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Volumn 28, Issue 3, 2011, Pages 390-403

TreeOfTrees Method to Evaluate the Congruence Between Gene Trees

Author keywords

Congruence; Gene trees; Phylogeny; Tree of trees

Indexed keywords


EID: 81455154360     PISSN: 01764268     EISSN: 14321343     Source Type: Journal    
DOI: 10.1007/s00357-011-9093-9     Document Type: Article
Times cited : (8)

References (29)
  • 1
    • 0347512294 scopus 로고    scopus 로고
    • Subtree Transfer Operations and Their Induced Metrics on Evolutionary Trees
    • ALLEN, B. L., and STEEL, M. (2001), "Subtree Transfer Operations and Their Induced Metrics on Evolutionary Trees", Annals of Combinatorics, 5, 1-15.
    • (2001) Annals of Combinatorics , vol.5 , pp. 1-15
    • Allen, B.L.1    Steel, M.2
  • 3
    • 36549003111 scopus 로고    scopus 로고
    • A Congruence Index for Testing Topological Similarity Between Trees
    • DE VIENNE, D. M., GIRAUD, T., and MARTIN, O. C. (2007), "A Congruence Index for Testing Topological Similarity Between Trees", Bioinformatics, 23, 3119-3124.
    • (2007) Bioinformatics , vol.23 , pp. 3119-3124
    • de Vienne, D.M.1    Giraud, T.2    Martin, O.C.3
  • 4
    • 34347256397 scopus 로고    scopus 로고
    • High Resolution Species TreesWithout Concatenation
    • EDWARDS, S. V., LIU, L., and PEARL, D. K. (2007), "High Resolution Species TreesWithout Concatenation", PNAS, 104(14), 5936-5941.
    • (2007) Pnas , vol.104 , Issue.14 , pp. 5936-5941
    • Edwards, S.V.1    Liu, L.2    Pearl, D.K.3
  • 5
    • 84959752542 scopus 로고
    • Comparison of Undirected Phylogenetic Trees Based on Subtrees of 4 Evolutionary Units
    • ESTABROOK, G. F., McMORRIS, F. R., and MEACHAM, C. A. (1985), "Comparison of Undirected Phylogenetic Trees Based on Subtrees of 4 Evolutionary Units", Systematic Zoology, 34, 193-200.
    • (1985) Systematic Zoology , vol.34 , pp. 193-200
    • Estabrook, G.F.1    McMorris, F.R.2    Meacham, C.A.3
  • 9
    • 0032226179 scopus 로고    scopus 로고
    • Phylogenetic Congruence and Discordance Among One Morphological and Three Molecular Data Sets from Pontederiaceae
    • GRAHAM, S. W., KOHN, J. R., MORTON, J. R., ECKENWALDER, J. E., and BARRET, S. C. (1998), "Phylogenetic Congruence and Discordance Among One Morphological and Three Molecular Data Sets from Pontederiaceae", Systematic Biology, 47, 545-567.
    • (1998) Systematic Biology , vol.47 , pp. 545-567
    • Graham, S.W.1    Kohn, J.R.2    Morton, J.R.3    Eckenwalder, J.E.4    Barret, S.C.5
  • 10
    • 0042137243 scopus 로고    scopus 로고
    • Ordinal Properties of Tree Distances
    • GUENOCHE, A. (1998), "Ordinal Properties of Tree Distances", Discrete Mathematics, 192, 103-117.
    • (1998) Discrete Mathematics , vol.192 , pp. 103-117
    • Guenoche, A.1
  • 11
    • 84959043543 scopus 로고    scopus 로고
    • Can We Have Confidence in a Tree Representation?
    • LNCS 2066, eds. O. Gascuel and M. F. Sagot, Springer
    • GUENOCHE, A., and GARRETA, H. (2001), "Can We Have Confidence in a Tree Representation?" in Computational Biology, LNCS 2066, eds. O. Gascuel and M. F. Sagot, Springer, pp. 43-53.
    • (2001) Computational Biology , pp. 43-53
    • Guenoche, A.1    Garreta, H.2
  • 12
    • 0242578620 scopus 로고    scopus 로고
    • A Simple, Fast and Accurate Algorithm to Estimate Large Phylogenies by Maximum Likelihood
    • GUINDON, S., and GASCUEL, O. (2003),"A Simple, Fast and Accurate Algorithm to Estimate Large Phylogenies by Maximum Likelihood", Systematic Biology, 52, 696-704.
    • (2003) Systematic Biology , vol.52 , pp. 696-704
    • Guindon, S.1    Gascuel, O.2
  • 13
    • 11844295999 scopus 로고    scopus 로고
    • Assessing the Congruence Among Distance Matrices: Single Malt Scotch Whiskies Revisited
    • LEGENDRE, P., and LAPOINTE, F. J. (2004), "Assessing the Congruence Among Distance Matrices: Single Malt Scotch Whiskies Revisited", Australian & New Zealand Journal of Statistics, 46, 615-629.
    • (2004) Australian & New Zealand Journal of Statistics , vol.46 , pp. 615-629
    • Legendre, P.1    Lapointe, F.J.2
  • 15
    • 47249109137 scopus 로고    scopus 로고
    • Trees of Trees: An Approach to Comparing Multiple Alternative Phylogenies
    • NYE, T. M. W. (2008), "Trees of Trees: An Approach to Comparing Multiple Alternative Phylogenies", Systematic Biology, 57, 785-794.
    • (2008) Systematic Biology , vol.57 , pp. 785-794
    • Nye, T.M.W.1
  • 16
    • 57249105119 scopus 로고    scopus 로고
    • AUGIST: Inferring Species TreesWhile Accommodating Gene Tree Uncertainty
    • OLIVER, J. C. (2008), "AUGIST: Inferring Species TreesWhile Accommodating Gene Tree Uncertainty", Bioinformatics, 24, 2932-2933.
    • (2008) Bioinformatics , vol.24 , pp. 2932-2933
    • Oliver, J.C.1
  • 17
    • 12044252724 scopus 로고
    • Trees from Languages and Genes Are Very Similar
    • PENNY, D., WATSON, E. E., and STEEL, M. (1993), "Trees from Languages and Genes Are Very Similar", Systematic Biology, 42, 382-384.
    • (1993) Systematic Biology , vol.42 , pp. 382-384
    • Penny, D.1    Watson, E.E.2    Steel, M.3
  • 18
    • 81455140323 scopus 로고    scopus 로고
    • PHYLIP (Phylogeny Inference Package) Version 3. 6 Seattle: Department of Genome Sciences, University of Washington
    • PHYLIP (Phylogeny Inference Package) Version 3. 6 (2004), Seattle: Department of Genome Sciences, University of Washington.
    • (2004)
  • 19
    • 34547844062 scopus 로고    scopus 로고
    • TOPD/FMTS: A New Software to Compare Phylogenetic Trees
    • PUIGBO, P., GARCIA-VALLVE, S., and McINERNEY, J. O. (2007), "TOPD/FMTS: A New Software to Compare Phylogenetic Trees", Bioinformatics, 23, 1556-1558.
    • (2007) Bioinformatics , vol.23 , pp. 1556-1558
    • Puigbo, P.1    Garcia-Vallve, S.2    McInerney, J.O.3
  • 20
    • 0030928378 scopus 로고    scopus 로고
    • SeqGen: An Application for the Monte-Carlo Simulation of DNA Sequence Evolution Along Phylogenetic Trees
    • RAMBAUT, A., and GRASSLY, N. C. (1997), "SeqGen: An Application for the Monte- Carlo Simulation of DNA Sequence Evolution Along Phylogenetic Trees", Computer Applications in the Biosciences, 13, 235-238.
    • (1997) Computer Applications in the Biosciences , vol.13 , pp. 235-238
    • Rambaut, A.1    Grassly, N.C.2
  • 21
    • 0242365676 scopus 로고    scopus 로고
    • Genome-scale Approaches to Resolving Incongruence in Molecular Phylogenies
    • ROKAS, A., WILLIAMS, B. L., KING, M., and CAROLL, S. B. (2003), "Genome-scale Approaches to Resolving Incongruence in Molecular Phylogenies", Nature, 425, 798-804.
    • (2003) Nature , vol.425 , pp. 798-804
    • Rokas, A.1    Williams, B.L.2    King, M.3    Caroll, S.B.4
  • 23
    • 0023375195 scopus 로고
    • The Neighbor-Joining Method: A New Method for Reconstructing Phylogenetic Trees
    • SAITOU, N., and Nei, M. (1987), "The Neighbor-Joining Method: A New Method for Reconstructing Phylogenetic Trees", Molecular Biology and Evolution, 4(4), 406-425.
    • (1987) Molecular Biology and Evolution , vol.4 , Issue.4 , pp. 406-425
    • Saitou, N.1    Nei, M.2
  • 24
    • 59249100632 scopus 로고    scopus 로고
    • Role of Intraspecies Recombination in the Spread of Pathogenicity Islands Within the Escherichia Coli Species
    • SCHUBERT, S., DARLU, P., CLERMONT, O. et al. (2009), "Role of Intraspecies Recombination in the Spread of Pathogenicity Islands Within the Escherichia Coli Species", PLoSpathogens, (5(1)e1000257).
    • (2009) PLoSpathogens , vol.5 , Issue.1
    • Schubert, S.1    Darlu, P.2    Clermont, O.3
  • 25
    • 0042601470 scopus 로고    scopus 로고
    • Oxford: Oxford University Press
    • SEMPLE, C., and STEEL, M. (2003), Phylogenetics, Oxford: Oxford University Press.
    • (2003) Phylogenetics
    • Semple, C.1    Steel, M.2
  • 26
    • 0032766857 scopus 로고    scopus 로고
    • Multiple Comparisons of Log-likelihoods with Applications to Phylogenetic Inference
    • SHIMODAIRA, H., and HASEGAWA, M. (1999), "Multiple Comparisons of Log-likelihoods with Applications to Phylogenetic Inference", Molecular Biology and Evolution, 16, 1114-1116.
    • (1999) Molecular Biology and Evolution , vol.16 , pp. 1114-1116
    • Shimodaira, H.1    Hasegawa, M.2
  • 27
    • 0027912455 scopus 로고
    • Kaikoura Tree Theorems: Computing the Maximum Agreement Subtree
    • STEEL M., and WARNOW T. (1993), "Kaikoura Tree Theorems: Computing the Maximum Agreement Subtree", Information Processing Letters, 48(2), 77-82.
    • (1993) Information Processing Letters , vol.48 , Issue.2 , pp. 77-82
    • Steel, M.1    Warnow, T.2
  • 28
    • 34250380386 scopus 로고    scopus 로고
    • Confounding Factors in HGT Detection: Statistical Error, Coalescent Effects, and Multiple Solutions
    • THAN, C., RUTHS, D., INNAN, H., and NAKHLEH, L. (2007) "Confounding Factors in HGT Detection: Statistical Error, Coalescent Effects, and Multiple Solutions", Journal of Computational Biology, 14(4), 517-535.
    • (2007) Journal of Computational Biology , vol.14 , Issue.4 , pp. 517-535
    • Than, C.1    Ruths, D.2    Innan, H.3    Nakhleh, L.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.