313872 scopus 로고    scopus 로고
    • Reconstituting the frequency spectrum of ascertained single-nucleotide polymorphism data
    • Nielsen R, Hubisz MJ, Clark AG. 2004. Reconstituting the frequency spectrum of ascertained single-nucleotide polymorphism data. Genetics 168:2373-2382.
    • (2004) Genetics , vol.168 , pp. 2373-2382
    • Nielsen, R.1    Hubisz, M.J.2    Clark, A.G.3
  • 24
    • 66049128908 scopus 로고    scopus 로고
    • Darwinian and demographic forces affecting human protein coding genes
    • (13 co-authors)
    • Nielsen R, Hubisz MJ, Torgerson D, et al. (13 co-authors). 2009. Darwinian and demographic forces affecting human protein coding genes. Genome Res. 19:838-849.
    • (2009) Genome Res , vol.19 , pp. 838-849
    • Nielsen, R.1    Hubisz, M.J.2    Torgerson, D.3
  • 25
    • 0042991419 scopus 로고    scopus 로고
    • Correcting for ascertainment biases when analyzing SNP data: Applications to the estimation of linkage disequilibrium
    • Nielsen R, Signorovitch J. 2003. Correcting for ascertainment biases when analyzing SNP data: applications to the estimation of linkage disequilibrium. Theor Popul Biol. 63:245-255.
    • (2003) Theor Popul Biol , vol.63 , pp. 245-255
    • Nielsen, R.1    Signorovitch, J.2
  • 26
    • 55549115654 scopus 로고    scopus 로고
    • Genes mirror geography within Europe
    • (12 co-authors)
    • Novembre J, Johnson T, Bryc K,et al. (12co-authors). 2008. Genes mirror geography within Europe. Nature 456:98-101.
    • (2008) Nature , vol.456 , pp. 98-101
    • Novembre, J.1    Johnson, T.2    Bryc, K.3
  • 28
    • 0034118493 scopus 로고    scopus 로고
    • Inference of population structure using multilocus genotype data
    • Pritchard JK, Stephens M, Donnelly P. 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
  • 29
    • 34548292504 scopus 로고    scopus 로고
    • PLINK: A tool set for whole-genome association and population-based linkage analyses
    • (11 co-authors)
    • Purcell S, Neale B, Todd-Brown K,et al. (11 co-authors). 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
  • 30
    • 0026460082 scopus 로고
    • Populationgeneticsofpolymorphismand divergence
    • Sawyer SA, Hartl DL 1992. Populationgeneticsofpolymorphismand divergence. Genetics 132:1161-1176.
    • (1992) Genetics , vol.132 , pp. 1161-1176
    • Sawyer, S.A.1    Hartl, D.L.2
  • 31
    • 77958118964 scopus 로고    scopus 로고
    • Available from:
    • Seattle SNPs. 2009. Available from: http://pga.gs.washington.edu/.
    • (2009) Seattle SNPs
  • 32
    • 22944467804 scopus 로고    scopus 로고
    • Mapping by admixture linkage disequilibrium: Advances, limitations and guidelines
    • Smith M, O'Brien S. 2005. Mapping by admixture linkage disequilibrium: advances, limitations and guidelines. Nat Rev Genet. 6: 623-632
    • (2005) Nat Rev Genet , vol.6 , pp. 623-632
    • Smith, M.1    O'Brien, S.2
  • 33
    • 35348983887 scopus 로고    scopus 로고
    • A second generation human haplotype map of over 3. 1 million SNPs
    • The International HapMap Consortium
    • The International HapMap Consortium. 2007. A second generation human haplotype map of over 3. 1 million SNPs. Nature 449: 851-861.
    • (2007) Nature , vol.449 , pp. 851-861
  • 34
    • 0035205317 scopus 로고    scopus 로고
    • The discovery of single-nucleotide polymorphisms\and inferences about human demographic history
    • Wakeley J, Nielsen R, Liu-Cordero SN, Ardlie K. 2001. The discovery of single-nucleotide polymorphisms\and inferences about human demographic history. Am J Hum Genet. 69:1332-1347.
    • (2001) Am J Hum Genet , vol.69 , pp. 1332-1347
    • Wakeley, J.1    Nielsen, R.2    Liu-Cordero, S.N.3    Ardlie, K.4
  • 35
    • 0021566877 scopus 로고
    • Estimating f-statistics for the analysis of population structure
    • Available from
    • Weir BS, Cockerham CC. 1984. Estimating f-statistics for the analysis of population structure. Evolution [Internet] 38:1358-1370. Available from: http://www.jstor.org/stable/2408641.
    • (1984) Evolution [Internet] , vol.38 , pp. 1358-1370
    • Weir, B.S.1    Cockerham, C.C.2
  • 36
    • 33750543338 scopus 로고    scopus 로고
    • Consistency of estimators of population scaled parameters using composite likelihood
    • Wiuf C. 2006. Consistency of estimators of population scaled parameters using composite likelihood. J Math Biol. 53:821-841
    • (2006) J Math Biol , vol.53 , pp. 821-841
    • Wiuf, C.1
  • 37
    • 0001771498 scopus 로고
    • Evolution in mendelian populations
    • Wright. 1931. Evolution in mendelian populations. Genetics 16: 97-159.
    • (1931) Genetics , vol.16 , pp. 97-159
    • Wright1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.