메뉴 건너뛰기




Volumn 16, Issue 3, 1996, Pages 302-315

Approximation Algorithms for Tree Alignment with a Given Phylogeny

Author keywords

Approximation algorithm; Computational biology; Evolutionary tree; Phylogenetic tree; Steiner tree; Tree alignment

Indexed keywords


EID: 0000880429     PISSN: 01784617     EISSN: None     Source Type: Journal    
DOI: 10.1007/bf01955679     Document Type: Article
Times cited : (51)

References (27)
  • 1
    • 0000773502 scopus 로고
    • Trees, stars, and multiple sequence alignment
    • S. Altschul and D. Lipman, Trees, stars, and multiple sequence alignment, SIAM J. Appl. Math., 49 (1989), 197-209.
    • (1989) SIAM J. Appl. Math. , vol.49 , pp. 197-209
    • Altschul, S.1    Lipman, D.2
  • 3
    • 0024735782 scopus 로고
    • The Steiner problem with edge lengths 1 and 2
    • M. Bern and P. Plassmann, The Steiner problem with edge lengths 1 and 2, Inform. Process. Lett., 32 (1989), 171-176.
    • (1989) Inform. Process. Lett. , vol.32 , pp. 171-176
    • Bern, M.1    Plassmann, P.2
  • 4
    • 0000303438 scopus 로고
    • The multiple sequence alignment problem in biology
    • H. Carrillo and D. Lipman, The multiple sequence alignment problem in biology, SIAM J. Appl. Math., 48 (1988), 1073-1082.
    • (1988) SIAM J. Appl. Math. , vol.48 , pp. 1073-1082
    • Carrillo, H.1    Lipman, D.2
  • 5
    • 0026887079 scopus 로고
    • A survey of multiple sequence comparison methods
    • S. C. Chan, A. K. C. Wong, and D. K. T. Chiu, A survey of multiple sequence comparison methods, Bull. Math. Biol., 54(4) (1992), 563-598.
    • (1992) Bull. Math. Biol. , vol.54 , Issue.4 , pp. 563-598
    • Chan, S.C.1    Wong, A.K.C.2    Chiu, D.K.T.3
  • 7
    • 84959743928 scopus 로고
    • Methods for computing Wagner trees
    • J. S. Farris, Methods for computing Wagner trees, Systematic Zoology, 19 (1970), 83-92.
    • (1970) Systematic Zoology , vol.19 , pp. 83-92
    • Farris, J.S.1
  • 9
    • 0027351056 scopus 로고
    • Efficient methods for multiple sequence alignment with guaranteed error bounds
    • D. Gusfield, Efficient methods for multiple sequence alignment with guaranteed error bounds, Bull. Math. Biol., 55 (1993), 141-154.
    • (1993) Bull. Math. Biol. , vol.55 , pp. 141-154
    • Gusfield, D.1
  • 10
    • 0024769217 scopus 로고
    • A tree reconstruction method that is economical in the number of pairwise comparisons used
    • J. J. Hein, A tree reconstruction method that is economical in the number of pairwise comparisons used, Mol. Biol. Evol., 6(6) (1989), 669-684.
    • (1989) Mol. Biol. Evol. , vol.6 , Issue.6 , pp. 669-684
    • Hein, J.J.1
  • 11
    • 0024766957 scopus 로고
    • A new method that simultaneously aligns and reconstructs ancestral sequences for any number of homologous sequences, when the phylogeny is given
    • J. J. Hein, A new method that simultaneously aligns and reconstructs ancestral sequences for any number of homologous sequences, when the phylogeny is given, Mol. Biol. Evol., 6(6) (1989), 649-668.
    • (1989) Mol. Biol. Evol. , vol.6 , Issue.6 , pp. 649-668
    • Hein, J.J.1
  • 12
    • 84863090748 scopus 로고
    • Steiner tree problems
    • F. K. Hwang and D. S. Richards, Steiner tree problems, Networks, 22 (1992), 55-89.
    • (1992) Networks , vol.22 , pp. 55-89
    • Hwang, F.K.1    Richards, D.S.2
  • 13
    • 38249007996 scopus 로고
    • The shortest network under a given topology
    • F. K. Hwang and J. F. Weng, The shortest network under a given topology, J. Algorithms, 13 (1992), 468-488.
    • (1992) J. Algorithms , vol.13 , pp. 468-488
    • Hwang, F.K.1    Weng, J.F.2
  • 14
    • 0017523323 scopus 로고
    • Probabilistic analysis of partitioning algorithms for the traveling salesman problem in the plane
    • R. M. Karp, Probabilistic analysis of partitioning algorithms for the traveling salesman problem in the plane, Math. Oper. Res., 2 (1977), 209-224.
    • (1977) Math. Oper. Res. , vol.2 , pp. 209-224
    • Karp, R.M.1
  • 15
    • 0027148657 scopus 로고
    • Mapping the genome: Some combinatorial problems arising in molecular biology
    • R. M. Karp, Mapping the genome: some combinatorial problems arising in molecular biology, Proc. ACM Symp. on Theory of Computing, 1993, pp. 278-285.
    • (1993) Proc. ACM Symp. on Theory of Computing , pp. 278-285
    • Karp, R.M.1
  • 16
    • 84976809940 scopus 로고
    • Mapping and interpreting biological information
    • E. S. Lander, R. Langridge, and D. M. Saccocio, Mapping and interpreting biological information, Comm. ACM, 34(11) (1991), 33-39.
    • (1991) Comm. ACM , vol.34 , Issue.11 , pp. 33-39
    • Lander, E.S.1    Langridge, R.2    Saccocio, D.M.3
  • 17
    • 0026366408 scopus 로고
    • Optimization, approximation, and complexity classes
    • C. H. Papadimitriou and M. Yannakakis, Optimization, approximation, and complexity classes, J. Comput. System Sci., 43 (1991), 425-440.
    • (1991) J. Comput. System Sci. , vol.43 , pp. 425-440
    • Papadimitriou, C.H.1    Yannakakis, M.2
  • 18
    • 0017101259 scopus 로고
    • Criteria for optimising phylogenetic trees and the problem of determining the root of a tree
    • D. Penny, Criteria for optimising phylogenetic trees and the problem of determining the root of a tree, J. Mol. Evol., 8 (1976), 95-116.
    • (1976) J. Mol. Evol. , vol.8 , pp. 95-116
    • Penny, D.1
  • 19
    • 0016424695 scopus 로고
    • Minimal mutation trees of sequences
    • D. Sankoff, Minimal mutation trees of sequences, SIAM J. Appl. Math., 28(1) (1975), 35-42.
    • (1975) SIAM J. Appl. Math. , vol.28 , Issue.1 , pp. 35-42
    • Sankoff, D.1
  • 20
    • 0000459582 scopus 로고
    • Locating the vertices of a Steiner tree in an arbitrary metric space
    • D. Sankoff and P. Rousseau, Locating the vertices of a Steiner tree in an arbitrary metric space, Math. Programming, 9 (1975), 240-246.
    • (1975) Math. Programming , vol.9 , pp. 240-246
    • Sankoff, D.1    Rousseau, P.2
  • 23
    • 0017293845 scopus 로고
    • Frequency of insertion-deletion, transversion, and transition in the evolution of 5S ribosomal RNA
    • D. Sankoff, R. Cedergren, and G. Lapalme, Frequency of insertion-deletion, transversion, and transition in the evolution of 5S ribosomal RNA, J. Mol. Evol., 7 (1976), 133-149.
    • (1976) J. Mol. Evol. , vol.7 , pp. 133-149
    • Sankoff, D.1    Cedergren, R.2    Lapalme, G.3
  • 24
    • 0023375195 scopus 로고
    • The neighbor-joining method: A new method for reconstructing phylogenetic trees
    • N. Saitou and M. Nei, The neighbor-joining method: a new method for reconstructing phylogenetic trees, Mol. Biol. Evol., 4(4) (1987), 406-425.
    • (1987) Mol. Biol. Evol. , vol.4 , Issue.4 , pp. 406-425
    • Saitou, N.1    Nei, M.2
  • 25
    • 0028679709 scopus 로고
    • On the complexity of multiple sequence alignment
    • L. Wang and T. Jiang, On the complexity of multiple sequence alignment, J. Computat. Biol., 1(4) (1994), 337-348.
    • (1994) J. Computat. Biol. , vol.1 , Issue.4 , pp. 337-348
    • Wang, L.1    Jiang, T.2
  • 26
    • 0040260756 scopus 로고
    • Sequence alignments
    • M. S. Waterman (ed.), CRC, Boca Raton, FL
    • M. S. Waterman, Sequence alignments, in M. S. Waterman (ed.), Mathematical Methods for DNA Sequences, CRC, Boca Raton, FL, 1989, pp. 53-92.
    • (1989) Mathematical Methods for DNA Sequences , pp. 53-92
    • Waterman, M.S.1
  • 27
    • 0000220975 scopus 로고
    • Line geometries for sequence comparisons
    • M. S. Waterman and M. D. Perlwitz, Line geometries for sequence comparisons. Bull. Math. Biol., 46 (1984), 567-577.
    • (1984) Bull. Math. Biol. , vol.46 , pp. 567-577
    • Waterman, M.S.1    Perlwitz, M.D.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.