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Volumn 3, Issue 3, 2004, Pages 144-152

Computational approach to systems biology: From fraction to integration and beyond

Author keywords

Cellular automata; Modeling; Signaling pathway; Systems biology

Indexed keywords

CELLULAR AUTOMATA; MODELING; SIGNALING PATHWAY; SYSTEMS BIOLOGY;

EID: 4544268996     PISSN: 15361241     EISSN: None     Source Type: Journal    
DOI: 10.1109/TNB.2004.833699     Document Type: Article
Times cited : (23)

References (48)
  • 3
    • 0014649230 scopus 로고
    • Biochemical systems analysis. I. Some mathematical properties of the rate law for the component enzymatic reactions
    • M. A. Savageau, "Biochemical systems analysis. I. Some mathematical properties of the rate law for the component enzymatic reactions," J. Theor. Biol., vol. 25, pp. 365-369, 1969.
    • (1969) J. Theor. Biol. , vol.25 , pp. 365-369
    • Savageau, M.A.1
  • 4
    • 0014658880 scopus 로고
    • Biochemical systems analysis. II. The steady-state solutions for an n-pool system using a power-law approximation
    • _, "Biochemical systems analysis. II. The steady-state solutions for an n-pool system using a power-law approximation," J. Theor. Biol., vol. 25, pp. 370-379, 1969.
    • (1969) J. Theor. Biol. , vol.25 , pp. 370-379
  • 5
    • 0014733809 scopus 로고
    • Biochemical systems analysis. 3. Dynamic solutions using a power-law approximation
    • _, "Biochemical systems analysis. 3. Dynamic solutions using a power-law approximation," J. Theor. Biol., vol. 26, pp. 215-226, 1970.
    • (1970) J. Theor. Biol. , vol.26 , pp. 215-226
  • 7
    • 0015989446 scopus 로고
    • A linear steady-state treatment of enzymatic chains. General properties, control and effector strength
    • R. Heinrich and T. A. Rapoport, "A linear steady-state treatment of enzymatic chains. General properties, control and effector strength," Eur. J. Biochem., vol. 42, pp. 89-95, 1974.
    • (1974) Eur. J. Biochem. , vol.42 , pp. 89-95
    • Heinrich, R.1    Rapoport, T.A.2
  • 8
    • 0037613487 scopus 로고    scopus 로고
    • Consortia, 'big science' part of a paradigm shift for genetic epidemiology
    • K. Kreeger, "Consortia, 'big science' part of a paradigm shift for genetic epidemiology," J. Nat. Cancer Inst., vol. 95, pp. 640-641, 2003.
    • (2003) J. Nat. Cancer Inst. , vol.95 , pp. 640-641
    • Kreeger, K.1
  • 9
    • 0036207347 scopus 로고    scopus 로고
    • Modeling and simulation of genetic regulatory systems: A literature review
    • H. de Jong, "Modeling and simulation of genetic regulatory systems: A literature review," J. Comput. Biol., vol. 9, pp. 67-103, 2002.
    • (2002) J. Comput. Biol. , vol.9 , pp. 67-103
    • De Jong, H.1
  • 10
    • 0033782304 scopus 로고    scopus 로고
    • Modeling transcriptional control in gene networks-methods, recent results, and future directions
    • P. Smolen, D. A. Baxter, and J. H. Byrne, "Modeling transcriptional control in gene networks-methods, recent results, and future directions," Bull. Math. Biol., vol. 62, pp. 247-292, 2000.
    • (2000) Bull. Math. Biol. , vol.62 , pp. 247-292
    • Smolen, P.1    Baxter, D.A.2    Byrne, J.H.3
  • 14
    • 0033617522 scopus 로고    scopus 로고
    • Notch signaling: Cell fate control and signal integration in development
    • S. A. Tsakonas, M. D. Rand, and R. J. Lake, "Notch signaling: Cell fate control and signal integration in development," Science, vol. 284, pp. 770-776, 1999.
    • (1999) Science , vol.284 , pp. 770-776
    • Tsakonas, S.A.1    Rand, M.D.2    Lake, R.J.3
  • 15
    • 0035380760 scopus 로고    scopus 로고
    • Bioinformatics beyond sequence: Mapping gene function in the embryo
    • D. Davidson and R. Baldock, "Bioinformatics beyond sequence: Mapping gene function in the embryo," Nat. Rev. Genet., vol. 2, pp. 409-417, 2001.
    • (2001) Nat. Rev. Genet. , vol.2 , pp. 409-417
    • Davidson, D.1    Baldock, R.2
  • 16
    • 0141817915 scopus 로고    scopus 로고
    • The notch ligands, jagged and delta, are sequentially processed by α-secretase and presenilin/γ-secretase and release signaling fragments
    • M. J. LaVoie and D. J. Selkoe, "The notch ligands, jagged and delta, are sequentially processed by α-secretase and presenilin/γ- secretase and release signaling fragments," J. Biol. Chem., vol. 278, pp. 34427-34437, 2003.
    • (2003) J. Biol. Chem. , vol.278 , pp. 34427-34437
    • LaVoie, M.J.1    Selkoe, D.J.2
  • 17
    • 0038610845 scopus 로고    scopus 로고
    • The notch ligand deltal is sequentially cleaved by and ADAM protease and γ-secretase
    • E. Six, D. Ndiaye, Y. Laabi, C. Brou, N. Gupta-Rossi, F. Israel, and A. Logeat, "The notch ligand deltal is sequentially cleaved by and ADAM protease and γ-secretase," in Proc. Nat. Acad. Sci, vol. 100, 2003, pp. 7638-7643.
    • (2003) Proc. Nat. Acad. Sci , vol.100 , pp. 7638-7643
    • Six, E.1    Ndiaye, D.2    Laabi, Y.3    Brou, C.4    Gupta-Rossi, N.5    Israel, F.6    Logeat, A.7
  • 21
    • 0035797898 scopus 로고    scopus 로고
    • Nuclear reprogramming of somatic cells by in vitro hybridization with ES cells
    • M. Tada, Y. Takahama, K. Abe, N. Nakatsuji, and T. Tada, "Nuclear reprogramming of somatic cells by in vitro hybridization with ES cells," Curr. Biol., vol. 11, pp. 1553-1558, 2001.
    • (2001) Curr. Biol. , vol.11 , pp. 1553-1558
    • Tada, M.1    Takahama, Y.2    Abe, K.3    Nakatsuji, N.4    Tada, T.5
  • 22
    • 0031441007 scopus 로고    scopus 로고
    • The drosophila eyes absent gene directs ectopic eye formation in a pathway conserved between flies and vertebrates
    • N. M. Bonini, Q. T. Bui, G. L. Gray-Board, and J. M. Warrick, "The drosophila eyes absent gene directs ectopic eye formation in a pathway conserved between flies and vertebrates," Development, vol. 124, pp. 4819-4826, 1997.
    • (1997) Development , vol.124 , pp. 4819-4826
    • Bonini, N.M.1    Bui, Q.T.2    Gray-Board, G.L.3    Warrick, J.M.4
  • 23
    • 0035937421 scopus 로고    scopus 로고
    • WNT signals control FGF-dependent limb initiation and AER induction in the chick embryo
    • Y. Kawakami, J. Capdevila, D. Buscher, T. Itoh, C. R. Esteban, and J. C. I. Belmonte, "WNT signals control FGF-dependent limb initiation and AER induction in the chick embryo," Cell, vol. 104, pp. 891-900, 2001.
    • (2001) Cell , vol.104 , pp. 891-900
    • Kawakami, Y.1    Capdevila, J.2    Buscher, D.3    Itoh, T.4    Esteban, C.R.5    Belmonte, J.C.I.6
  • 25
    • 0842264188 scopus 로고    scopus 로고
    • Fgf8 mRNA decay establishes a gradient that couples axial elongation to patterning in the vertebrate embryo
    • J. Dubrulle and O. Pourquie, "fgf8 mRNA decay establishes a gradient that couples axial elongation to patterning in the vertebrate embryo," Nature, vol. 427, pp. 419-422, 2004.
    • (2004) Nature , vol.427 , pp. 419-422
    • Dubrulle, J.1    Pourquie, O.2
  • 27
    • 0035003342 scopus 로고    scopus 로고
    • Tumors are unique organs defined by abnormal signaling and context
    • D. Radisky, C. Hagios, and M. J. Bissell, "Tumors are unique organs defined by abnormal signaling and context," Semin. Cancer Biol., vol. 11, pp. 87-95, 2001.
    • (2001) Semin. Cancer Biol. , vol.11 , pp. 87-95
    • Radisky, D.1    Hagios, C.2    Bissell, M.J.3
  • 28
    • 0035051919 scopus 로고    scopus 로고
    • Phenotypic and dynamical transitions in model genetic networks. I. Emergence of patterns and genotype-phenotype relationships
    • I. Salazar-Ciudad, S. A. Newman, and R. V. Sole, "Phenotypic and dynamical transitions in model genetic networks. I. Emergence of patterns and genotype-phenotype relationships," Evolut. Develop., vol. 3, pp. 84-94, 2001.
    • (2001) Evolut. Develop. , vol.3 , pp. 84-94
    • Salazar-Ciudad, I.1    Newman, S.A.2    Sole, R.V.3
  • 29
    • 0035573663 scopus 로고    scopus 로고
    • Comparative studies on limb morphogenesis in mice and bats: A functional genetic approach toward a molecular understanding of diversity in organ formation
    • C. J. Cretekos, J. J. Rasweiler, and R. R. Behringer, "Comparative studies on limb morphogenesis in mice and bats: A functional genetic approach toward a molecular understanding of diversity in organ formation," Reproduct. Fertil. Develop., vol. 13, pp. 691-695, 2001.
    • (2001) Reproduct. Fertil. Develop. , vol.13 , pp. 691-695
    • Cretekos, C.J.1    Rasweiler, J.J.2    Behringer, R.R.3
  • 30
    • 0032849621 scopus 로고    scopus 로고
    • Knowledge discovery in gene-expression-microarray data: Mining the information output of the genome
    • G. Zweiger, "Knowledge discovery in gene-expression-microarray data: Mining the information output of the genome," Trends Biotechnol., vol. 17, pp. 429-436, 1999.
    • (1999) Trends Biotechnol. , vol.17 , pp. 429-436
    • Zweiger, G.1
  • 31
    • 0035860545 scopus 로고    scopus 로고
    • Pathway database: A case study in computational symbolic theories
    • P. Karp, "Pathway database: A case study in computational symbolic theories," Science, vol. 293, pp. 2040-2043, 2001.
    • (2001) Science , vol.293 , pp. 2040-2043
    • Karp, P.1
  • 32
    • 0036618209 scopus 로고    scopus 로고
    • Wnt3-Wnt14B and Wnt3A-Wnt14 gene clusters
    • M. Katoh, "Wnt3-Wnt14B and Wnt3A-Wnt14 gene clusters," Int. J. Mol. Med., vol. 9, pp. 579-584, 2002.
    • (2002) Int. J. Mol. Med. , vol.9 , pp. 579-584
    • Katoh, M.1
  • 33
    • 0033198374 scopus 로고    scopus 로고
    • Pax 6: Mastering eye morphogenesis and eye evolution
    • W. J. Gehring and K. Ikeo, "Pax 6: Mastering eye morphogenesis and eye evolution," Trends Genet., vol. 15, pp. 371-377, 1999.
    • (1999) Trends Genet. , vol.15 , pp. 371-377
    • Gehring, W.J.1    Ikeo, K.2
  • 34
    • 0142227025 scopus 로고    scopus 로고
    • Developmental biology informs cancer: The emerging role of the hedgehog signaling pathway in upper gastroin-testinal cancers
    • K. Xie and J. L. Abbruzzese, "Developmental biology informs cancer: The emerging role of the hedgehog signaling pathway in upper gastroin-testinal cancers," Cancer Cell, vol. 4, pp. 245-247, 2003.
    • (2003) Cancer Cell , vol.4 , pp. 245-247
    • Xie, K.1    Abbruzzese, J.L.2
  • 35
    • 0037969195 scopus 로고    scopus 로고
    • Aberrant signaling of TGF-betal by the mutant Simad4 in gastric cancer cells
    • H. R. Ju, U. Jung, C. H. Sonn, S. R. Yoon, J. H. Jeon, Y. Yang, K. N. Lee, and I. Choi, "Aberrant signaling of TGF-betal by the mutant Simad4 in gastric cancer cells," Cancer Lett., vol. 196, pp. 197-206, 2003.
    • (2003) Cancer Lett. , vol.196 , pp. 197-206
    • Ju, H.R.1    Jung, U.2    Sonn, C.H.3    Yoon, S.R.4    Jeon, J.H.5    Yang, Y.6    Lee, K.N.7    Choi, I.8
  • 36
    • 0037223971 scopus 로고    scopus 로고
    • The evolution of signalling pathways in animal development
    • A. Pires-daSilva and R. J. Sommer, "The evolution of signalling pathways in animal development," Nature Rev. Genet., vol. 4, pp. 39-49, 2003.
    • (2003) Nature Rev. Genet. , vol.4 , pp. 39-49
    • Pires-DaSilva, A.1    Sommer, R.J.2
  • 37
    • 0347004632 scopus 로고    scopus 로고
    • The next step in systems biology: Simulating the temporospatial dynamics of molecular network
    • H. Zhu, S. Huang, and P. Dhar, "The next step in systems biology: Simulating the temporospatial dynamics of molecular network," Bioessays, vol. 26, pp. 68-72, 2004.
    • (2004) Bioessays , vol.26 , pp. 68-72
    • Zhu, H.1    Huang, S.2    Dhar, P.3
  • 38
    • 0036212767 scopus 로고    scopus 로고
    • Computational modeling of the dynamics of the MAP kinase cascade activated by surface and internalized EGF receptors
    • B. Schoeberl, C. Eichler-Jonsson, E. D. Gilles, and G. Muller, "Computational modeling of the dynamics of the MAP kinase cascade activated by surface and internalized EGF receptors," Nature Biotechnol., vol. 20, pp. 370-375, 2002.
    • (2002) Nature Biotechnol. , vol.20 , pp. 370-375
    • Schoeberl, B.1    Eichler-Jonsson, C.2    Gilles, E.D.3    Muller, G.4
  • 39
    • 0021755192 scopus 로고
    • Cellular automata as models of complexity
    • S. Wolfram, "Cellular automata as models of complexity" Nature, vol. 311, pp. 419-424, 1984.
    • (1984) Nature , vol.311 , pp. 419-424
    • Wolfram, S.1
  • 40
    • 0003801963 scopus 로고    scopus 로고
    • Champaign, IL: Wolframe Media
    • _, A New Kind of Science. Champaign, IL: Wolframe Media, 2002.
    • (2002) A New Kind of Science
  • 41
    • 0038995611 scopus 로고
    • Cellular automata: Theory and experiment
    • H. Gutowitz, "Cellular automata: Theory and experiment," Phys. D, vol. 45, 1990.
    • (1990) Phys. D , vol.45
    • Gutowitz, H.1
  • 42
    • 0027415226 scopus 로고
    • Cellular automata approach to biological modeling
    • G. B. Ermentrout and L. Edelstein-Keshet, "Cellular automata approach to biological modeling," J. Theor. Biol., vol. 160, pp. 97-133, 1993.
    • (1993) J. Theor. Biol. , vol.160 , pp. 97-133
    • Ermentrout, G.B.1    Edelstein-Keshet, L.2
  • 43
    • 0033330875 scopus 로고    scopus 로고
    • Programming cellular automata algorithms on parallel computers
    • G. Spezzano and D. Talia, "Programming cellular automata algorithms on parallel computers," Future Generat. Comput. Syst., vol. 16, pp. 203-216, 1999.
    • (1999) Future Generat. Comput. Syst. , vol.16 , pp. 203-216
    • Spezzano, G.1    Talia, D.2
  • 44
    • 84976817680 scopus 로고
    • Cellang 2.0: Language reference manual
    • J. D. Eckart, "Cellang 2.0: Language reference manual," SIGPLAN Notices, vol. 27, no. 8, pp. 107-112, 1992.
    • (1992) SIGPLAN Notices , vol.27 , Issue.8 , pp. 107-112
    • Eckart, J.D.1
  • 45
    • 4544316532 scopus 로고
    • Symbiotic programming: Crossbreeding cellular automaton rules on the CAM-6
    • R. Rucker, "Symbiotic programming: Crossbreeding cellular automaton rules on the CAM-6," Complex Syst., vol. 3, pp. 79-90, 1989.
    • (1989) Complex Syst. , vol.3 , pp. 79-90
    • Rucker, R.1
  • 48
    • 0033555859 scopus 로고    scopus 로고
    • Emergent properties of networks of biological signaling pathways
    • U. S. Bhalla and R. Iyengar, "Emergent properties of networks of biological signaling pathways," Science, vol. 283, pp. 381-387, 1999.
    • (1999) Science , vol.283 , pp. 381-387
    • Bhalla, U.S.1    Iyengar, R.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.