메뉴 건너뛰기




Volumn 9783764373870, Issue , 2006, Pages 1-328

Introduction to computational biology: An evolutionary approach

Author keywords

[No Author keywords available]

Indexed keywords

GENES; GRAPHICAL USER INTERFACES; HIDDEN MARKOV MODELS; MOLECULAR BIOLOGY;

EID: 84920100335     PISSN: None     EISSN: None     Source Type: Book    
DOI: 10.1007/3-7643-7387-3     Document Type: Book
Times cited : (11)

References (266)
  • 2
    • 0346882667 scopus 로고    scopus 로고
    • Gff2aplot: Plotting sequence comparisons
    • J. F. Abril, R. Guigó, and T. Wiehe. gff2aplot: plotting sequence comparisons. Bioinformatics, 19:2477-2479, 2004.
    • (2004) Bioinformatics , vol.19 , pp. 2477-2479
    • Abril, J.F.1    Guigó, R.2    Wiehe, T.3
  • 3
    • 0034708480 scopus 로고    scopus 로고
    • The genome sequence of Drosophila melanogaster
    • M. D. Adams et al. The genome sequence of Drosophila melanogaster. Science, 287:2185-2195, 2000.
    • (2000) Science , vol.287 , pp. 2185-2195
    • Adams, M.D.1
  • 4
    • 0024638129 scopus 로고
    • Restriction map variation at the zeste-tko region in natural populations of Drosophila melanogaster
    • M. Aguadé, N. Miyashita, and C. H. Langley. Restriction map variation at the zeste-tko region in natural populations of Drosophila melanogaster. Molecular Biology and Evolution, 6:123-130, 1989.
    • (1989) Molecular Biology and Evolution , vol.6 , pp. 123-130
    • Aguadé, M.1    Miyashita, N.2    Langley, C.H.3
  • 5
    • 0016518897 scopus 로고
    • Efficient string matching: An aid to bibliographic search
    • A. Aho and M. Corasick. Efficient string matching: an aid to bibliographic search. Communications of the ACM, 18:333-340, 1975.
    • (1975) Communications of the ACM , vol.18 , pp. 333-340
    • Aho, A.1    Corasick, M.2
  • 12
    • 0024058618 scopus 로고
    • The rosy region of Drosophila melanogaster and Drosophila simulans. I. Contrasting levels of naturally occuring DNA restriction map variation and divergence
    • C. F. Aquadro, K. M. Lado, and W. A. Noon. The rosy region of Drosophila melanogaster and Drosophila simulans. I. Contrasting levels of naturally occuring DNA restriction map variation and divergence. Genetics, 119:875-888, 1988.
    • (1988) Genetics , vol.119 , pp. 875-888
    • Aquadro, C.F.1    Lado, K.M.2    Noon, W.A.3
  • 13
    • 84983711696 scopus 로고
    • Studies on the chemical nature of the substance inducing transformation of pneumococcal types. I. Induction of transformation by a deoxyribonucleic acid fraction isolated from Pneumococcus III
    • O. T. Avery, C. M. MacLeod, and M. McCarty. Studies on the chemical nature of the substance inducing transformation of pneumococcal types. I. Induction of transformation by a deoxyribonucleic acid fraction isolated from Pneumococcus III. Journal of Experimental Medicine, 79:137-158, 1944.
    • (1944) Journal of Experimental Medicine , vol.79 , pp. 137-158
    • Avery, O.T.1    MacLeod, C.M.2    McCarty, M.3
  • 14
    • 0034890399 scopus 로고    scopus 로고
    • Mutation-selection models solved exactly with methods of statistical mechanics
    • E. Baake and H. Wagner. Mutation-selection models solved exactly with methods of statistical mechanics. Genetical Research, Cambridge, 78:93-117, 2001.
    • (2001) Genetical Research, Cambridge , vol.78 , pp. 93-117
    • Baake, E.1    Wagner, H.2
  • 16
    • 0011627561 scopus 로고
    • Viral src gene products are related to the catalytic chain of mammalian cAMP-dependent protein kinase
    • W. C. Barker and M. O. Dayhoff. Viral src gene products are related to the catalytic chain of mammalian cAMP-dependent protein kinase. Proceedings of the American National Academy of Sciences, USA, 79:2836-2839, 1982.
    • (1982) Proceedings of the American National Academy of Sciences, USA , vol.79 , pp. 2836-2839
    • Barker, W.C.1    Dayhoff, M.O.2
  • 19
    • 0026342994 scopus 로고
    • Molecular population genetics of the distal portion of the X chromosome in Drosophila: Evidence for genetic hitchhiking of the yellow-achaete region
    • D. J. Begun and C. F. Aquadro. Molecular population genetics of the distal portion of the X chromosome in Drosophila: Evidence for genetic hitchhiking of the yellow-achaete region. Genetics, 129:1147-1158, 1991.
    • (1991) Genetics , vol.129 , pp. 1147-1158
    • Begun, D.J.1    Aquadro, C.F.2
  • 20
    • 0026529344 scopus 로고
    • Levels of naturally occuring DNA polymorphism are correlated with recombination rates in Drosophila melanogaster
    • D. J. Begun and C. F. Aquadro. Levels of naturally occuring DNA polymorphism are correlated with recombination rates in Drosophila melanogaster. Nature, 356:519-520, 1992.
    • (1992) Nature , vol.356 , pp. 519-520
    • Begun, D.J.1    Aquadro, C.F.2
  • 21
    • 0026322339 scopus 로고
    • Lack of polymorphism on the Drosophila fourth chromosome resulting from selection
    • A. J. Berry, J. W. Ajioka, and M. Kreitman. Lack of polymorphism on the Drosophila fourth chromosome resulting from selection. Genetics, 129:1111-1117, 1991.
    • (1991) Genetics , vol.129 , pp. 1111-1117
    • Berry, A.J.1    Ajioka, J.W.2    Kreitman, M.3
  • 22
    • 0034098730 scopus 로고    scopus 로고
    • Using GeneWise in the Drosophila annotation experiment
    • E. Birney and R. Durbin. Using GeneWise in the Drosophila annotation experiment. Genome Research, 10:547-548, 2000.
    • (2000) Genome Research , vol.10 , pp. 547-548
    • Birney, E.1    Durbin, R.2
  • 23
    • 84920101056 scopus 로고
    • Retroviruses and oncogenes II
    • J. Lindsten, editor, World Scientific, Singapore
    • M. J. Bishop. Retroviruses and oncogenes II. In J. Lindsten, editor, Nobel Lectures Physiology or Medicine, pages 504-522. World Scientific, Singapore, 1989.
    • (1989) Nobel Lectures Physiology Or Medicine , pp. 504-522
    • Bishop, M.J.1
  • 27
    • 0014407722 scopus 로고
    • Repeated sequences in DNA
    • R. J. Britten and D. E. Kohne. Repeated sequences in DNA. Science, 161:529-540, 1968.
    • (1968) Science , vol.161 , pp. 529-540
    • Britten, R.J.1    Kohne, D.E.2
  • 29
    • 0001714012 scopus 로고
    • Multilocus structure of natural populations of Hordeum spontaneum
    • A. H. D. Brown, M. W. Feldman, and E. Nevo. Multilocus structure of natural populations of Hordeum spontaneum. Genetics, 96:523-536, 1980.
    • (1980) Genetics , vol.96 , pp. 523-536
    • Brown, A.H.D.1    Feldman, M.W.2    Nevo, E.3
  • 30
    • 0031586003 scopus 로고    scopus 로고
    • Prediction of complete gene structures in human genomic DNA
    • C. B. Burge and S. Karlin. Prediction of complete gene structures in human genomic DNA. Journal of Molecular Biology, 268:78-94, 1997.
    • (1997) Journal of Molecular Biology , vol.268 , pp. 78-94
    • Burge, C.B.1    Karlin, S.2
  • 33
    • 0030585734 scopus 로고    scopus 로고
    • Evaluation of gene structure prediction programs
    • M. Burset and R. Guigó. Evaluation of gene structure prediction programs. Genomics, 34:353-357, 1996.
    • (1996) Genomics , vol.34 , pp. 353-357
    • Burset, M.1    Guigó, R.2
  • 34
    • 0035165586 scopus 로고    scopus 로고
    • SpliceDB: Database of canonical and noncanonical mammalian splice sites
    • M. Burset, A. Seledtsov, and V. V. Solovyev. SpliceDB: database of canonical and noncanonical mammalian splice sites. Nucleid Acids Research, 29:255-259, 2001.
    • (2001) Nucleid Acids Research , vol.29 , pp. 255-259
    • Burset, M.1    Seledtsov, A.2    Solovyev, V.V.3
  • 35
  • 36
    • 84984932946 scopus 로고    scopus 로고
    • Population genetics-making sense out of sequence
    • A. Chakravarti. Population genetics-making sense out of sequence. Nature Genetics, 21:56-60, 1999.
    • (1999) Nature Genetics , vol.21 , pp. 56-60
    • Chakravarti, A.1
  • 37
    • 0033324603 scopus 로고    scopus 로고
    • Recent common ancestors of all present-day individuals
    • J. T. Chang. Recent common ancestors of all present-day individuals. Advances in Applied Probability, 31:1002-1026, 1999.
    • (1999) Advances in Applied Probability , vol.31 , pp. 1002-1026
    • Chang, J.T.1
  • 38
    • 0027305597 scopus 로고
    • The effect of deleterious mutations on neutral molecular variation
    • B. Charlesworth, M. T. Morgan, and D. Charlesworth. The effect of deleterious mutations on neutral molecular variation. Genetics, 134:1289-1303, 1993.
    • (1993) Genetics , vol.134 , pp. 1289-1303
    • Charlesworth, B.1    Morgan, M.T.2    Charlesworth, D.3
  • 40
    • 1542563409 scopus 로고    scopus 로고
    • Mouse Genome Sequencing Consortium. Initial sequencing and comparative analysis of the mouse genome
    • Mouse Genome Sequencing Consortium. Initial sequencing and comparative analysis of the mouse genome. Nature, 420:520-561, 2002.
    • (2002) Nature , vol.420 , pp. 520-561
  • 46
    • 0000228203 scopus 로고    scopus 로고
    • A model of evolutionary change in proteins
    • M. O. Dayhoff, editor, National Biomedical Research Foundation, Washington DC, 1978
    • M. O. Dayhoff, R. M. Schwartz, and B. C. Orcutt. A model of evolutionary change in proteins. In M. O. Dayhoff, editor, Atlas of Protein Sequence and Structure, volume 5/suppl.3, pages 345-352. National Biomedical Research Foundation, Washington DC, 1978.
    • Atlas of Protein Sequence and Structure , vol.5 , pp. 345-352
    • Dayhoff, M.O.1    Schwartz, R.M.2    Orcutt, B.C.3
  • 47
  • 50
    • 0020533055 scopus 로고
    • Simian sarcoma virus onc gene, v-sis, is derived from the gene (or genes) encoding a platelet-derived growth factor
    • R. F. Doolittle, M. W. Hunkapiller, L. E. Hood, S. G. Devare, K. C. Robbins, S. A. Aaronson, and H. N. Antoniades. Simian sarcoma virus onc gene, v-sis, is derived from the gene (or genes) encoding a platelet-derived growth factor. Science, 221:275-277, 1983.
    • (1983) Science , vol.221 , pp. 275-277
    • Doolittle, R.F.1    Hunkapiller, M.W.2    Hood, L.E.3    Devare, S.G.4    Robbins, K.C.5    Aaronson, S.A.6    Antoniades, H.N.7
  • 53
    • 0024696758 scopus 로고
    • Restriction map variation associated with the G6pd polymorphism in natural populations of Drosophila melanogaster
    • W. F. Eanes, J. W. Ajioka, J. Hey, and C. Wesley. Restriction map variation associated with the G6pd polymorphism in natural populations of Drosophila melanogaster. Molecular Biology and Evolution, 6:384-397, 1989.
    • (1989) Molecular Biology and Evolution , vol.6 , pp. 384-397
    • Eanes, W.F.1    Ajioka, J.W.2    Hey, J.3    Wesley, C.4
  • 54
    • 0031743421 scopus 로고    scopus 로고
    • Profile hidden Markov models
    • S. R. Eddy. Profile hidden Markov models. Bioinformatics, 14:755-763, 1998.
    • (1998) Bioinformatics , vol.14 , pp. 755-763
    • Eddy, S.R.1
  • 55
    • 0002619979 scopus 로고
    • Reconstruction of evolutionary trees
    • V. H. Heywood and J. McNeill, editors, The Systematics Association Publ. No. 6, London
    • A. W. F. Edwards and L. L. Cavalli-Sforza. Reconstruction of evolutionary trees. In V. H. Heywood and J. McNeill, editors, Phenetic and Phylogenetic Classification, pages 67-76. The Systematics Association Publ. No. 6, London, 1964.
    • (1964) Phenetic and Phylogenetic Classification , pp. 67-76
    • Edwards, A.W.F.1    Cavalli-Sforza, L.L.2
  • 56
    • 0002344794 scopus 로고
    • Bootstrap methods: Another look at the Jackknife
    • B. Efron. Bootstrap methods: another look at the Jackknife. The Annals of Statistics, 7:1-26, 1979.
    • (1979) The Annals of Statistics , vol.7 , pp. 1-26
    • Efron, B.1
  • 58
    • 0015133749 scopus 로고
    • Molekulare Selbstorganisation und Evolution
    • M. Eigen. Molekulare Selbstorganisation und Evolution (Self organization of matter and the evolution of biological molecules). Naturwissenschaften, 58:465-523, 1971.
    • (1971) Naturwissenschaften , vol.58 , pp. 465-523
    • Eigen, M.1
  • 61
    • 0038441327 scopus 로고    scopus 로고
    • Evolution experiments with microorganisms: The dynamics and genetic bases of adaptation
    • S. F. Elena and R. E. Lenski. Evolution experiments with microorganisms: the dynamics and genetic bases of adaptation. Nature Reviews Genetics, 4:457-469, 2003.
    • (2003) Nature Reviews Genetics , vol.4 , pp. 457-469
    • Elena, S.F.1    Lenski, R.E.2
  • 62
    • 39049153503 scopus 로고    scopus 로고
    • A study on how to best align protein sequences
    • A. Elofsson. A study on how to best align protein sequences. Proteins: Structure, Function, Genetics, 46:300-309, 2002.
    • (2002) Proteins: Structure, Function, Genetics , vol.46 , pp. 300-309
    • Elofsson, A.1
  • 64
    • 0015310384 scopus 로고
    • The sampling theory of selectively neutral alleles
    • W. J. Ewens. The sampling theory of selectively neutral alleles. Theoretical Population Biology, 3:87-112, 1972.
    • (1972) Theoretical Population Biology , vol.3 , pp. 87-112
    • Ewens, W.J.1
  • 67
    • 0000472542 scopus 로고
    • Estimating phylogenetic trees from distance matrices
    • J. S. Farris. Estimating phylogenetic trees from distance matrices. American Naturalist, 106:645-668, 1972.
    • (1972) American Naturalist , vol.106 , pp. 645-668
    • Farris, J.S.1
  • 69
    • 84959798530 scopus 로고
    • Cases in which parsimony or compatibility methods will be positively misleading
    • J. Felsenstein. Cases in which parsimony or compatibility methods will be positively misleading. Systematic Zoology, 27:401-410, 1978.
    • (1978) Systematic Zoology , vol.27 , pp. 401-410
    • Felsenstein, J.1
  • 70
    • 0019797407 scopus 로고
    • Evolutionary trees from DNA sequences: A maximum likelihood approach
    • J. Felsenstein. Evolutionary trees from DNA sequences: a maximum likelihood approach. Journal of Molecular Evolution, 17:368-376, 1981.
    • (1981) Journal of Molecular Evolution , vol.17 , pp. 368-376
    • Felsenstein, J.1
  • 71
    • 0000461280 scopus 로고
    • Confidence limits on phylogenies: An approach using the bootstrap
    • J. Felsenstein. Confidence limits on phylogenies: an approach using the bootstrap. Evolution, 39:783-791, 1985.
    • (1985) Evolution , vol.39 , pp. 783-791
    • Felsenstein, J.1
  • 74
    • 0023084055 scopus 로고
    • Progressive sequence alignment as a prerequisite to correct phylogenetic trees
    • D.-F. Feng and R. F. Doolittle. Progressive sequence alignment as a prerequisite to correct phylogenetic trees. Journal of Molecular Evolution, 25:351-360, 1987.
    • (1987) Journal of Molecular Evolution , vol.25 , pp. 351-360
    • Feng, D.-F.1    Doolittle, R.F.2
  • 75
    • 0020480512 scopus 로고
    • Recognition of protein coding regions in DNA sequences
    • J. W. Fickett. Recognition of protein coding regions in DNA sequences. Nucleic Acids Research, 10:5303-5318, 1982.
    • (1982) Nucleic Acids Research , vol.10 , pp. 5303-5318
    • Fickett, J.W.1
  • 77
    • 84959747425 scopus 로고
    • Toward defining the course of evolution: Minimum change for a specific tree topology
    • W. Fitch. Toward defining the course of evolution: minimum change for a specific tree topology. Systematic Zoology, 20:406-416, 1971.
    • (1971) Systematic Zoology , vol.20 , pp. 406-416
    • Fitch, W.1
  • 78
    • 0029653518 scopus 로고
    • Whole-genome random sequencing and assembly of Haemophilus influenzae Rd
    • R. D. Fleischmann et al. Whole-genome random sequencing and assembly of Haemophilus influenzae Rd. Science, 269:496-512, 1995.
    • (1995) Science , vol.269 , pp. 496-512
    • Fleischmann, R.D.1
  • 79
    • 0031732094 scopus 로고    scopus 로고
    • A computer program for aligning a cDNA sequence with a genomic DNA sequence
    • L. Florea, G. Hartzell, Z. Zhang, G. M. Rubin, and W. Miller. A computer program for aligning a cDNA sequence with a genomic DNA sequence. Genome Research, 8:967-974, 1998.
    • (1998) Genome Research , vol.8 , pp. 967-974
    • Florea, L.1    Hartzell, G.2    Zhang, Z.3    Rubin, G.M.4    Miller, W.5
  • 81
    • 0027453041 scopus 로고
    • Statistical tests of neutrality of mutations
    • Y.-X. Fu and W.-H. Li. Statistical tests of neutrality of mutations. Genetics, 133:693-709, 1993.
    • (1993) Genetics , vol.133 , pp. 693-709
    • Fu, Y.-X.1    Li, W.-H.2
  • 82
    • 0017646276 scopus 로고
    • Statistical studies on protein polymorphism in natural populations. I. Distribution of single locus heterozygosity
    • P. A. Fuerst, R. Chakraborty, and M. Nei. Statistical studies on protein polymorphism in natural populations. I. Distribution of single locus heterozygosity. Genetics, 86:455-483, 1977.
    • (1977) Genetics , vol.86 , pp. 455-483
    • Fuerst, P.A.1    Chakraborty, R.2    Nei, M.3
  • 84
    • 0025678636 scopus 로고
    • The association between restriction site polymorphism and enzyme activity variation for Esterase6 in Drosophila melanogaster
    • A. Y. Game and J. G. Oakeshott. The association between restriction site polymorphism and enzyme activity variation for Esterase6 in Drosophila melanogaster. Genetics, 126:1021-1031, 1990.
    • (1990) Genetics , vol.126 , pp. 1021-1031
    • Game, A.Y.1    Oakeshott, J.G.2
  • 87
    • 0037920512 scopus 로고    scopus 로고
    • Johns Hopkins University Press, Baltimore
    • J. H. Gillespie. Population Genetics. Johns Hopkins University Press, Baltimore, 1998.
    • (1998) Population Genetics
    • Gillespie, J.H.1
  • 88
    • 10244239321 scopus 로고    scopus 로고
    • Life with 6000 genes
    • A. Goffeau et al. Life with 6000 genes. Science, 274:546-567, 1996.
    • (1996) Science , vol.274 , pp. 546-567
    • Goffeau, A.1
  • 89
    • 0023057529 scopus 로고
    • Sigma factors from E. coli, B. subtilis, phage SPO1, and phage T4 are homologous proteins
    • M. Gribskov and R. R. Burgess. Sigma factors from E. coli, B. subtilis, phage SPO1, and phage T4 are homologous proteins. Nucleic Acids Research, 14:6745-6763, 1986.
    • (1986) Nucleic Acids Research , vol.14 , pp. 6745-6763
    • Gribskov, M.1    Burgess, R.R.2
  • 91
    • 84920056771 scopus 로고
    • The significance of pneumococcal types
    • F. Griffith. The significance of pneumococcal types. Journal of Hygiene, 27:113-159, 1928.
    • (1928) Journal of Hygiene , vol.27 , pp. 113-159
    • Griffith, F.1
  • 92
    • 0000557367 scopus 로고    scopus 로고
    • An ancestral recombination graph
    • P. Donnelly and S. Tavare, editors, Springer, Berlin
    • R. C. Griffiths and P. Marjoram. An ancestral recombination graph. In P. Donnelly and S. Tavare, editors, Progress in Population Genetics and Human Evolution, volume 87, pages 257-270. Springer, Berlin, 1997.
    • (1997) Progress in Population Genetics and Human Evolution , vol.87 , pp. 257-270
    • Griffiths, R.C.1    Marjoram, P.2
  • 93
    • 0347033256 scopus 로고    scopus 로고
    • Role of duplicate genes in genetic robustness against null mutations
    • Z. Gu, L. M. Steinmetz, X. Gu, C. Scharfe, R. W. Davis, and W.-H. Li. Role of duplicate genes in genetic robustness against null mutations. Nature, 421:63-66, 2003.
    • (2003) Nature , vol.421 , pp. 63-66
    • Gu, Z.1    Steinmetz, L.M.2    Gu, X.3    Scharfe, C.4    Davis, R.W.5    Li, W.-H.6
  • 94
    • 0030787474 scopus 로고    scopus 로고
    • Computational gene identification
    • R. Guigo. Computational gene identification. Journal of Molecular Medicine, 75:389-393, 1997.
    • (1997) Journal of Molecular Medicine , vol.75 , pp. 389-393
    • Guigo, R.1
  • 95
    • 0032456609 scopus 로고    scopus 로고
    • Assembling genes from predicted exons in linear time with dynamic programming
    • R. Guigo. Assembling genes from predicted exons in linear time with dynamic programming. Journal of Computational Biology, 5:681-702, 1998.
    • (1998) Journal of Computational Biology , vol.5 , pp. 681-702
    • Guigo, R.1
  • 97
    • 2942519269 scopus 로고    scopus 로고
    • Gene prediction accuracy in large DNA sequences
    • M. T. Galperin and E. V. Koonin, editors, Caister Academic Press, Norwich
    • R. Guigo and T. Wiehe. Gene prediction accuracy in large DNA sequences. In M. T. Galperin and E. V. Koonin, editors, Frontiers in Computational Genomics, pages 1-33. Caister Academic Press, Norwich, 2002.
    • (2002) Frontiers in Computational Genomics , pp. 1-33
    • Guigo, R.1    Wiehe, T.2
  • 98
    • 0029366816 scopus 로고
    • Improving the practical space and time efficiency of the shortest-path approach to sum-of-pairs multiple sequence alignment
    • S. K. Gupta, J. D. Kececioglu, and A. A. Schaffer. Improving the practical space and time efficiency of the shortest-path approach to sum-of-pairs multiple sequence alignment. Journal of Computational Biology, 2:459-472, 1995.
    • (1995) Journal of Computational Biology , vol.2 , pp. 459-472
    • Gupta, S.K.1    Kececioglu, J.D.2    Schaffer, A.A.3
  • 100
    • 84955349191 scopus 로고
    • A mathematical theory of natural and artificial selection. Part V: Selection and mutation
    • J. B. S. Haldane. A mathematical theory of natural and artificial selection. Part V: Selection and mutation. Proceedings of the Cambrige Philosophical Society, 23:838-844, 1928.
    • (1928) Proceedings of the Cambrige Philosophical Society , vol.23 , pp. 838-844
    • Haldane, J.B.S.1
  • 102
    • 33645377434 scopus 로고
    • The cost of natural selection
    • J. B. S. Haldane. The cost of natural selection. Genetics, 55:511-524, 1957.
    • (1957) Genetics , vol.55 , pp. 511-524
    • Haldane, J.B.S.1
  • 103
    • 0036790812 scopus 로고    scopus 로고
    • Hitchhiking mapping: A population-based finemapping strategy for adaptive mutations in Drosophila melanogaster
    • B. Harr, M. Kauer, and C. Schlötterer. Hitchhiking mapping: a population-based finemapping strategy for adaptive mutations in Drosophila melanogaster. Proceedings of the National Academy of Sciences, USA, 99:12949-12954, 2002.
    • (2002) Proceedings of the National Academy of Sciences, USA , vol.99 , pp. 12949-12954
    • Harr, B.1    Kauer, M.2    Schlötterer, C.3
  • 105
    • 0025279906 scopus 로고
    • Distribution and consensus of branch point signals in eukaryotic genes: A computerized statistical analysis
    • N. L. Harris and P. Senapathy. Distribution and consensus of branch point signals in eukaryotic genes: a computerized statistical analysis. Nucleic Acids Research, 18:3015-3019, 1990.
    • (1990) Nucleic Acids Research , vol.18 , pp. 3015-3019
    • Harris, N.L.1    Senapathy, P.2
  • 107
    • 0027978722 scopus 로고
    • Selection intensity for codon bias
    • D. L. Hartl, E. N. Moriyama, and S. A. Sawyer. Selection intensity for codon bias. Genetics, 138:227-234, 1994.
    • (1994) Genetics , vol.138 , pp. 227-234
    • Hartl, D.L.1    Moriyama, E.N.2    Sawyer, S.A.3
  • 108
    • 0033664744 scopus 로고    scopus 로고
    • Lian 3.0: Detecting linkage disequilibrium in multilocus data
    • B. Haubold and R. R. Hudson. Lian 3.0: detecting linkage disequilibrium in multilocus data. Bioinformatics, 16:847-848, 2000.
    • (2000) Bioinformatics , vol.16 , pp. 847-848
    • Haubold, B.1    Hudson, R.R.2
  • 109
    • 0031788831 scopus 로고    scopus 로고
    • Detecting linkage disequilibrium in bacterial populations
    • B. Haubold, M. Travisano, P. B. Rainey, and R. R. Hudson. Detecting linkage disequilibrium in bacterial populations. Genetics, 150:1341-1348, 1998.
    • (1998) Genetics , vol.150 , pp. 1341-1348
    • Haubold, B.1    Travisano, M.2    Rainey, P.B.3    Hudson, R.R.4
  • 110
    • 5344235404 scopus 로고    scopus 로고
    • Comparative genomics: Methods and applications
    • B. Haubold and T. Wiehe. Comparative genomics: methods and applications. Naturwissenschaften, 91:405-421, 2004.
    • (2004) Naturwissenschaften , vol.91 , pp. 405-421
    • Haubold, B.1    Wiehe, T.2
  • 111
  • 113
  • 115
    • 0032976592 scopus 로고    scopus 로고
    • The neutralist, the fly and the selctionist
    • J. Hey. The neutralist, the fly and the selctionist. Trends in Ecology and Evolution, 14:35-37, 1999.
    • (1999) Trends in Ecology and Evolution , vol.14 , pp. 35-37
    • Hey, J.1
  • 116
    • 0016518550 scopus 로고
    • A linear space algorithm for computing longest common subsequences
    • D. S. Hirschberg. A linear space algorithm for computing longest common subsequences. Communications of the ACM, 18:341-343, 1975.
    • (1975) Communications of the ACM , vol.18 , pp. 341-343
    • Hirschberg, D.S.1
  • 118
    • 0013937415 scopus 로고
    • A molecular approach to the study of genic heterozygosity in natural populations. I. The number of alleles at different loci in Drosophila pseudoobscura
    • J. L. Hubby and R. C. Lewontin. A molecular approach to the study of genic heterozygosity in natural populations. I. The number of alleles at different loci in Drosophila pseudoobscura. Genetics, 54:577-594, 1966.
    • (1966) Genetics , vol.54 , pp. 577-594
    • Hubby, J.L.1    Lewontin, R.C.2
  • 119
    • 0020744702 scopus 로고
    • Properties of a neutral allele model with intragenic recombination
    • R. R. Hudson. Properties of a neutral allele model with intragenic recombination. Theoretical Population Biology, 23:183-201, 1983.
    • (1983) Theoretical Population Biology , vol.23 , pp. 183-201
    • Hudson, R.R.1
  • 121
    • 0027947326 scopus 로고
    • Analytical results concerning linkage disequilibrium in models with genetic transformation and conjugation
    • R. R. Hudson. Analytical results concerning linkage disequilibrium in models with genetic transformation and conjugation. Journal of Evolutionary Biology, 7:535-548, 1994.
    • (1994) Journal of Evolutionary Biology , vol.7 , pp. 535-548
    • Hudson, R.R.1
  • 122
    • 0036184745 scopus 로고    scopus 로고
    • Generating samples under a Wright-Fisher neutral model of genetic variation
    • R. R. Hudson. Generating samples under a Wright-Fisher neutral model of genetic variation. Bioinformatics, 18:337-338, 2002.
    • (2002) Bioinformatics , vol.18 , pp. 337-338
    • Hudson, R.R.1
  • 123
    • 0022211482 scopus 로고
    • Statistical properties of the number of recombination events in the history of a sample of DNA sequences
    • R. R. Hudson and N. L. Kaplan. Statistical properties of the number of recombination events in the history of a sample of DNA sequences. Genetics, 111:147-164, 1985.
    • (1985) Genetics , vol.111 , pp. 147-164
    • Hudson, R.R.1    Kaplan, N.L.2
  • 124
    • 0023339852 scopus 로고
    • A test of neutral molecular evolution based on nucleotide data
    • R. R. Hudson, M. Kreitman, and M. Aguadé. A test of neutral molecular evolution based on nucleotide data. Genetics, 116:153-159, 1987.
    • (1987) Genetics , vol.116 , pp. 153-159
    • Hudson, R.R.1    Kreitman, M.2    Aguadé, M.3
  • 125
    • 0030902563 scopus 로고    scopus 로고
    • Phylogenetic methods come of age: Testing hypotheses in an evolutionary context
    • J. P. Huelsenbeck and B. Rannala. Phylogenetic methods come of age: testing hypotheses in an evolutionary context. Science, 276:227-232, 1997.
    • (1997) Science , vol.276 , pp. 227-232
    • Huelsenbeck, J.P.1    Rannala, B.2
  • 127
    • 0028906291 scopus 로고
    • New methods for estimating the numbers of synonymous and nonsynonymous substitutions
    • I. Ina. New methods for estimating the numbers of synonymous and nonsynonymous substitutions. Journal of Molecular Evolution, 40:190-226, 1995.
    • (1995) Journal of Molecular Evolution , vol.40 , pp. 190-226
    • Ina, I.1
  • 128
    • 2042437650 scopus 로고    scopus 로고
    • International Human Genome Sequencing Consortium. Initial sequencing and analysis of the human genome
    • International Human Genome Sequencing Consortium. Initial sequencing and analysis of the human genome. Nature, 409:860-921, 2001.
    • (2001) Nature , vol.409 , pp. 860-921
  • 130
    • 0000732090 scopus 로고
    • Evolution of protein molecules
    • H. N. Munro, editor, Academic Press, New York
    • T. H. Jukes and C. R. Cantor. Evolution of protein molecules. In H. N. Munro, editor, Mammalian Protein Metabolism, volume 3, pages 21-132. Academic Press, New York, 1969.
    • (1969) Mammalian Protein Metabolism , vol.3 , pp. 21-132
    • Jukes, T.H.1    Cantor, C.R.2
  • 131
    • 0022308262 scopus 로고
    • The use of sample genealogies for studying a selectively neutral m-loci model with recombination
    • N. Kaplan and R. R. Hudson. The use of sample genealogies for studying a selectively neutral m-loci model with recombination. Theoretical Population Biology, 28:382-396, 1985.
    • (1985) Theoretical Population Biology , vol.28 , pp. 382-396
    • Kaplan, N.1    Hudson, R.R.2
  • 132
    • 0024372736 scopus 로고
    • The "hitchhiking effect" revisited
    • N. L. Kaplan, R. R. Hudson, and C. H. Langley. The "hitchhiking effect" revisited. Genetics, 123:887-899, 1989.
    • (1989) Genetics , vol.123 , pp. 887-899
    • Kaplan, N.L.1    Hudson, R.R.2    Langley, C.H.3
  • 133
    • 0028843842 scopus 로고
    • Alignment of 700 globin sequences: Extent of amino acid substitution and its correlation with variation in volume
    • O. H. Kapp, L. Moens, J. Vanfleteren, C. N. A. Trothman, T. Suzuki, and S. N. Vinogradov. Alignment of 700 globin sequences: Extent of amino acid substitution and its correlation with variation in volume. Protein Science, 4:2179-2190, 1995.
    • (1995) Protein Science , vol.4 , pp. 2179-2190
    • Kapp, O.H.1    Moens, L.2    Vanfleteren, J.3    Trothman, C.N.A.4    Suzuki, T.5    Vinogradov, S.N.6
  • 134
    • 0025259313 scopus 로고
    • Methods for assessing the statistical significance of molecular sequence features by using general scoring schemes
    • S. Karlin and S. F. Altschul. Methods for assessing the statistical significance of molecular sequence features by using general scoring schemes. Proceedings of the National Academy of Sciences, USA, 87:2264-2268, 1990.
    • (1990) Proceedings of the National Academy of Sciences, USA , vol.87 , pp. 2264-2268
    • Karlin, S.1    Altschul, S.F.2
  • 137
    • 36949091243 scopus 로고
    • Structure of myoglobin: A three-dimensional Fourier synthesis at 2 A resolution
    • J. C. Kendrew, R. E. Dickerson, B. E. Strandberg, R. G. Hart, and D. R. Davies. Structure of myoglobin: a three-dimensional Fourier synthesis at 2 A resolution. Nature, 185:422-427, 1960.
    • (1960) Nature , vol.185 , pp. 422-427
    • Kendrew, J.C.1    Dickerson, R.E.2    Strandberg, B.E.3    Hart, R.G.4    Davies, D.R.5
  • 139
    • 0014421064 scopus 로고
    • Evolutionary rate at the molecular level
    • M. Kimura. Evolutionary rate at the molecular level. Nature, 217:624-626, 1968.
    • (1968) Nature , vol.217 , pp. 624-626
    • Kimura, M.1
  • 140
    • 0002014477 scopus 로고
    • The neutral theory as a basis for understanding the mechanism of evolution and variation at the molecular level
    • M. Kimura, editor, Springer Verlag, Berlin
    • M. Kimura. The neutral theory as a basis for understanding the mechanism of evolution and variation at the molecular level. In M. Kimura, editor, Molecular Evolution, Protein Polymorphism and the Neutral Theory, pages 3-56. Springer Verlag, Berlin, 1982.
    • (1982) Molecular Evolution, Protein Polymorphism and the Neutral Theory , pp. 3-56
    • Kimura, M.1
  • 142
    • 75949146309 scopus 로고
    • The number of alleles that can be maintained in a finite population
    • M. Kimura and J. F. Crow. The number of alleles that can be maintained in a finite population. Genetics, 49:725-738, 1964.
    • (1964) Genetics , vol.49 , pp. 725-738
    • Kimura, M.1    Crow, J.F.2
  • 143
    • 0014595262 scopus 로고
    • The average number of generations until extinction of an individual mutant gene in a finite population
    • M. Kimura and T. Ohta. The average number of generations until extinction of an individual mutant gene in a finite population. Genetics, 63:701-709, 1969.
    • (1969) Genetics , vol.63 , pp. 701-709
    • Kimura, M.1    Ohta, T.2
  • 144
    • 0015220547 scopus 로고
    • Protein polymorphism as a phase of molecular evolution
    • M. Kimura and M. Otha. Protein polymorphism as a phase of molecular evolution. Nature, 229:467-469, 1971.
    • (1971) Nature , vol.229 , pp. 467-469
    • Kimura, M.1    Otha, M.2
  • 145
    • 0014680905 scopus 로고
    • Non-Darwinian evolution
    • J. L. King and T. H. Jukes. Non-Darwinian evolution. Science, 164:788-798, 1969.
    • (1969) Science , vol.164 , pp. 788-798
    • King, J.L.1    Jukes, T.H.2
  • 146
    • 84920083926 scopus 로고    scopus 로고
    • Popular US talk-show host Larry King interrogates philosopher Barbara Forrest on intelligent design
    • Quoted in
    • L. King, 2005. Popular US talk-show host Larry King interrogates philosopher Barbara Forrest on intelligent design. Quoted in Nature, vol. 437, p. 12.
    • (2005) Nature , vol.437 , pp. 12
    • King, L.1
  • 148
  • 149
    • 0034530345 scopus 로고    scopus 로고
    • Origins of the coalescent: 1974-1982
    • J. F. C. Kingman. Origins of the coalescent: 1974-1982. Genetics, 154:1461-1463, 2000.
    • (2000) Genetics , vol.154 , pp. 1461-1463
    • Kingman, J.F.C.1
  • 152
    • 0020560127 scopus 로고
    • Nucleotide polymorphism at the alcohol dehydrogenase locus of Drosophila melanogaster
    • M. Kreitman. Nucleotide polymorphism at the alcohol dehydrogenase locus of Drosophila melanogaster. Nature, 304:412-417, 1983.
    • (1983) Nature , vol.304 , pp. 412-417
    • Kreitman, M.1
  • 153
    • 0030219466 scopus 로고    scopus 로고
    • The neutral theory is dead. Long live the neutral theory
    • M. Kreitman. The neutral theory is dead. Long live the neutral theory. BioEssays, 18:678-683, 1996.
    • (1996) BioEssays , vol.18 , pp. 678-683
    • Kreitman, M.1
  • 154
    • 0034066018 scopus 로고    scopus 로고
    • Using database matches with HMMGene for automated gene detection in Drosophila
    • A. Krogh. Using database matches with HMMGene for automated gene detection in Drosophila. Genome Research, 10:523-528, 2000.
    • (2000) Genome Research , vol.10 , pp. 523-528
    • Krogh, A.1
  • 158
    • 0033227559 scopus 로고    scopus 로고
    • Reducing the space requirement of suffix trees
    • S. Kurtz. Reducing the space requirement of suffix trees. Software - Practice and Experience, 29:1149-1171, 1999.
    • (1999) Software - Practice and Experience , vol.29 , pp. 1149-1171
    • Kurtz, S.1
  • 159
    • 0025630178 scopus 로고
    • Molecular evolution of Drosophila metallothionein genes
    • B. W. Lange, C. H. Langley, and W. Stephan. Molecular evolution of Drosophila metallothionein genes. Genetics, 126:921-932, 1990.
    • (1990) Genetics , vol.126 , pp. 921-932
    • Lange, B.W.1    Langley, C.H.2    Stephan, W.3
  • 160
    • 0004415250 scopus 로고
    • The molecular population genetics of Drosophila
    • N. Takahata and J. F. Crow, editors, National Academy of Sciences, Baifukan, Japan
    • C. H. Langley. The molecular population genetics of Drosophila. In N. Takahata and J. F. Crow, editors, Population Biology of Genes and Molecules, pages 75-91. National Academy of Sciences, Baifukan, Japan, 1990.
    • (1990) Population Biology of Genes and Molecules , pp. 75-91
    • Langley, C.H.1
  • 162
    • 0001041021 scopus 로고
    • Naturally occuring variation in the restriction map of the Amy region of Drosophila melanogaster
    • C. H. Langley, A. E. Shrimpton, T. Yamazaki, N. Miyashita, Y. Matsuo, and C. F. Aquadro. Naturally occuring variation in the restriction map of the Amy region of Drosophila melanogaster. Genetics, 119:619-629, 1988.
    • (1988) Genetics , vol.119 , pp. 619-629
    • Langley, C.H.1    Shrimpton, A.E.2    Yamazaki, T.3    Miyashita, N.4    Matsuo, Y.5    Aquadro, C.F.6
  • 164
    • 0019619751 scopus 로고
    • Periodic selection, infectious gene exchange and the genetic structure of E. coli populations
    • B. R. Levin. Periodic selection, infectious gene exchange and the genetic structure of E. coli populations. Genetics, 99:1-23, 1981.
    • (1981) Genetics , vol.99 , pp. 1-23
    • Levin, B.R.1
  • 165
    • 0014127475 scopus 로고
    • An estimate of average heterozygosity in man
    • R. C. Lewontin. An estimate of average heterozygosity in man. American Journal of Human Genetics, 19:681-685, 1967.
    • (1967) American Journal of Human Genetics , vol.19 , pp. 681-685
    • Lewontin, R.C.1
  • 167
    • 0013937664 scopus 로고
    • A molecular approach to the study of genic heterozygosity in natural populations. II. Amount of variation and degree of heterozygosity in natural populations of Drosophila pseudoobscura
    • R. C. Lewontin and J. L. Hubby. A molecular approach to the study of genic heterozygosity in natural populations. II. Amount of variation and degree of heterozygosity in natural populations of Drosophila pseudoobscura. Genetics, 54:595-609, 1966.
    • (1966) Genetics , vol.54 , pp. 595-609
    • Lewontin, R.C.1    Hubby, J.L.2
  • 170
    • 0034634395 scopus 로고    scopus 로고
    • The evolutionary fate and consequences of duplicate genes
    • M. Lynch and J. S. Conery. The evolutionary fate and consequences of duplicate genes. Science, 290:1151-1155, 2000.
    • (2000) Science , vol.290 , pp. 1151-1155
    • Lynch, M.1    Conery, J.S.2
  • 172
    • 0027681165 scopus 로고
    • Suffix arrays: A new method for on-line string searches
    • U. Manber and E. W. Myers. Suffix arrays: a new method for on-line string searches. SIAM Journal on Computing, 22:935-948, 1993.
    • (1993) SIAM Journal on Computing , vol.22 , pp. 935-948
    • Manber, U.1    Myers, E.W.2
  • 173
    • 0014935646 scopus 로고
    • Natural selection and the concept of a protein space
    • J. Maynard Smith. Natural selection and the concept of a protein space. Nature, 225:563-564, 1970.
    • (1970) Nature , vol.225 , pp. 563-564
    • Maynard Smith, J.1
  • 176
    • 0028341506 scopus 로고
    • Comparative analysis of multiple proteinsequence alignment methods
    • M. A. McClure, T. K. Vasi, and W. M. Fitch. Comparative analysis of multiple proteinsequence alignment methods. Molecular Biology and Evolution, 11:571-592, 1994.
    • (1994) Molecular Biology and Evolution , vol.11 , pp. 571-592
    • McClure, M.A.1    Vasi, T.K.2    Fitch, W.M.3
  • 177
    • 0016942292 scopus 로고
    • A space-economic suffix tree construction algorithm
    • E. M. McCreight. A space-economic suffix tree construction algorithm. Journal of the ACM, 23:262-272, 1976.
    • (1976) Journal of the ACM , vol.23 , pp. 262-272
    • McCreight, E.M.1
  • 178
    • 0026428610 scopus 로고
    • Adaptive protein evolution at the Adh locus in Drosophila
    • J. H. McDonald and M. Kreitman. Adaptive protein evolution at the Adh locus in Drosophila. Nature, 351:652-654, 1991.
    • (1991) Nature , vol.351 , pp. 652-654
    • McDonald, J.H.1    Kreitman, M.2
  • 180
    • 0034708758 scopus 로고    scopus 로고
    • A whole-genome assembly of Drosophila
    • E. W. Meyers et al. A whole-genome assembly of Drosophila. Science, 287:2196-2204, 2000.
    • (2000) Science , vol.287 , pp. 2196-2204
    • Meyers, E.W.1
  • 181
    • 0023984847 scopus 로고
    • Optimal alignments in linear space
    • E. W. Meyers and W. Miller. Optimal alignments in linear space. Bioinformatics, 4:11-17, 1988.
    • (1988) Bioinformatics , vol.4 , pp. 11-17
    • Meyers, E.W.1    Miller, W.2
  • 182
    • 0015917096 scopus 로고
    • Electrophoretic variation in Escherichia coli from natural sources
    • R. Milkman. Electrophoretic variation in Escherichia coli from natural sources. Science, 182:1024-1026, 1973.
    • (1973) Science , vol.182 , pp. 1024-1026
    • Milkman, R.1
  • 183
    • 0023732921 scopus 로고
    • Molecular and phenotypic variation of the white locus region in Drosophila melanogaster
    • N. Miyashita and C. H. Langley. Molecular and phenotypic variation of the white locus region in Drosophila melanogaster. Genetics, 120:199-212, 1988.
    • (1988) Genetics , vol.120 , pp. 199-212
    • Miyashita, N.1    Langley, C.H.2
  • 185
    • 0030870076 scopus 로고    scopus 로고
    • EST-GENOME: A program to align spliced DNA sequences to unspliced genomic DNA
    • R. Mott. EST-GENOME: a program to align spliced DNA sequences to unspliced genomic DNA. Computer Applications in the Biosciences, 13:477-478, 1997.
    • (1997) Computer Applications in the Biosciences , vol.13 , pp. 477-478
    • Mott, R.1
  • 186
    • 0026670564 scopus 로고
    • Testing for equality of evolutionary rates
    • S. V. Muse and B. S. Weir. Testing for equality of evolutionary rates. Genetics, 132:269-276, 1992.
    • (1992) Genetics , vol.132 , pp. 269-276
    • Muse, S.V.1    Weir, B.S.2
  • 189
    • 0014757386 scopus 로고
    • A general method applicable to the search for similarities in the amino acid sequence of two proteins
    • S. B. Needleman and C. D. Wunsch. A general method applicable to the search for similarities in the amino acid sequence of two proteins. Journal of Molecular Biology, 48:443-453, 1970.
    • (1970) Journal of Molecular Biology , vol.48 , pp. 443-453
    • Needleman, S.B.1    Wunsch, C.D.2
  • 191
    • 73049150125 scopus 로고
    • The dependence of cell-free protein synthesis in E. coli upon naturally occurring or synthetic polyribonucleotides
    • M. W. Nierenberg and J. H. Matthaei. The dependence of cell-free protein synthesis in E. coli upon naturally occurring or synthetic polyribonucleotides. Proceedings of the National Academy of Sciences, USA, 47:1588-1602, 1961.
    • (1961) Proceedings of the National Academy of Sciences, USA , vol.47 , pp. 1588-1602
    • Nierenberg, M.W.1    Matthaei, J.H.2
  • 192
    • 0000913208 scopus 로고    scopus 로고
    • Coalescent theory
    • D. J. Balding, M. Bishop, and C. Cannings, editors, chapter 7, Wiley, New York
    • M. Nordborg. Coalescent theory. In D. J. Balding, M. Bishop, and C. Cannings, editors, Handbook of Statistical Genetics, chapter 7, pages 178-212. Wiley, New York, 2001.
    • (2001) Handbook of Statistical Genetics , pp. 178-212
    • Nordborg, M.1
  • 195
    • 0027533924 scopus 로고
    • Evolution of the Zfx and Zfy genes: Rates and interdependence between the genes
    • P. Pamilo and N. O. Bianchi. Evolution of the Zfx and Zfy genes: Rates and interdependence between the genes. Molecular Biolology and Evolution, 10:271-281, 1993.
    • (1993) Molecular Biolology and Evolution , vol.10 , pp. 271-281
    • Pamilo, P.1    Bianchi, N.O.2
  • 198
    • 0011733614 scopus 로고    scopus 로고
    • Statistical significance in biological sequence comparison
    • D. J. Balding, M. Bishop, and C. Cannings, editors, chapter 2, Wiley, New York
    • W. R. Pearson and T. C. Wood. Statistical significance in biological sequence comparison. In D. J. Balding, M. Bishop, and C. Cannings, editors, Handbook of Statistical Genetics, chapter 2, pages 39-65. Wiley, New York, 2001.
    • (2001) Handbook of Statistical Genetics , pp. 39-65
    • Pearson, W.R.1    Wood, T.C.2
  • 199
    • 0034948027 scopus 로고    scopus 로고
    • Recognition of RNA branch point sequences by the KH domain of splicing factor 1 (mammalian branch point binding protein) in a splicing factor complex
    • H. Peled-Zehavi, J. A. Berglund, M. Rosbash, and A. D. Frankel. Recognition of RNA branch point sequences by the KH domain of splicing factor 1 (mammalian branch point binding protein) in a splicing factor complex. Molecular Cell Biology, 21:5232-5241, 2001.
    • (2001) Molecular Cell Biology , vol.21 , pp. 5232-5241
    • Peled-Zehavi, H.1    Berglund, J.A.2    Rosbash, M.3    Frankel, A.D.4
  • 201
    • 0035058360 scopus 로고    scopus 로고
    • Evolution of genome size: New approaches to an old problem
    • D. A. Petrov. Evolution of genome size: new approaches to an old problem. Trends in Genetics, 17:23-28, 2001.
    • (2001) Trends in Genetics , vol.17 , pp. 23-28
    • Petrov, D.A.1
  • 205
    • 0024610919 scopus 로고
    • A tutorial on hidden Markov models and selected applications in speech recognition
    • L. R. Rabiner. A tutorial on hidden Markov models and selected applications in speech recognition. Proceedings of the IEEE, 77:257-286, 1989.
    • (1989) Proceedings of the IEEE , vol.77 , pp. 257-286
    • Rabiner, L.R.1
  • 208
    • 4944261948 scopus 로고    scopus 로고
    • Modelling the recent common ancestry of all living humans
    • D. L. T. Rhode, S. Olson, and J. T. Chang. Modelling the recent common ancestry of all living humans. Nature, 431:562-566, 2004.
    • (2004) Nature , vol.431 , pp. 562-566
    • Rhode, D.L.T.1    Olson, S.2    Chang, J.T.3
  • 209
    • 0034201441 scopus 로고    scopus 로고
    • EMBOSS: The European molecular biology open software suite
    • P. Rice and A. Bleasby. EMBOSS: The European Molecular Biology Open Software Suite. Trends in Genetics, 16:276-277, 2000.
    • (2000) Trends in Genetics , vol.16 , pp. 276-277
    • Rice, P.1    Bleasby, A.2
  • 211
    • 0347513220 scopus 로고    scopus 로고
    • DnaSP, DNA polymorphism analyses by the coalescent and other methods
    • J. Rozas, J. C. Sánchez-Del Barrio, X. Messeguer, and R. Rozas. DnaSP, DNA polymorphism analyses by the coalescent and other methods. Bioinformatics, 19:2496-2497, 2003.
    • (2003) Bioinformatics , vol.19 , pp. 2496-2497
    • Rozas, J.1    Sánchez-Del Barrio, J.C.2    Messeguer, X.3    Rozas, R.4
  • 212
    • 0023375195 scopus 로고
    • The neighbor-joining method: A new method for reconstructing phylgenetic trees
    • N. Saitou and M. Nei. The neighbor-joining method: a new method for reconstructing phylgenetic trees. Molecular Biology and Evolution, 4:406-425, 1987.
    • (1987) Molecular Biology and Evolution , vol.4 , pp. 406-425
    • Saitou, N.1    Nei, M.2
  • 213
    • 0034065724 scopus 로고    scopus 로고
    • Ab initio gene finding in Drosophila genomic DNA
    • A. A. Salamov and V. V. Solovyev. Ab initio gene finding in Drosophila genomic DNA. Genome Research, 10:516-522, 2000.
    • (2000) Genome Research , vol.10 , pp. 516-522
    • Salamov, A.A.1    Solovyev, V.V.2
  • 217
    • 0037213556 scopus 로고    scopus 로고
    • Hitchhiking mapping-functional genomics from the population genetics perspective
    • C. Schlotterer. Hitchhiking mapping-functional genomics from the population genetics perspective. Trends in Genetics, 19:32-38, 2003.
    • (2003) Trends in Genetics , vol.19 , pp. 32-38
    • Schlotterer, C.1
  • 218
    • 0036205377 scopus 로고    scopus 로고
    • TREE-PUZZLE: Maximum likelihood phylogenetic analysis using quartets and parallel computing
    • H. A. Schmidt, K. Strimmer, M. Vingron, and A. Von Haeseler. TREE-PUZZLE: maximum likelihood phylogenetic analysis using quartets and parallel computing. Bioinformatics, 18:502-504, 2002.
    • (2002) Bioinformatics , vol.18 , pp. 502-504
    • Schmidt, H.A.1    Strimmer, K.2    Vingron, M.3    Von Haeseler, A.4
  • 219
    • 0025008168 scopus 로고
    • Sequence logos: A new way to display consensus sequences
    • T. D. Schneider and R. M. Stephens. Sequence logos: A new way to display consensus sequences. Nucleic Acids Research, 18:6097-6100, 1990.
    • (1990) Nucleic Acids Research , vol.18 , pp. 6097-6100
    • Schneider, T.D.1    Stephens, R.M.2
  • 220
    • 0004146634 scopus 로고
    • Canto. Cambridge University Press, Cambridge
    • E. Schrodinger. What is Life. Canto. Cambridge University Press, Cambridge, 1944/1992.
    • (1944) What Is Life
    • Schrodinger, E.1
  • 221
    • 0034698298 scopus 로고    scopus 로고
    • One sequence, two ribozymes: Implications for the emergence of new ribozyme folds
    • E. A. Schultes and D. P. Bartel. One sequence, two ribozymes: Implications for the emergence of new ribozyme folds. Science, 289:448-452, 2000.
    • (2000) Science , vol.289 , pp. 448-452
    • Schultes, E.A.1    Bartel, D.P.2
  • 222
    • 0019276739 scopus 로고
    • Genetic diversity and structure in Escherichia coli populations
    • R. K. Selander and B. R. Levin. Genetic diversity and structure in Escherichia coli populations. Science, 210:545-547, 1980.
    • (1980) Science , vol.210 , pp. 545-547
    • Selander, R.K.1    Levin, B.R.2
  • 223
    • 24344500211 scopus 로고    scopus 로고
    • The Chimpanzee Sequencing and Analysis Consortium. Initial sequence of the chimpanzee genome and comparison with the human genome
    • The Chimpanzee Sequencing and Analysis Consortium. Initial sequence of the chimpanzee genome and comparison with the human genome. Nature, 437:69-87, 2005.
    • (2005) Nature , vol.437 , pp. 69-87
  • 224
  • 225
    • 0034522525 scopus 로고    scopus 로고
    • Genetic isolation by distance in Arabidopsis thaliana: Biogeography and postglacial colonization of Europe
    • T. F. Sharbel, B. Haubold, and T. Mitchell-Olds. Genetic isolation by distance in Arabidopsis thaliana: biogeography and postglacial colonization of Europe. Molecular Ecology, 9:2109-2118, 2000.
    • (2000) Molecular Ecology , vol.9 , pp. 2109-2118
    • Sharbel, T.F.1    Haubold, B.2    Mitchell-Olds, T.3
  • 227
    • 0031825318 scopus 로고    scopus 로고
    • Genetic hitch-hiking in a subdivided population
    • M. Slatkin and T. Wiehe. Genetic hitch-hiking in a subdivided population. Genetical Research, Cambridge, 71:155-160, 1998.
    • (1998) Genetical Research, Cambridge , vol.71 , pp. 155-160
    • Slatkin, M.1    Wiehe, T.2
  • 228
    • 0034256020 scopus 로고    scopus 로고
    • Alternative pre-mRNA splicing: The logic of combinatorial control
    • C. W. Smith and J. Valcarcel. Alternative pre-mRNA splicing: the logic of combinatorial control. Trends in Biochemical Sciences, 25:381-388, 2000.
    • (2000) Trends in Biochemical Sciences , vol.25 , pp. 381-388
    • Smith, C.W.1    Valcarcel, J.2
  • 229
    • 0026527758 scopus 로고
    • Pattern-induced multi-sequence alignment (pima) algorithm employing secondary structure-dependent gap penalties for use in comparative protein modelling
    • R. F. Smith and T. F. Smith. Pattern-induced multi-sequence alignment (pima) algorithm employing secondary structure-dependent gap penalties for use in comparative protein modelling. Protein Engineering, 5:35-41, 1992.
    • (1992) Protein Engineering , vol.5 , pp. 35-41
    • Smith, R.F.1    Smith, T.F.2
  • 230
    • 0019887799 scopus 로고
    • Identification of common molecular subsequences
    • T. F. Smith and M. S. Waterman. Identification of common molecular subsequences. Journal of Molecular Biology, 147:195-197, 1981.
    • (1981) Journal of Molecular Biology , vol.147 , pp. 195-197
    • Smith, T.F.1    Waterman, M.S.2
  • 231
    • 0013447060 scopus 로고
    • W. H. Freeman & Company, New York, 2nd edition
    • R. R. Sokal and F. J. Rohlf. Biometry. W. H. Freeman & Company, New York, 2nd edition, 1981.
    • (1981) Biometry
    • Sokal, R.R.1    Rohlf, F.J.2
  • 233
    • 0029654258 scopus 로고    scopus 로고
    • A dot-matrix program with dynamic threshold control suited for genomic DNA and protein sequence analysis
    • E. L. L. Sonnhammer and R. Durbin. A dot-matrix program with dynamic threshold control suited for genomic DNA and protein sequence analysis. Gene, 167:1-10, 1996.
    • (1996) Gene , vol.167 , pp. 1-10
    • Sonnhammer, E.L.L.1    Durbin, R.2
  • 235
    • 84920077752 scopus 로고    scopus 로고
    • Mathematical model of the hitchhiking effect, and its application to DNA polymorphism data
    • O. Arino, D. E. Axelrod, M. Kimmel, and V. Capasso, editors, World Scientific, River Edge, NJ
    • W. Stephan. Mathematical model of the hitchhiking effect, and its application to DNA polymorphism data. In O. Arino, D. E. Axelrod, M. Kimmel, and V. Capasso, editors, Advances in Mathematical Dynamics - Molecules, Cells and Man, page 2945. World Scientific, River Edge, NJ, 1997.
    • (1997) Advances in Mathematical Dynamics - Molecules, Cells and Man , pp. 2945
    • Stephan, W.1
  • 236
    • 7344226732 scopus 로고
    • The effect of strongly selected substitutions on neutral polymorphism: Analytical results based on diffusion theory
    • W. Stephan, T. Wiehe, and M. W. Lenz. The effect of strongly selected substitutions on neutral polymorphism: Analytical results based on diffusion theory. Theoretical Population Biology, 41:237-254, 1992.
    • (1992) Theoretical Population Biology , vol.41 , pp. 237-254
    • Stephan, W.1    Wiehe, T.2    Lenz, M.W.3
  • 237
    • 0031002417 scopus 로고    scopus 로고
    • Likelihood-mapping: A simple method to visualize phylogenetic content of a sequence alingment
    • K. Strimmer and A. V. Haeseler. Likelihood-mapping: a simple method to visualize phylogenetic content of a sequence alingment. Proceedings of the National Academy of Sciences, USA, 94:6815-6819, 1997.
    • (1997) Proceedings of the National Academy of Sciences, USA , vol.94 , pp. 6815-6819
    • Strimmer, K.1    Haeseler, A.V.2
  • 238
    • 0001336205 scopus 로고    scopus 로고
    • Phylogenetic inference
    • D. M. Hillis, M. Craig, and B. K. Marble, editors, Sinauer, Sunderland, 2nd edition
    • D. L. Swofford, G. J. Olsen, P. J. Waddell, and D. M. Hillis. Phylogenetic inference. In D. M. Hillis, M. Craig, and B. K. Marble, editors, Molecular Systematics, pages 407-514. Sinauer, Sunderland, 2nd edition, 1996.
    • (1996) Molecular Systematics , pp. 407-514
    • Swofford, D.L.1    Olsen, G.J.2    Waddell, P.J.3    Hillis, D.M.4
  • 239
    • 0021066244 scopus 로고
    • Evolutionary relationship of DNA sequences in finite populations
    • F. Tajima. Evolutionary relationship of DNA sequences in finite populations. Genetics, 105:437-460, 1983.
    • (1983) Genetics , vol.105 , pp. 437-460
    • Tajima, F.1
  • 240
    • 0024313579 scopus 로고
    • Statistical method for testing the neutral mutation hypothesis by DNA polymorphism
    • F. Tajima. Statistical method for testing the neutral mutation hypothesis by DNA polymorphism. Genetics, 123:585-595, 1989.
    • (1989) Genetics , vol.123 , pp. 585-595
    • Tajima, F.1
  • 241
    • 0025937796 scopus 로고
    • The genetic structure of natural populations of Drosophila melanogaster. XXII. Comparative study of DNA polymorphisms in northern and southern natural populations
    • T. S. Takano, S. Kusakabe, and T. Mukai. The genetic structure of natural populations of Drosophila melanogaster. XXII. Comparative study of DNA polymorphisms in northern and southern natural populations. Genetics, 129:753-761, 1991.
    • (1991) Genetics , vol.129 , pp. 753-761
    • Takano, T.S.1    Kusakabe, S.2    Mukai, T.3
  • 242
    • 0034332996 scopus 로고    scopus 로고
    • A genetic uncertainty problem
    • D. Tautz. A genetic uncertainty problem. Trends in Genetics, 16:475-477, 2000.
    • (2000) Trends in Genetics , vol.16 , pp. 475-477
    • Tautz, D.1
  • 243
    • 0032509302 scopus 로고    scopus 로고
    • The C elegans Sequencing Consortium. Genome sequence of the nematode C elegans: A platform for investigating biology
    • The C. elegans Sequencing Consortium. Genome sequence of the nematode C. elegans: a platform for investigating biology. Science, 282:2012-2018, 1998.
    • (1998) Science , vol.282 , pp. 2012-2018
  • 244
    • 0035865322 scopus 로고    scopus 로고
    • The International SNP Map Working Group. A map of human genome sequence variation containing 1.42 million single nucleotide polymorphisms
    • The International SNP Map Working Group. A map of human genome sequence variation containing 1.42 million single nucleotide polymorphisms. Nature, 409:928-933, 2001.
    • (2001) Nature , vol.409 , pp. 928-933
  • 245
    • 0034649566 scopus 로고    scopus 로고
    • The Arabidopsis Genome Initiative. Analysis of the genome sequence of the flowering plant Arabidopsis thaliana
    • The Arabidopsis Genome Initiative. Analysis of the genome sequence of the flowering plant Arabidopsis thaliana. Nature, 408:796-815, 2000.
    • (2000) Nature , vol.408 , pp. 796-815
  • 246
    • 0027968068 scopus 로고
    • CLUSTAL W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position specific gap penalities and weight matrix choice
    • J. D. Thompson, D. G. Higgins, and T. J. Gibson. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position specific gap penalities and weight matrix choice. Nucleic Acids Research, 22:4673-4680, 1994.
    • (1994) Nucleic Acids Research , vol.22 , pp. 4673-4680
    • Thompson, J.D.1    Higgins, D.G.2    Gibson, T.J.3
  • 247
    • 0033168097 scopus 로고    scopus 로고
    • A comprehensive comparison of multiple sequence alignment programs
    • J. D. Thompson, F. Plewniak, and O. Poch. A comprehensive comparison of multiple sequence alignment programs. Nucleic Acids Research, 27:2682-2690, 1999.
    • (1999) Nucleic Acids Research , vol.27 , pp. 2682-2690
    • Thompson, J.D.1    Plewniak, F.2    Poch, O.3
  • 248
    • 0026351408 scopus 로고
    • Locating protein-coding regions in human DNA sequences by a multiple sensor-neural network approach
    • E. C. Uberbacher and R. J. Mural. Locating protein-coding regions in human DNA sequences by a multiple sensor-neural network approach. Proceedings of the National Academy of Sciences, USA, 88:11261-11265, 1991.
    • (1991) Proceedings of the National Academy of Sciences, USA , vol.88 , pp. 11261-11265
    • Uberbacher, E.C.1    Mural, R.J.2
  • 249
    • 0001704377 scopus 로고
    • On-line construction of suffix-trees
    • E. Ukkonen. On-line construction of suffix-trees. Algorithmica, 14:249-260, 1995.
    • (1995) Algorithmica , vol.14 , pp. 249-260
    • Ukkonen, E.1
  • 250
    • 0034646570 scopus 로고    scopus 로고
    • Gene structure prediction by spliced alignment of genomic DNA with protein sequences: Increased accuracy by differential splice site scoring
    • J. Usuka and V. Brendel. Gene structure prediction by spliced alignment of genomic DNA with protein sequences: increased accuracy by differential splice site scoring. Journal of Molecular Biology, 297:1075-1085, 2000.
    • (2000) Journal of Molecular Biology , vol.297 , pp. 1075-1085
    • Usuka, J.1    Brendel, V.2
  • 251
    • 84920101056 scopus 로고
    • Retroviruses and oncogenes I
    • J. Lindsten, editor, World Scientific
    • H. E. Varmus. Retroviruses and oncogenes I. In J. Lindsten, editor, Nobel Lectures Physiology or Medicine, pages 504-522. World Scientific, 1989.
    • (1989) Nobel Lectures Physiology Or Medicine , pp. 504-522
    • Varmus, H.E.1
  • 252
    • 0035895505 scopus 로고    scopus 로고
    • The sequence of the human genome
    • J. C. Venter et al. The sequence of the human genome. Science, 291:1304-1351, 2001.
    • (2001) Science , vol.291 , pp. 1304-1351
    • Venter, J.C.1
  • 256
    • 0038497542 scopus 로고
    • Molecular structure of nucleic acids: A structure for deoxyribose nucleic acid
    • J. D. Watson and F. H. C. Crick. Molecular structure of nucleic acids: a structure for deoxyribose nucleic acid. Nature, 171:737-738, 1953.
    • (1953) Nature , vol.171 , pp. 737-738
    • Watson, J.D.1    Crick, F.H.C.2
  • 257
    • 0016119372 scopus 로고
    • Models for the logarithmic species abundance distributions
    • G. A. Watterson. Models for the logarithmic species abundance distributions. Theoretical Population Biology, 6:217-250, 1974.
    • (1974) Theoretical Population Biology , vol.6 , pp. 217-250
    • Watterson, G.A.1
  • 258
    • 0016491430 scopus 로고
    • On the number of segregating sites in genetical models without recombination
    • G. A. Watterson. On the number of segregating sites in genetical models without recombination. Theoretical Population Biology, 7:256-276, 1975.
    • (1975) Theoretical Population Biology , vol.7 , pp. 256-276
    • Watterson, G.A.1
  • 260
    • 0027235978 scopus 로고
    • Analysis of a genetic hitchhiking model and its application to DNA polymorphism data from Drosophila melanogaster
    • T. Wiehe and W. Stephan. Analysis of a genetic hitchhiking model and its application to DNA polymorphism data from Drosophila melanogaster. Molecular Biology and Evolution, 10:842-854, 1993.
    • (1993) Molecular Biology and Evolution , vol.10 , pp. 842-854
    • Wiehe, T.1    Stephan, W.2
  • 261
    • 0037795310 scopus 로고    scopus 로고
    • Implications of natural selection in shaping 99.4% nonsynonymous DNA identity between humans and chimpanzees: Enlarging genus Homo
    • D. E. Wildman, M. Uddin, G. Liu, L. I. Grossman, and M. Goodman. Implications of natural selection in shaping 99.4% nonsynonymous DNA identity between humans and chimpanzees: enlarging genus Homo. Proceedings of the National Academy of Sciences, USA, 100:7181-7188, 2003.
    • (2003) Proceedings of the National Academy of Sciences, USA , vol.100 , pp. 7181-7188
    • Wildman, D.E.1    Uddin, M.2    Liu, G.3    Grossman, L.I.4    Goodman, M.5
  • 262
    • 0001771498 scopus 로고
    • Evolution in Mendelian populations
    • S. Wright. Evolution in Mendelian populations. Genetics, 16:97-159, 1931.
    • (1931) Genetics , vol.16 , pp. 97-159
    • Wright, S.1
  • 263
    • 0000907353 scopus 로고
    • The roles of mutation, inbreeding, crossbreeding and selection in evolution
    • S. Wright. The roles of mutation, inbreeding, crossbreeding and selection in evolution. Proceedings of the Sixth International Congress of Genetics, 1:356-366, 1932.
    • (1932) Proceedings of the Sixth International Congress of Genetics , vol.1 , pp. 356-366
    • Wright, S.1
  • 264
    • 0036733640 scopus 로고    scopus 로고
    • Computational prediction of eukaryotic protein-coding genes
    • M. Q. Zhang. Computational prediction of eukaryotic protein-coding genes. Nature Reviews Genetics, 3:698-709, 2002.
    • (2002) Nature Reviews Genetics , vol.3 , pp. 698-709
    • Zhang, M.Q.1
  • 265
    • 0002331493 scopus 로고
    • Molecular disease, evolution and heterogeneity
    • M. Kash and B. Pullman, editors, Academic Press, New York
    • E. Zuckerkandl and L. Pauling. Molecular disease, evolution and heterogeneity. In M. Kash and B. Pullman, editors, Horizons in Biochemistry, pages 189-225. Academic Press, New York, 1962.
    • (1962) Horizons in Biochemistry , pp. 189-225
    • Zuckerkandl, E.1    Pauling, L.2
  • 266
    • 0001895697 scopus 로고
    • Evolutionary divergence and convergence in proteins
    • V. Bryson and H. J. Vogel, editors, Academic Press, New York
    • E. Zuckerkandl and L. Pauling. Evolutionary divergence and convergence in proteins. In V. Bryson and H. J. Vogel, editors, Evolving Genes and Proteins, pages 97-166. Academic Press, New York, 1965.
    • (1965) Evolving Genes and Proteins , pp. 97-166
    • Zuckerkandl, E.1    Pauling, L.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.