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Volumn 26, Issue 4, 2012, Pages 1635-1656

Cycle killer⋯ qu'est-ce que c'est? On the comparative approximability of hybridization number and directed feedback vertex set

Author keywords

Approximation; Directed feedback vertex set; Hybridization number; Phylogenetic networks

Indexed keywords

APPROXIMABILITY; APPROXIMATION; CONSTANT FACTORS; DIRECTED ACYCLIC GRAPH (DAG); FEEDBACK VERTEX SET; HYBRIDIZATION NUMBER; INAPPROXIMABILITY; PHYLOGENETIC NETWORKS; PHYLOGENETIC TREES; POLYNOMIAL TIME APPROXIMATION; VERTEX COVER;

EID: 84871559037     PISSN: 08954801     EISSN: None     Source Type: Journal    
DOI: 10.1137/120864350     Document Type: Article
Times cited : (23)

References (41)
  • 1
    • 0000113012 scopus 로고    scopus 로고
    • A 2-Approximation algorithm for the undirected feedback vertex set problem
    • PII S0895480196305124
    • V. BAFNA, P. BERMAN, AND T. FUJITO, A 2-approximatio n algorithm for the undirected feedback vertex set problem, SIAM J. Discrete Math., 12(1999), pp. 289-297. (Pubitemid 129643163)
    • (1999) SIAM Journal on Discrete Mathematics , vol.12 , Issue.3 , pp. 289-297
    • Bafna, V.1    Berman, P.2    Fujito, T.3
  • 2
    • 22844448185 scopus 로고    scopus 로고
    • Bounding the number of hybridisation events for a consistent evolutionary history
    • DOI 10.1007/s00285-005-0315-9
    • M. BARONI, S. GRÜNEWALD, V. MOULTON, AND C. SEMPLE, Bounding the number of hybridisation events for a consistent evolutionary history, J. Math. Biol., 51(2005), pp. 171-182. (Pubitemid 41040209)
    • (2005) Journal of Mathematical Biology , vol.51 , Issue.2 , pp. 171-182
    • Baroni, M.1    Grunewald, S.2    Moulton, V.3    Semple, C.4
  • 3
    • 13844296576 scopus 로고    scopus 로고
    • A Framework for Representing Reticulate Evolution
    • DOI 10.1007/s00026-004-0228-0
    • M. BARONI, C. SEMPLE, AND M. STEEL, A framework for representing reticulate evolution, Ann. Comb., 8(2004), pp. 391-408. (Pubitemid 40167161)
    • (2004) Annals of Combinatorics , vol.8 , Issue.4 , pp. 391-408
    • Baroni, M.1    Semple, C.2    Steel, M.3
  • 5
    • 41049088296 scopus 로고    scopus 로고
    • A reduction algorithm for computing the hybridization number of two trees
    • M. BORDEWICH, S. LINZ, K. S. JOHN, AND C. SEMPLE, A reduction algorithm for computing the hybridization number of two trees, Evolutionary Bioinformatics, 3(2007), pp. 86-98.
    • (2007) Evolutionary Bioinformatics , vol.3 , pp. 86-98
    • Bordewich, M.1    Linz, S.2    John, K.S.3    Semple, C.4
  • 6
    • 47549103966 scopus 로고    scopus 로고
    • A 3-approximation algorithm for the subtree distance between phylogenies
    • M. BORDEWICH, C. MCCARTIN, AND C. SEMPLE, A 3-approximation algorithm for the subtree distance between phylogenies, J. Discrete Algorithms, 6(2008), pp. 458-471.
    • (2008) J. Discrete Algorithms , vol.6 , pp. 458-471
    • Bordewich, M.1    McCartin, C.2    Semple, C.3
  • 7
    • 34547977053 scopus 로고    scopus 로고
    • Computing the hybridization number of two phylogenetic trees is fixed-parameter tractable
    • DOI 10.1109/TCBB.2007.1019
    • M. BORDEWICH AND C. SEMPLE, Computing the hybridization number of two phylogenetic trees is fixed-parameter tractable, IEEE/ACM Trans. Comput. Biol. Bioinformatics, 4(2007), pp. 458-466. (Pubitemid 47274721)
    • (2007) IEEE/ACM Transactions on Computational Biology and Bioinformatics , vol.4 , Issue.3 , pp. 458-466
    • Bordewich, M.1    Semple, C.2
  • 8
    • 33947231094 scopus 로고    scopus 로고
    • Computing the minimum number of hybridization events for a consistent evolutionary history
    • DOI 10.1016/j.dam.2006.08.008, PII S0166218X06003957
    • M. BORDEWICH AND C. SEMPLE, Computing the minimum number of hybridization events for a consistent evolutionary history, Discrete Appl. Math., 155(2007), pp. 914-928. (Pubitemid 46436152)
    • (2007) Discrete Applied Mathematics , vol.155 , Issue.8 , pp. 914-928
    • Bordewich, M.1    Semple, C.2
  • 9
    • 56349086571 scopus 로고    scopus 로고
    • A fixed-parameter algorithm for the directed feedback vertex set problem
    • J. CHEN, Y. LIU, S. LU, B. O'SULLIVAN, AND I. RAZGON, A fixed-parameter algorithm for the directed feedback vertex set problem, J. ACM, 55(2008), 21.
    • (2008) J. ACM , vol.55 , pp. 21
    • Chen, J.1    Liu, Y.2    Lu, S.3    O'Sullivan, B.4    Razgon, I.5
  • 10
    • 78149247301 scopus 로고    scopus 로고
    • Hybridnet: A tool for constructing hybridization networks
    • Z.-Z. CHEN AND L. WANG, Hybridnet: a tool for constructing hybridization networks, Bioinformatics, 26(2010), pp. 2912-2913.
    • (2010) Bioinformatics , vol.26 , pp. 2912-2913
    • Chen, Z.-Z.1    Wang, L.2
  • 11
    • 80053108302 scopus 로고    scopus 로고
    • Quantifying hybridization in realistic time
    • J. COLLINS, S. LINZ, AND C. SEMPLE, Quantifying hybridization in realistic time, J. Comput. Biol., 18(2011), pp. 1305-1318.
    • (2011) J. Comput. Biol. , vol.18 , pp. 1305-1318
    • Collins, J.1    Linz, S.2    Semple, C.3
  • 13
    • 29844440416 scopus 로고    scopus 로고
    • On the hardness of approximating minimum vertex cover
    • I. DINUR AND S. SAFRA, On the hardness of approximating minimum vertex cover, Ann. of Math. (2), 162(2004), pp. 439-485.
    • (2004) Ann. of Math. , vol.162 , Issue.2 , pp. 439-485
    • Dinur, I.1    Safra, S.2
  • 15
    • 0000255727 scopus 로고    scopus 로고
    • Approximating minimum feedback sets and multicuts in directed graphs
    • G. EVEN, J. NAOR, B. SCHIEBER, AND M. SUDAN, Approximating minimum feedback sets and multicuts in directed graphs, Algorithmica, 20(1998), pp. 151-174. (Pubitemid 128663382)
    • (1998) Algorithmica (New York) , vol.20 , Issue.2 , pp. 151-174
    • Even, G.1    Naor, J.2    Schieber, B.3    Sudan, M.4
  • 19
    • 62549117659 scopus 로고    scopus 로고
    • Fixed-parameter algorithms in phylogenetics
    • J. GRAMM, A. NICKELSEN, AND T. TANTAU, Fixed-parameter algorithms in phylogenetics, The Computer J., 51(2008), pp. 79-101.
    • (2008) The Computer J. , vol.51 , pp. 79-101
    • Gramm, J.1    Nickelsen, A.2    Tantau, T.3
  • 20
    • 0002291589 scopus 로고    scopus 로고
    • On the complexity of comparing evolutionary trees
    • PII S0166218X96000625
    • J. HEIN, T. JING, L. WANG, AND K. ZHANG, On the complexity of comparing evolutionary trees, Discrete Appl. Math., 71(1996), pp. 153-169. (Pubitemid 126391777)
    • (1996) Discrete Applied Mathematics , vol.71 , Issue.1-3 , pp. 153-169
    • Hein, J.1    Jiang, T.2    Wang, L.3    Zhang, K.4
  • 21
    • 61349203861 scopus 로고    scopus 로고
    • Note on the hybridization number and subtree distance in phylogenetics
    • P. J. HUMPHRIES AND C. SEMPLE, Note on the hybridization number and subtree distance in phylogenetics, Appl. Math. Lett., 22(2009), pp. 611-615.
    • (2009) Appl. Math. Lett. , vol.22 , pp. 611-615
    • Humphries, P.J.1    Semple, C.2
  • 24
    • 79954427560 scopus 로고    scopus 로고
    • A survey of combinatorial methods for phylogenetic networks
    • D. H. HUSON AND C. SCORNAVACCA, A survey of combinatorial methods for phylogenetic networks, Genome Biology and Evolution, 3(2011), pp. 23-35.
    • (2011) Genome Biology and Evolution , vol.3 , pp. 23-35
    • Huson, D.H.1    Scornavacca, C.2
  • 25
    • 0004116427 scopus 로고
    • Ph. D. thesis, Department of Numerical Analysis and Computing Science, Royal Institute of Technology, Stockholm
    • V. KANN, On the Approximability of NP-Complete Optimization Problems, Ph. D. thesis, Department of Numerical Analysis and Computing Science, Royal Institute of Technology, Stockholm, 1992.
    • (1992) On the Approximability of NP-complete Optimization Problems
    • Kann, V.1
  • 29
    • 38149105774 scopus 로고    scopus 로고
    • Vertex cover might be hard to approximate to within 2-e
    • S. KHOT AND O. REGEV, Vertex cover might be hard to approximate to within 2-e, J. Comput. System Sci., 74(2008), pp. 335-349.
    • (2008) J. Comput. System Sci. , vol.74 , pp. 335-349
    • Khot, S.1    Regev, O.2
  • 32
    • 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), pp. 425-440.
    • (1991) J. Comput. System Sci. , vol.43 , pp. 425-440
    • Papadimitriou, C.H.1    Yannakakis, M.2
  • 33
    • 33947392953 scopus 로고    scopus 로고
    • The maximum agreement forest problem: Approximation algorithms and computational experiments
    • DOI 10.1016/j.tcs.2006.12.011, PII S0304397506008930
    • E. RODRIGUES, M. SAGOT, AND Y. WAKABAYASHI, The maximum agreement forest problem: Approximation algorithms and computational experiments, Theoret. Comput. Sci., 374(2007), pp. 91-110. (Pubitemid 46452973)
    • (2007) Theoretical Computer Science , vol.374 , Issue.1-3 , pp. 91-110
    • Rodrigues, E.M.1    Sagot, M.-F.2    Wakabayashi, Y.3
  • 34
    • 84871546403 scopus 로고    scopus 로고
    • A first step towards computing all hybridization networks for two rooted binary phylogenetic trees
    • to appear
    • C. SCORNAVACCA, S. LINZ, AND B. ALBRECHT, A first step towards computing all hybridization networks for two rooted binary phylogenetic trees, J. Comput. Biol., to appear.
    • J. Comput. Biol.
    • Scornavacca, C.1    Linz, S.2    Albrecht, B.3
  • 36
  • 37
    • 34249756824 scopus 로고
    • Packing directed circuits fractionally
    • P. D. SEYMOUR, Packing directed circuits fractionally, Combinatorica, 15(1995), pp. 281-288.
    • (1995) Combinatorica , vol.15 , pp. 281-288
    • Seymour, P.D.1
  • 41
    • 70350370655 scopus 로고    scopus 로고
    • A unifying view on approximation and FPT of agreement forests
    • S. Salzberg and T. Warnow, eds., Lecture Notes in Comput. Sci, Springer-Verlag, Berlin
    • C. WHIDDEN AND N. ZEH, A unifying view on approximation and FPT of agreement forests, in Algorithms in Bioinformatics, S. Salzberg and T. Warnow, eds., Lecture Notes in Comput. Sci. 5724, Springer-Verlag, Berlin, 2009, pp. 390-402.
    • (2009) Algorithms in Bioinformatics , vol.5724 , pp. 390-402
    • Whidden, C.1    Zeh, N.2


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