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Volumn 3, Issue 2, 2007, Pages 0294-0304

Genomic relationships and speciation times of human, chimpanzee, and gorilla inferred from a coalescent hidden Markov model

Author keywords

[No Author keywords available]

Indexed keywords

ANALYTIC METHOD; ARTICLE; BASE PAIRING; CHIMPANZEE; COMPARATIVE STUDY; CONTROLLED STUDY; GENEALOGY; GENETIC RECOMBINATION; GENETICS; GORILLA; HIDDEN MARKOV MODEL; HUMAN; HUMAN GENOME; MOLECULAR PHYLOGENY; NONHUMAN; SIMULATION; SPECIES DIFFERENTIATION; X CHROMOSOME; ANIMAL; COMPUTER SIMULATION; GENOME; HOMINID; MOLECULAR GENETICS; NUCLEOTIDE SEQUENCE; PAN TROGLODYTES; PHYLOGENY; POPULATION GENETICS; PROBABILITY; SEQUENCE HOMOLOGY; THEORETICAL MODEL;

EID: 33847253862     PISSN: 15537390     EISSN: 15537404     Source Type: Journal    
DOI: 10.1371/journal.pgen.0030007     Document Type: Article
Times cited : (251)

References (34)
  • 2
    • 33745591114 scopus 로고    scopus 로고
    • Genetic evidence for complex speciation of human and chimpanzees
    • Patterson N, Richter DJ, Gnerre S, Lander ES, Reich D (2006) Genetic evidence for complex speciation of human and chimpanzees. Nature 441: 1103-1108.
    • (2006) Nature , vol.441 , pp. 1103-1108
    • Patterson, N.1    Richter, D.J.2    Gnerre, S.3    Lander, E.S.4    Reich, D.5
  • 3
    • 13744253303 scopus 로고    scopus 로고
    • Inferring the mode of speciation from genomic data: A study of the great apes
    • Osada N, Wu CI (2005) Inferring the mode of speciation from genomic data: A study of the great apes. Genetics 169: 259-264.
    • (2005) Genetics , vol.169 , pp. 259-264
    • Osada, N.1    Wu, C.I.2
  • 4
    • 33646555436 scopus 로고    scopus 로고
    • The effect of gene flow on the coalescent time in the human-chimpanzee ancestral population
    • Innan H, Watanabe H (2006) The effect of gene flow on the coalescent time in the human-chimpanzee ancestral population. Mol Biol Evol 23: 1040-1047.
    • (2006) Mol Biol Evol , vol.23 , pp. 1040-1047
    • Innan, H.1    Watanabe, H.2
  • 5
    • 33747180898 scopus 로고    scopus 로고
    • Evolutionary biology: How did the human species form?
    • Barton NH (2006) Evolutionary biology: How did the human species form? Curr Biol 16: R647-R650.
    • (2006) Curr Biol , vol.16
    • Barton, N.H.1
  • 6
    • 20444430245 scopus 로고    scopus 로고
    • A scan for positively selected genes in the genomes of humans and chimpanzees
    • doi:10.1371/journal.pbio.0030170
    • Nielsen R, Bustamante C, Clark AG, Glanowski S, Sackton TB, et al. (2005) A scan for positively selected genes in the genomes of humans and chimpanzees. PLoS Biol 3: e170. doi:10.1371/journal.pbio.0030170
    • (2005) PLoS Biol , vol.3
    • Nielsen, R.1    Bustamante, C.2    Clark, A.G.3    Glanowski, S.4    Sackton, T.B.5
  • 9
    • 0035849854 scopus 로고    scopus 로고
    • Late Miocene hominoids from the Middle Awash, Ethiopia
    • Haile-Selassie Y (2001) Late Miocene hominoids from the Middle Awash, Ethiopia. Nature 412: 178-181.
    • (2001) Nature , vol.412 , pp. 178-181
    • Haile-Selassie, Y.1
  • 10
    • 0037062935 scopus 로고    scopus 로고
    • A new hominid from the Upper Miocene of Chad, Central Africa
    • Brunet M, Guy F, Pilbeam D, Mackaye HT, Likius A, et al. (2002) A new hominid from the Upper Miocene of Chad, Central Africa. Nature 418: 145-151.
    • (2002) Nature , vol.418 , pp. 145-151
    • Brunet, M.1    Guy, F.2    Pilbeam, D.3    Mackaye, H.T.4    Likius, A.5
  • 11
    • 17144362851 scopus 로고    scopus 로고
    • New material of the earliest hominid from the Upper Miocene of Chad
    • Brunet M, Guy F, Pilbeam D, Lieberman DE, Likius A, et al. (2005) New material of the earliest hominid from the Upper Miocene of Chad. Nature 434: 752-755.
    • (2005) Nature , vol.434 , pp. 752-755
    • Brunet, M.1    Guy, F.2    Pilbeam, D.3    Lieberman, D.E.4    Likius, A.5
  • 12
    • 0037057632 scopus 로고    scopus 로고
    • Palaeoanthropology. Sahelanthropus or 'Sahelpithecus'?
    • Wolpoff MH, Senut B, Pickford M, Hawks J (2002) Palaeoanthropology. Sahelanthropus or 'Sahelpithecus'? Nature 419: 581-582.
    • (2002) Nature , vol.419 , pp. 581-582
    • Wolpoff, M.H.1    Senut, B.2    Pickford, M.3    Hawks, J.4
  • 13
    • 0035130163 scopus 로고    scopus 로고
    • Genomic divergences between humans and other hominoids and the effective population size of the common ancestor of humans and chimpanzees
    • Chen FC, Li WH (2001) Genomic divergences between humans and other hominoids and the effective population size of the common ancestor of humans and chimpanzees. Am J Hum Genet 68: 444-456.
    • (2001) Am J Hum Genet , vol.68 , pp. 444-456
    • Chen, F.C.1    Li, W.H.2
  • 14
    • 0037277564 scopus 로고    scopus 로고
    • Estimating ancestral population sizes and divergence times
    • Wall JD (2003) Estimating ancestral population sizes and divergence times. Genetics 163: 395-404.
    • (2003) Genetics , vol.163 , pp. 395-404
    • Wall, J.D.1
  • 15
    • 0036728850 scopus 로고    scopus 로고
    • Contribution of homoplasy and of ancestral polymorphism to the evolution of genes in anthropoid primates
    • O'hUigin C, Satta Y, Takahata N, Klein J (2002) Contribution of homoplasy and of ancestral polymorphism to the evolution of genes in anthropoid primates. Mol Biol Evol 19: 1501-1513.
    • (2002) Mol Biol Evol , vol.19 , pp. 1501-1513
    • O'hUigin, C.1    Satta, Y.2    Takahata, N.3    Klein, J.4
  • 16
    • 0036961518 scopus 로고    scopus 로고
    • Likelihood and Bayes estimation of ancestral population sizes in hominoids using data from multiple loci
    • Yang ZH (2002) Likelihood and Bayes estimation of ancestral population sizes in hominoids using data from multiple loci. Genetics 162: 1811-1823.
    • (2002) Genetics , vol.162 , pp. 1811-1823
    • Yang, Z.H.1
  • 17
    • 0041817551 scopus 로고    scopus 로고
    • Bayes estimation of species divergence times and ancestral population sizes using DNA sequences from multiple loci
    • Rannala B, Yang Z (2003) Bayes estimation of species divergence times and ancestral population sizes using DNA sequences from multiple loci. Genetics 164: 1645-1656.
    • (2003) Genetics , vol.164 , pp. 1645-1656
    • Rannala, B.1    Yang, Z.2
  • 18
    • 4644325606 scopus 로고    scopus 로고
    • Ancestral population sizes and species divergence times in the primate lineage on the basis of intron and BAC end sequences
    • Satta Y, Hickerson M, Watanabe H, O'Huigin C, Klein J (2004) Ancestral population sizes and species divergence times in the primate lineage on the basis of intron and BAC end sequences. J Mol Evol 59: 478-487.
    • (2004) J Mol Evol , vol.59 , pp. 478-487
    • Satta, Y.1    Hickerson, M.2    Watanabe, H.3    O'Huigin, C.4    Klein, J.5
  • 19
    • 24344500211 scopus 로고    scopus 로고
    • Initial sequence of the chimpanzee genome and comparison with the human genome
    • Mikkelsen TS, Hillier LW, Eichler EE, Zody MC, Jaffe DB, et al. (2005) Initial sequence of the chimpanzee genome and comparison with the human genome. Nature 437: 69-87.
    • (2005) Nature , vol.437 , pp. 69-87
    • Mikkelsen, T.S.1    Hillier, L.W.2    Eichler, E.E.3    Zody, M.C.4    Jaffe, D.B.5
  • 21
    • 0028813337 scopus 로고
    • A space-time process model for the evolution of DNA sequences
    • Yang Z (1995) A space-time process model for the evolution of DNA sequences. Genetics 139: 993-1005.
    • (1995) Genetics , vol.139 , pp. 993-1005
    • Yang, Z.1
  • 22
    • 0030034795 scopus 로고    scopus 로고
    • A hidden Markov model approach to variation among sites in rate of evolution
    • Felsenstein J, Churchill G (1996) A hidden Markov model approach to variation among sites in rate of evolution. Mol Biol Evol 13: 93-104.
    • (1996) Mol Biol Evol , vol.13 , pp. 93-104
    • Felsenstein, J.1    Churchill, G.2
  • 23
    • 17644409239 scopus 로고    scopus 로고
    • Phylogenetic hidden Markov models
    • Nielsen R, editor, New York: Springer. pp
    • Siepel A, Haussler D (2005) Phylogenetic hidden Markov models. In: Nielsen R, editor. Statistical methods in molecular evolution. New York: Springer. pp. 325-351.
    • (2005) Statistical methods in molecular evolution , pp. 325-351
    • Siepel, A.1    Haussler, D.2
  • 24
    • 26844482093 scopus 로고    scopus 로고
    • A fine-scale map of recombination rates and hotspots across the human genome
    • Myers S, Bottolo L, Freeman C, McVean G, Donnelly P (2005) A fine-scale map of recombination rates and hotspots across the human genome. Science 310: 321-324.
    • (2005) Science , vol.310 , pp. 321-324
    • Myers, S.1    Bottolo, L.2    Freeman, C.3    McVean, G.4    Donnelly, P.5
  • 26
    • 30144440081 scopus 로고    scopus 로고
    • Placing confidence limits on the molecular age of the human-chimpanzee divergence
    • Kumar S, Filipski A, Swarna V, Walker A, Hedges SB (2005) Placing confidence limits on the molecular age of the human-chimpanzee divergence. Proc Natl Acad Sci U S A 102: 18842-18847.
    • (2005) Proc Natl Acad Sci U S A , vol.102 , pp. 18842-18847
    • Kumar, S.1    Filipski, A.2    Swarna, V.3    Walker, A.4    Hedges, S.B.5
  • 27
    • 0037357461 scopus 로고    scopus 로고
    • Estimation of divergence times for major lineages of primate species
    • Glazko GV, Nei M (2003) Estimation of divergence times for major lineages of primate species. Mol Biol Evol 20: 424-434.
    • (2003) Mol Biol Evol , vol.20 , pp. 424-434
    • Glazko, G.V.1    Nei, M.2
  • 28
    • 0015927177 scopus 로고
    • Generation time and genomic evolution in primates
    • Sarich VM, Wilson AC (1973) Generation time and genomic evolution in primates. Science 179: 1144-1147.
    • (1973) Science , vol.179 , pp. 1144-1147
    • Sarich, V.M.1    Wilson, A.C.2
  • 29
    • 1542537849 scopus 로고    scopus 로고
    • Combining phylogenetic and hidden Markov models in biosequence analysis
    • Siepel A, Haussler D (2004) Combining phylogenetic and hidden Markov models in biosequence analysis. J Comput Biol 11: 413-428.
    • (2004) J Comput Biol , vol.11 , pp. 413-428
    • Siepel, A.1    Haussler, D.2
  • 30
    • 1642462428 scopus 로고    scopus 로고
    • Modeling DNA base substitution in large genomic regions from two organisms
    • Yap VB, Speed TP (2004) Modeling DNA base substitution in large genomic regions from two organisms. J Mol Evol 58: 12-18.
    • (2004) J Mol Evol , vol.58 , pp. 12-18
    • Yap, V.B.1    Speed, T.P.2
  • 32
    • 84952496879 scopus 로고
    • A note on the delta method
    • Oehlert GW (1992) A note on the delta method. Am Stat 46: 27-29.
    • (1992) Am Stat , vol.46 , pp. 27-29
    • Oehlert, G.W.1
  • 33
    • 0033150745 scopus 로고    scopus 로고
    • Recombination as a point process along sequences
    • Wiuf C, Hein J (1999) Recombination as a point process along sequences. Theor Popul Biol 55: 248-259.
    • (1999) Theor Popul Biol , vol.55 , pp. 248-259
    • Wiuf, C.1    Hein, J.2
  • 34
    • 1842667852 scopus 로고    scopus 로고
    • MAVID: Constrained ancestral alignment of multiple sequences
    • Bray N, Pachter L (2004) MAVID: Constrained ancestral alignment of multiple sequences. Genome Res 14: 693-699.
    • (2004) Genome Res , vol.14 , pp. 693-699
    • Bray, N.1    Pachter, L.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.