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Volumn 157, Issue 10, 2009, Pages 2244-2256

Path finding approaches and metabolic pathways

Author keywords

Metabolic pathways; Path finding; Shortest path; Systems biology

Indexed keywords

BIOCHEMICAL REACTIONS; LIVING ORGANISMS; METABOLIC PATHWAYS; NODE CONNECTIVITIES; PATH FINDING; SHORTEST PATH; SYSTEMS BIOLOGY; TARGET COMPOUNDS;

EID: 67349127535     PISSN: 0166218X     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.dam.2008.06.035     Document Type: Article
Times cited : (20)

References (31)
  • 1
    • 33748798478 scopus 로고    scopus 로고
    • Graph-based methods for analysing networks in cell biology
    • Aittokallio T., and Schwikowski B. Graph-based methods for analysing networks in cell biology. Briefings in Bioinformatics 7 (2006) 243-255
    • (2006) Briefings in Bioinformatics , vol.7 , pp. 243-255
    • Aittokallio, T.1    Schwikowski, B.2
  • 2
    • 0037881782 scopus 로고    scopus 로고
    • Metabolic reconstruction using shortest paths
    • Arita M. Metabolic reconstruction using shortest paths. Simulation Practice and Theory 8 (2000) 109-125
    • (2000) Simulation Practice and Theory , vol.8 , pp. 109-125
    • Arita, M.1
  • 3
    • 33845877959 scopus 로고    scopus 로고
    • Recovering metabolic pathways via optimisation
    • Beasley J.E., and Planes F.J. Recovering metabolic pathways via optimisation. Bioinformatics 23 (2007) 92-98
    • (2007) Bioinformatics , vol.23 , pp. 92-98
    • Beasley, J.E.1    Planes, F.J.2
  • 4
    • 23144466440 scopus 로고    scopus 로고
    • Metabolic PathFinding: Inferring relevant pathways in biochemical networks
    • Croes D., Couche F., Wodak S.J., and van Helden J. Metabolic PathFinding: Inferring relevant pathways in biochemical networks. Nucleic Acids Research 33 (2005) W326-W330
    • (2005) Nucleic Acids Research , vol.33
    • Croes, D.1    Couche, F.2    Wodak, S.J.3    van Helden, J.4
  • 9
    • 67349222737 scopus 로고    scopus 로고
    • ILOG CPLEX, 2005. http://www.ilog.com/products/cplex/news/whatsnew.cfm#cplex90
    • (2005)
  • 11
    • 0037308505 scopus 로고    scopus 로고
    • Two approaches for metabolic pathway analysis?
    • Klamt S., and Stelling J. Two approaches for metabolic pathway analysis?. Trends in Biotechnology 21 (2003) 64-69
    • (2003) Trends in Biotechnology , vol.21 , pp. 64-69
    • Klamt, S.1    Stelling, J.2
  • 12
    • 16344381707 scopus 로고    scopus 로고
    • Application of Petri net theory for modelling and validation of the sucrose breakdown pathway in the potato tuber
    • Koch I., Junker B.H., and Heiner M. Application of Petri net theory for modelling and validation of the sucrose breakdown pathway in the potato tuber. Bioinformatics 21 (2005) 1219-1226
    • (2005) Bioinformatics , vol.21 , pp. 1219-1226
    • Koch, I.1    Junker, B.H.2    Heiner, M.3
  • 13
    • 0033670135 scopus 로고    scopus 로고
    • Pathway analysis in metabolic databases via differential metabolic display (DMD)
    • Küffner R., Zimmer R., and Lengauer T. Pathway analysis in metabolic databases via differential metabolic display (DMD). Bioinformatics 16 (2000) 825-836
    • (2000) Bioinformatics , vol.16 , pp. 825-836
    • Küffner, R.1    Zimmer, R.2    Lengauer, T.3
  • 15
    • 0026898481 scopus 로고
    • Synthesis of reaction mechanisms consisting of reversible and irreversible steps. 1. A synthesis approach in the context of simple examples
    • Mavrovouniotis M.L. Synthesis of reaction mechanisms consisting of reversible and irreversible steps. 1. A synthesis approach in the context of simple examples. Industrial and Engineering Chemistry Research 31 (1992) 1625-1637
    • (1992) Industrial and Engineering Chemistry Research , vol.31 , pp. 1625-1637
    • Mavrovouniotis, M.L.1
  • 16
    • 0026898402 scopus 로고
    • Synthesis of reaction mechanisms consisting of reversible and irreversible steps. 2. Formalization and analysis of the synthesis algorithm
    • Mavrovouniotis M.L. Synthesis of reaction mechanisms consisting of reversible and irreversible steps. 2. Formalization and analysis of the synthesis algorithm. Industrial and Engineering Chemistry Research 31 (1992) 1637-1653
    • (1992) Industrial and Engineering Chemistry Research , vol.31 , pp. 1637-1653
    • Mavrovouniotis, M.L.1
  • 17
    • 2042440312 scopus 로고
    • Identification of qualitatively feasible metabolic pathways
    • Hunter L. (Ed), AAAI Press/MIT Press
    • Mavrovouniotis M.L. Identification of qualitatively feasible metabolic pathways. In: Hunter L. (Ed). Artificial Intelligence and Molecular Biology (1993), AAAI Press/MIT Press 325-364
    • (1993) Artificial Intelligence and Molecular Biology , pp. 325-364
    • Mavrovouniotis, M.L.1
  • 18
    • 0141850380 scopus 로고    scopus 로고
    • PathMiner: Predicting metabolic pathways by heuristic search
    • McShan D.C., Rao S., and Shah I. PathMiner: Predicting metabolic pathways by heuristic search. Bioinformatics 19 (2003) 1692-1698
    • (2003) Bioinformatics , vol.19 , pp. 1692-1698
    • McShan, D.C.1    Rao, S.2    Shah, I.3
  • 21
    • 16344376028 scopus 로고    scopus 로고
    • Metabolic pathway analysis web service (Pathway Hunter Tool at CUBIC)
    • Rahman S.A., Advani P., Schunk R., Schrader R., and Schomburg D. Metabolic pathway analysis web service (Pathway Hunter Tool at CUBIC). Bioinformatics 21 (2005) 1189-1193
    • (2005) Bioinformatics , vol.21 , pp. 1189-1193
    • Rahman, S.A.1    Advani, P.2    Schunk, R.3    Schrader, R.4    Schomburg, D.5
  • 22
    • 33747890136 scopus 로고    scopus 로고
    • Observing local and global properties of metabolic pathways: 'Load points' and 'choke points' in the metabolic networks
    • Rahman S.A., and Schomburg D. Observing local and global properties of metabolic pathways: 'Load points' and 'choke points' in the metabolic networks. Bioinformatics 22 (2006) 1767-1774
    • (2006) Bioinformatics , vol.22 , pp. 1767-1774
    • Rahman, S.A.1    Schomburg, D.2
  • 23
    • 0344328817 scopus 로고    scopus 로고
    • An expanded genome-scale model of Escherichia coli K-12 (iJR904 GSM/GPR)
    • Reed J.L., Vo T.D., Schilling C.H., and Palsson B.O. An expanded genome-scale model of Escherichia coli K-12 (iJR904 GSM/GPR). Genome Biology 4 (2003) R54
    • (2003) Genome Biology , vol.4
    • Reed, J.L.1    Vo, T.D.2    Schilling, C.H.3    Palsson, B.O.4
  • 24
    • 0034615791 scopus 로고    scopus 로고
    • Theory for the systemic definition of metabolic pathways and their use in interpreting metabolic function from a pathway-oriented perspective
    • Schilling C.H., Letscher D., and Palsson B.O. Theory for the systemic definition of metabolic pathways and their use in interpreting metabolic function from a pathway-oriented perspective. Journal of Theoretical Biology 203 (2000) 229-248
    • (2000) Journal of Theoretical Biology , vol.203 , pp. 229-248
    • Schilling, C.H.1    Letscher, D.2    Palsson, B.O.3
  • 25
    • 0033136109 scopus 로고    scopus 로고
    • Metabolic pathway analysis: Basic concepts and scientific applications in the post-genomic era
    • Schilling C.H., Schuster S., Palsson B.O., and Heinrich R. Metabolic pathway analysis: Basic concepts and scientific applications in the post-genomic era. Biotechnology Progress 15 (1999) 296-303
    • (1999) Biotechnology Progress , vol.15 , pp. 296-303
    • Schilling, C.H.1    Schuster, S.2    Palsson, B.O.3    Heinrich, R.4
  • 26
    • 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.A., and Dandekar D. A general definition of metabolic pathways useful for systematic organization and analysis of complex metabolic networks. Nature Biotechnology 18 (2000) 326-332
    • (2000) Nature Biotechnology , vol.18 , pp. 326-332
    • Schuster, S.1    Fell, D.A.2    Dandekar, D.3
  • 27
    • 0022971582 scopus 로고
    • MPS: An algorithm and data base for metabolic pathway synthesis
    • Seressiotis A., and Bailey J.E. MPS: An algorithm and data base for metabolic pathway synthesis. Biotechnology Letters 8 (1986) 837-842
    • (1986) Biotechnology Letters , vol.8 , pp. 837-842
    • Seressiotis, A.1    Bailey, J.E.2
  • 28
    • 0023995387 scopus 로고
    • MPS-An artificially intelligent software system for the analysis and synthesis of metabolic pathways
    • Seressiotis A., and Bailey J.E. MPS-An artificially intelligent software system for the analysis and synthesis of metabolic pathways. Biotechnology and Bioengineering 31 (1988) 587-602
    • (1988) Biotechnology and Bioengineering , vol.31 , pp. 587-602
    • Seressiotis, A.1    Bailey, J.E.2
  • 29
    • 27544501653 scopus 로고    scopus 로고
    • Qualitative modelling of regulated metabolic pathways: Application to the tryptophan biosynthesis in E. Coli
    • Simao E., Remy E., Thieffry D., and Chaouiya C. Qualitative modelling of regulated metabolic pathways: Application to the tryptophan biosynthesis in E. Coli. Bioinformatics 21 Suppl. 2 (2005) ii190-ii196
    • (2005) Bioinformatics , vol.21 , Issue.SUPPL. 2
    • Simao, E.1    Remy, E.2    Thieffry, D.3    Chaouiya, C.4
  • 30
    • 0037079050 scopus 로고    scopus 로고
    • Metabolic network structure determines key aspects of functionality and regulation
    • Stelling J., Klamt S., Bettenbrock K., Schuster S., and Gilles E.D. Metabolic network structure determines key aspects of functionality and regulation. Nature 420 (2002) 190-193
    • (2002) Nature , vol.420 , pp. 190-193
    • Stelling, J.1    Klamt, S.2    Bettenbrock, K.3    Schuster, S.4    Gilles, E.D.5
  • 31
    • 0345602990 scopus 로고    scopus 로고
    • Topological analysis of metabolic networks based on Petri net theory
    • Zevedei-Oancea I., and Schuster S. Topological analysis of metabolic networks based on Petri net theory. In Silico Biology 3 (2003) 0029. http://www.bioinfo.de/isb/2003/03/0029/main.html
    • (2003) In Silico Biology , vol.3 , pp. 0029
    • Zevedei-Oancea, I.1    Schuster, S.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.