메뉴 건너뛰기




Volumn 55, Issue 5, 2008, Pages 960-969

The phasing of heterozygous traits: Algorithms and complexity

Author keywords

Clark's rule; Computational biology; Perfect phylogeny haplotyping; Pure parsimony haplotyping

Indexed keywords

BINARY DECISION DIAGRAMS; COMPUTATIONAL COMPLEXITY; LIVING SYSTEMS STUDIES; NUMBER THEORY; PROBLEM SOLVING;

EID: 38349141014     PISSN: 08981221     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.camwa.2006.12.089     Document Type: Article
Times cited : (4)

References (28)
  • 1
    • 0031834225 scopus 로고    scopus 로고
    • It's raining SNP, hallelujah?
    • Chakravarti A. It's raining SNP, hallelujah?. Nature Genetics 19 (1998) 216-217
    • (1998) Nature Genetics , vol.19 , pp. 216-217
    • Chakravarti, A.1
  • 4
    • 0034566245 scopus 로고    scopus 로고
    • A practical algorithm for optimal inference of haplotypes from diploid populations
    • Altman R., Bailey T.L., Bourne P., Gribskov M., Lengauer T., Shindyalov I.N., Ten Eyck L.F., and Weissig H. (Eds), AAAI Press, Menlo Park, CA
    • Gusfield D. A practical algorithm for optimal inference of haplotypes from diploid populations. In: Altman R., Bailey T.L., Bourne P., Gribskov M., Lengauer T., Shindyalov I.N., Ten Eyck L.F., and Weissig H. (Eds). Proceedings of the Annual International Conference on Intelligent Systems for Molecular Biology, ISMB (2000), AAAI Press, Menlo Park, CA 183-189
    • (2000) Proceedings of the Annual International Conference on Intelligent Systems for Molecular Biology, ISMB , pp. 183-189
    • Gusfield, D.1
  • 5
    • 0034812677 scopus 로고    scopus 로고
    • Inference of haplotypes from samples of diploid populations: Complexity and algorithms
    • Gusfield D. Inference of haplotypes from samples of diploid populations: Complexity and algorithms. Journal of Computational Biology 8 3 (2001) 305-324
    • (2001) Journal of Computational Biology , vol.8 , Issue.3 , pp. 305-324
    • Gusfield, D.1
  • 6
    • 33644509032 scopus 로고    scopus 로고
    • Haplotype inference by pure parsimony
    • Proceedings of the Annual Symposium on Combinatorial Pattern Matching, CPM, Springer
    • Gusfield D. Haplotype inference by pure parsimony. Proceedings of the Annual Symposium on Combinatorial Pattern Matching, CPM. Lecture Notes in Computer Science vol. 2676 (2003), Springer 144-155
    • (2003) Lecture Notes in Computer Science , vol.2676 , pp. 144-155
    • Gusfield, D.1
  • 7
    • 10044241629 scopus 로고    scopus 로고
    • Haplotyping populations by pure parsimony: Complexity, exact and approximation algorithms
    • Lancia G., Pinotti C., and Rizzi R. Haplotyping populations by pure parsimony: Complexity, exact and approximation algorithms. INFORMS Journal on Computing 16 4 (2004) 17-29
    • (2004) INFORMS Journal on Computing , vol.16 , Issue.4 , pp. 17-29
    • Lancia, G.1    Pinotti, C.2    Rizzi, R.3
  • 8
    • 33751173122 scopus 로고    scopus 로고
    • A new integer programming formulation for the pure parsimony problem in haplotype analysis
    • Proceedings of Annual Workshop on Algorithms in Bioinformatics, WABI, Springer
    • Brown D.G., and Harrower J.M. A new integer programming formulation for the pure parsimony problem in haplotype analysis. Proceedings of Annual Workshop on Algorithms in Bioinformatics, WABI. Lecture Notes in Computer Science (2004), Springer 254-265
    • (2004) Lecture Notes in Computer Science , pp. 254-265
    • Brown, D.G.1    Harrower, J.M.2
  • 11
    • 38349131277 scopus 로고    scopus 로고
    • G. Lancia, R. Ravi, R. Rizzi, Haplotyping for disease association, Technical Report, Dipartimento di Matematica e Informatica, University of Udine, Udine, Italy, 2005 (submitted for publication)
  • 12
    • 0035071957 scopus 로고    scopus 로고
    • A new statistical method for haplotype reconstruction from population data
    • Stephens M., Smith N., and Donnelly P. A new statistical method for haplotype reconstruction from population data. American Journal of Human Genetics 68 (2001) 978-989
    • (2001) American Journal of Human Genetics , vol.68 , pp. 978-989
    • Stephens, M.1    Smith, N.2    Donnelly, P.3
  • 14
    • 0025269067 scopus 로고
    • Inference of haplotypes from PCR-amplified samples of diploid populations
    • Clark A. Inference of haplotypes from PCR-amplified samples of diploid populations. Molecular Biology Evolution 7 (1990) 111-122
    • (1990) Molecular Biology Evolution , vol.7 , pp. 111-122
    • Clark, A.1
  • 15
    • 38349188106 scopus 로고    scopus 로고
    • D. Gusfield, Inference of haplotypes from PCR - Amplified samples of diploid populations: Complexity and algorithms, Technical Report cse-99-6, University of California at Davis, Deptartment of Computer Science, Davis, CA, 1999
  • 17
    • 38349087455 scopus 로고    scopus 로고
    • E. Hubbel, Unpublished manuscript, 2002
  • 18
    • 32644447096 scopus 로고    scopus 로고
    • A polynomial solution to a special case of the parsimony haplotyping problem
    • Lancia G., and Rizzi R. A polynomial solution to a special case of the parsimony haplotyping problem. Operations Research Letters 34 3 (2006) 289-295
    • (2006) Operations Research Letters , vol.34 , Issue.3 , pp. 289-295
    • Lancia, G.1    Rizzi, R.2
  • 19
    • 35048855546 scopus 로고    scopus 로고
    • A survey of computational methods for determining haplotypes
    • Computational Methods for SNP and Haplotype Inference: DIMACS/RECOMB Satellite Workshop, Springer
    • Halldórsson B.V., Bafna V., Edwards N., Lippert R., Yooseph S., and Istrail S. A survey of computational methods for determining haplotypes. Computational Methods for SNP and Haplotype Inference: DIMACS/RECOMB Satellite Workshop. Lecture Notes in Computer Science vol. 2983 (2004), Springer 26-47
    • (2004) Lecture Notes in Computer Science , vol.2983 , pp. 26-47
    • Halldórsson, B.V.1    Bafna, V.2    Edwards, N.3    Lippert, R.4    Yooseph, S.5    Istrail, S.6
  • 20
    • 38349095801 scopus 로고    scopus 로고
    • D.G. Brown, J.M. Harrower, A new formulation for haplotype inference by pure parsimony, Technical Report CS-2005-03, University of Waterloo, Department of Computer Science, Waterloo, Canada, 2005
  • 21
    • 38349115897 scopus 로고    scopus 로고
    • K. Kalpakis, P. Namjoshi, Haplotype phasing using semidefinite programming, Technical Report, 2004
  • 22
    • 33644502168 scopus 로고    scopus 로고
    • Y.T. Huang, K.M. Chao, T. Chen, An approximation algorithm for haplotype inference by maximum parsimony, in: ACM Symposium on Applied Computing, SAC, 2005, pp. 146-150
  • 23
    • 0141617556 scopus 로고    scopus 로고
    • Haplotype inference by maximum parsimony
    • Wang L., and Xu Y. Haplotype inference by maximum parsimony. Bioinformatics 19 14 (2003) 1773-1780
    • (2003) Bioinformatics , vol.19 , Issue.14 , pp. 1773-1780
    • Wang, L.1    Xu, Y.2
  • 24
    • 38349175878 scopus 로고    scopus 로고
    • L. Tininini, P. Bertolazzi, A. Godi, Haplotype inference for large datasets, Technical Report, Istituto dei Sistemi Antonio Ruberti, CNR, Roma, Italy, 2005
  • 26
    • 0036374329 scopus 로고    scopus 로고
    • Haplotyping as perfect phylogeny: Conceptual framework and efficient solutions
    • Myers G., Hannenhalli S., Istrail S., Pevzner P., and Waterman M. (Eds), ACM Press, New York, NY
    • Gusfield D. Haplotyping as perfect phylogeny: Conceptual framework and efficient solutions. In: Myers G., Hannenhalli S., Istrail S., Pevzner P., and Waterman M. (Eds). Proceedings of the Annual International Conference on Computational Molecular Biology (RECOMB) (2002), ACM Press, New York, NY 166-175
    • (2002) Proceedings of the Annual International Conference on Computational Molecular Biology (RECOMB) , pp. 166-175
    • Gusfield, D.1
  • 28
    • 4544326903 scopus 로고    scopus 로고
    • Opportunities for combinatorial optimization in computational biology
    • Greenberg H., Hart W., and Lancia G. Opportunities for combinatorial optimization in computational biology. INFORMS Journal on Computing 16 3 (2004) 1-22
    • (2004) INFORMS Journal on Computing , vol.16 , Issue.3 , pp. 1-22
    • Greenberg, H.1    Hart, W.2    Lancia, G.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.