메뉴 건너뛰기




Volumn 5, Issue 2, 2005, Pages 111-128

An algorithm for linear metabolic pathway alignment

Author keywords

Algorithm; Alignment; Metabolic pathways; PathAligner

Indexed keywords

ARTICLE; BIOINFORMATICS; CATALYSIS; CELL METABOLISM; COMPUTER INTERFACE; COMPUTER PROGRAM; COMPUTER SYSTEM; ENZYME MECHANISM; GENETIC ALGORITHM; GENETIC ANALYSIS; GENETIC DATABASE; INTERNET; MATHEMATICAL COMPUTING; METABOLITE; PREDICTION; PROCESS MODEL; SEQUENCE ALIGNMENT; THEORY;

EID: 22144469862     PISSN: 13866338     EISSN: None     Source Type: Journal    
DOI: None     Document Type: Article
Times cited : (12)

References (32)
  • 3
    • 0347125207 scopus 로고    scopus 로고
    • STCDB: Signal Transduction Classification Database
    • Chen, M., Lin, S. and Hofestaedt, R. (2004). STCDB: Signal Transduction Classification Database. Nucleic Acids Res. 32, D456-458.
    • (2004) Nucleic Acids Res. , vol.32
    • Chen, M.1    Lin, S.2    Hofestaedt, R.3
  • 4
    • 22144433573 scopus 로고    scopus 로고
    • PathAligner: Metabolic pathway retrieval and alignment
    • Chen, M. and Hofestädt, R. (2004). PathAligner: Metabolic pathway retrieval and alignment. Appl. Bioinformatics 3, 241-252.
    • (2004) Appl. Bioinformatics , vol.3 , pp. 241-252
    • Chen, M.1    Hofestädt, R.2
  • 6
    • 0033215210 scopus 로고    scopus 로고
    • Pathway alignment: Application to the comparative analysis of glycolytic enzymes
    • Dandekar, T., Schuster S., Snel B., Huynen, M. and Bork, P. (1999). Pathway alignment: Application to the comparative analysis of glycolytic enzymes. Biochem. J. 1, 115-124.
    • (1999) Biochem. J. , vol.1 , pp. 115-124
    • Dandekar, T.1    Schuster, S.2    Snel, B.3    Huynen, M.4    Bork, P.5
  • 7
    • 0032744302 scopus 로고    scopus 로고
    • Evolution of metabolisms: A new method for the comparison of metabolic pathways using genomics information
    • Forst, C. V. and Schulten, K. (1999). Evolution of metabolisms: A new method for the comparison of metabolic pathways using genomics information. J. Comput. Biol. 6, 343-360.
    • (1999) J. Comput. Biol. , vol.6 , pp. 343-360
    • Forst, C.V.1    Schulten, K.2
  • 8
    • 0034991456 scopus 로고    scopus 로고
    • Phylogenetic Analysis of Metabolic Pathways
    • Forst, C. V. and Schulten, K. (2001). Phylogenetic Analysis of Metabolic Pathways. J. Mol. Evol. 52, 471-489.
    • (2001) J. Mol. Evol. , vol.52 , pp. 471-489
    • Forst, C.V.1    Schulten, K.2
  • 9
    • 0030878161 scopus 로고    scopus 로고
    • Theoretical biology. A robust view of biochemical pathways
    • Hartwell, L. (1997). Theoretical biology. A robust view of biochemical pathways. Nature 387, 855-857.
    • (1997) Nature , vol.387 , pp. 855-857
    • Hartwell, L.1
  • 10
    • 4944219668 scopus 로고    scopus 로고
    • Deriving phylogenetic trees from the similarity analysis of metabolic pathways
    • Heymans, M. and Singh, A. K. (2003). Deriving phylogenetic trees from the similarity analysis of metabolic pathways. Bioinformatics 19, i138-i146.
    • (2003) Bioinformatics , vol.19
    • Heymans, M.1    Singh, A.K.2
  • 11
    • 0001260894 scopus 로고
    • On the evolution of biochemical syntheses
    • Horowitz, N. H. (1945). On the evolution of biochemical syntheses. Proc. Natl. Acad. Sci. USA 31, 153-157.
    • (1945) Proc. Natl. Acad. Sci. USA , vol.31 , pp. 153-157
    • Horowitz, N.H.1
  • 12
    • 0017272554 scopus 로고
    • Enzyme recruitment in evolution of new function
    • Jensen, R. A. (1976). Enzyme recruitment in evolution of new function. Annu. Rev. Microbiol. 30, 409-425.
    • (1976) Annu. Rev. Microbiol. , vol.30 , pp. 409-425
    • Jensen, R.A.1
  • 15
    • 0001116877 scopus 로고
    • Binary codes capable of correcting deletions, insertions and reversals
    • Levenshtein, V. (1966). Binary codes capable of correcting deletions, insertions and reversals. Soviet Physics doklady 6, 707-710.
    • (1966) Soviet Physics Doklady , vol.6 , pp. 707-710
    • Levenshtein, V.1
  • 17
    • 0345428542 scopus 로고
    • Computational methods for complex metabolic systems: Representation of multiple levels of detail
    • Lim H. A. and Cantor, C.R. (eds.)
    • Mavrovouniotis, M. L. (1995). Computational methods for complex metabolic systems: Representation of multiple levels of detail. In,: Lim H. A. and Cantor, C.R. (eds.), Bioinformatics & Genome Research, World Scientific. pp. 265-273.
    • (1995) Bioinformatics & Genome Research, World Scientific , pp. 265-273
    • Mavrovouniotis, M.L.1
  • 19
    • 0014757386 scopus 로고
    • Needleman-Wunsch Algorithm for Sequence Similarity Searches
    • Needleman, S. B and Wunsch, C. D. (1970). Needleman-Wunsch Algorithm for Sequence Similarity Searches. J. Mol. Biol. 48, 443-453.
    • (1970) J. Mol. Biol. , vol.48 , pp. 443-453
    • Needleman, S.B.1    Wunsch, C.D.2
  • 20
    • 0031850628 scopus 로고    scopus 로고
    • Computation with the KEGG pathway database
    • Ogata, H., Goto, S., Fujibuchi, W. and Kanehisa, M. (1998). Computation with the KEGG pathway database. BioSystems 47, 119-128.
    • (1998) BioSystems , vol.47 , pp. 119-128
    • Ogata, H.1    Goto, S.2    Fujibuchi, W.3    Kanehisa, M.4
  • 22
    • 0023989064 scopus 로고
    • Improved tools for biological sequence comparison
    • Pearson, W. R. and Lipman, D. J. (1988). Improved tools for biological sequence comparison. Proc. Natl. Acad. Sci. USA 85, 2444-2448.
    • (1988) Proc. Natl. Acad. Sci. USA , vol.85 , pp. 2444-2448
    • Pearson, W.R.1    Lipman, D.J.2
  • 24
    • 0034064689 scopus 로고    scopus 로고
    • A General Definition of Metabolic Pathways Useful for Systematic Organization and Analysis of Complex Metabolic Networks
    • Schuster, S., Fell, D. and Dandekar, T. (2000). A General Definition of Metabolic Pathways Useful for Systematic Organization and Analysis of Complex Metabolic Networks. Nature Biotechnol. 18, 326-332.
    • (2000) Nature Biotechnol. , vol.18 , pp. 326-332
    • Schuster, S.1    Fell, D.2    Dandekar, T.3
  • 26
    • 49149141669 scopus 로고
    • The theory and computation of evolutionary distances: Pattern recognition
    • Sellers, P. (1980). The theory and computation of evolutionary distances: Pattern recognition. J. Algorithms 1, 359-373.
    • (1980) J. Algorithms , vol.1 , pp. 359-373
    • Sellers, P.1
  • 27
    • 0019887799 scopus 로고
    • Identification of common molecular subsequences
    • Smith, T. F. and Waterman, M. S. (1981). Identification of common molecular subsequences. J. Mol. Biol. 147, 195-197.
    • (1981) J. Mol. Biol. , vol.147 , pp. 195-197
    • Smith, T.F.1    Waterman, M.S.2
  • 28
    • 0034565517 scopus 로고    scopus 로고
    • A Multiple Alignment Algorithm for Metabolic Pathway Analysis using Enzyme Hierarchy
    • Tohsato, Y., Matsuda, H. and Hashimoto, A. (2000). A Multiple Alignment Algorithm for Metabolic Pathway Analysis using Enzyme Hierarchy. Proc. Int. Conf. Intell. Syst. Mol. Biol. 8, 376-83.
    • (2000) Proc. Int. Conf. Intell. Syst. Mol. Biol. , vol.8 , pp. 376-383
    • Tohsato, Y.1    Matsuda, H.2    Hashimoto, A.3
  • 29
  • 30
    • 0345096675 scopus 로고    scopus 로고
    • Steady state analysis of metabolic pathways using Petri nets
    • Voss, K., Heiner, M. and Koch, I. (2003). Steady state analysis of metabolic pathways using Petri nets. In Silico Biol. 3, 0031
    • (2003) Silico Biol. , vol.3 , pp. 0031
    • Voss, K.1    Heiner, M.2    Koch, I.3
  • 31
    • 0015960104 scopus 로고
    • The string-to-string correction problem
    • Wagner, R. and Fisher, M. (1974). The string-to-string correction problem. ACM 21, 168-173.
    • (1974) ACM , vol.21 , pp. 168-173
    • Wagner, R.1    Fisher, M.2
  • 32
    • 0003410183 scopus 로고
    • Enzyme Nomenclature 1992: Recommendations of the Nomenclature Committee of the International Union of Biochemistry and Molecular Biology on the Nomenclature and Classification of Enzymes
    • Academic Press, New York, NJ
    • Webb, E. C. (1992). Enzyme Nomenclature 1992: Recommendations of the Nomenclature Committee of the International Union of Biochemistry and Molecular Biology on the Nomenclature and Classification of Enzymes. Academic Press, New York, NJ.
    • (1992)
    • Webb, E.C.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.