메뉴 건너뛰기




Volumn 1, Issue , 2004, Pages

Priming nonlinear searches for pathway identification

Author keywords

[No Author keywords available]

Indexed keywords

ALGORITHM; ARTICLE; CLINICAL PATHWAY; LINEAR REGRESSION ANALYSIS; MATHEMATICAL MODEL; METHODOLOGY; MULTIVARIATE ANALYSIS; NONLINEAR SYSTEM; BIOLOGICAL MODEL; METABOLISM; PROTEOMICS; REGRESSION ANALYSIS;

EID: 15244340261     PISSN: 17424682     EISSN: None     Source Type: Journal    
DOI: 10.1186/1742-4682-1-8     Document Type: Article
Times cited : (41)

References (47)
  • 2
    • 4444229345 scopus 로고    scopus 로고
    • Metabolomic analysis with fourier transform ion cyclotron resonance mass spectrometry
    • Edited by: GoodacreR and HarriganGG. Dordrecht, The Netherlands, Kluwer Academic Publishing
    • Goodenowe D: Metabolomic analysis with fourier transform ion cyclotron resonance mass spectrometry. Metabolic Profiling: Its role in Biomarker Discovery and Gene Function Analysis Edited by: GoodacreR and HarriganGG. Dordrecht, The Netherlands, Kluwer Academic Publishing; 2003:125-139.
    • (2003) Metabolic Profiling: Its Role in Biomarker Discovery and Gene Function Analysis , pp. 125-139
    • Goodenowe, D.1
  • 4
    • 0031594984 scopus 로고    scopus 로고
    • 13C-NMR, MS and metabolic flux balancing in biotechnology research
    • Szyperski T: 13C-NMR, MS and metabolic flux balancing in biotechnology research. Quart Rev Biophys 1998, 31:41-106.
    • (1998) Quart Rev Biophys , vol.31 , pp. 41-106
    • Szyperski, T.1
  • 5
    • 0036653675 scopus 로고    scopus 로고
    • Concomitant determination of absolute values of cellular protein amounts,synthesis rates, and turnover rates by quantitative proteome profiling
    • Gerner C, Vejda S, Gelbmann D, Bayer E, Gotzman J, Schulte-Hermann R, Mikulits W: Concomitant determination of absolute values of cellular protein amounts,synthesis rates, and turnover rates by quantitative proteome profiling. Mol Cell Proteomics 2002, 1:528-537.
    • (2002) Mol Cell Proteomics , vol.1 , pp. 528-537
    • Gerner, C.1    Vejda, S.2    Gelbmann, D.3    Bayer, E.4    Gotzman, J.5    Schulte-Hermann, R.6    Mikulits, W.7
  • 6
    • 0037325818 scopus 로고    scopus 로고
    • A quantitative method for measuring protein phosphorylation
    • Mckenzie JA, Strauss PR: A quantitative method for measuring protein phosphorylation. Anal Biochem 2003, 313:9-16.
    • (2003) Anal Biochem , vol.313 , pp. 9-16
    • Mckenzie, J.A.1    Strauss, P.R.2
  • 7
    • 0034812859 scopus 로고    scopus 로고
    • Towards a novel classification of human malignancies based on gene expression pattern
    • Alizadeh AA, Ross DT, Perou CM, van de Rijn M: Towards a novel classification of human malignancies based on gene expression pattern. J Pathol 2001, 195:41-52.
    • (2001) J Pathol , vol.195 , pp. 41-52
    • Alizadeh, A.A.1    Ross, D.T.2    Perou, C.M.3    Van De Rijn, M.4
  • 8
    • 0037197832 scopus 로고    scopus 로고
    • Determination of causal connectivities of species in reaction networks
    • Vance W, Arkin AP, Ross J: Determination of causal connectivities of species in reaction networks. Proc Natl Acad Sci U S A 2002, 99:5816-5821.
    • (2002) Proc Natl Acad Sci U S A , vol.99 , pp. 5816-5821
    • Vance, W.1    Arkin, A.P.2    Ross, J.3
  • 9
    • 0037452796 scopus 로고    scopus 로고
    • Experimental test of a method for determining causal connectivities of species in reactions
    • Torralba AS, Yu K, Shen P, Oefner PJ, Ross J: Experimental test of a method for determining causal connectivities of species in reactions. Proc Natl Acad Sci U S A 2003, 100:1494-1498.
    • (2003) Proc Natl Acad Sci U S A , vol.100 , pp. 1494-1498
    • Torralba, A.S.1    Yu, K.2    Shen, P.3    Oefner, P.J.4    Ross, J.5
  • 10
    • 0041744850 scopus 로고    scopus 로고
    • On the deduction of chemical reaction pathways from measurements of time-series of concentrations
    • Samoilov M, Arkin AP, Ross J: On the deduction of chemical reaction pathways from measurements of time-series of concentrations. Chaos 2001, 11:108-114.
    • (2001) Chaos , vol.11 , pp. 108-114
    • Samoilov, M.1    Arkin, A.P.2    Ross, J.3
  • 12
    • 0031060779 scopus 로고    scopus 로고
    • Lotka-Volterra representation of general nonlinear systems
    • Hernández-Bermejo B, Fairén V: Lotka-Volterra representation of general nonlinear systems. Math Biosci 1997, 140:1-32.
    • (1997) Math Biosci , vol.140 , pp. 1-32
    • Hernández-Bermejo, B.1    Fairén, V.2
  • 13
    • 0014649230 scopus 로고
    • Biochemical systems analysis. 1. Some mathematical properties of the rate law for the component enzymatic reactions
    • Savageau MA: Biochemical systems analysis. 1. Some mathematical properties of the rate law for the component enzymatic reactions. J Theor Biol 1969, 25:365-369.
    • (1969) J Theor Biol , vol.25 , pp. 365-369
    • Savageau, M.A.1
  • 14
    • 0014658880 scopus 로고
    • Biochemical systems analysis. 2. The steady-state solutions for an n-pool system using a power law approximation
    • Savageau MA: Biochemical systems analysis. 2. The steady-state solutions for an n-pool system using a power law approximation. J Theor Biol 1969, 25:370-379.
    • (1969) J Theor Biol , vol.25 , pp. 370-379
    • Savageau, M.A.1
  • 16
    • 0001622717 scopus 로고
    • Power-law approach to modeling biological systems; II. Application to ethanol production
    • Voit EO, Savageau MA: Power-law approach to modeling biological systems; II. Application to ethanol production. J Ferment Technol 1982, 60:229-232.
    • (1982) J Ferment Technol , vol.60 , pp. 229-232
    • Voit, E.O.1    Savageau, M.A.2
  • 17
    • 0001622717 scopus 로고
    • Power-law approach to modeling biological systems; III. Methods of analysis
    • Voit EO, Savageau MA: Power-law approach to modeling biological systems; III. Methods of analysis. J Ferment Technol 1982, 60:233-241.
    • (1982) J Ferment Technol , vol.60 , pp. 233-241
    • Voit, E.O.1    Savageau, M.A.2
  • 18
    • 0033737840 scopus 로고    scopus 로고
    • Inferring qualitative relations in genetic networks and metabolic pathways
    • Akutsu T, Miyano S, Kuhara S: Inferring qualitative relations in genetic networks and metabolic pathways. Bioinformatics 2000, 16:727-734.
    • (2000) Bioinformatics , vol.16 , pp. 727-734
    • Akutsu, T.1    Miyano, S.2    Kuhara, S.3
  • 19
    • 0034863951 scopus 로고    scopus 로고
    • Inferring a system of differential equations for a gene regulatory network by using genetic programming
    • Sakamoto E, Iba H: Inferring a system of differential equations for a gene regulatory network by using genetic programming. Proc of the 2001 Congr Evolut Comput CEC2001 2001:720-726.
    • (2001) Proc of the 2001 Congr Evolut Comput CEC2001 , pp. 720-726
    • Sakamoto, E.1    Iba, H.2
  • 21
    • 0037461033 scopus 로고    scopus 로고
    • Dynamic modeling of genetic networks using genetic algorithm and S-system
    • Kikuchi S, Tominaga D, Arita M, Takahashi K, Tomita M: Dynamic modeling of genetic networks using genetic algorithm and S-system. Bioinformatics 2003, 19:643-650.
    • (2003) Bioinformatics , vol.19 , pp. 643-650
    • Kikuchi, S.1    Tominaga, D.2    Arita, M.3    Takahashi, K.4    Tomita, M.5
  • 22
    • 0041594045 scopus 로고    scopus 로고
    • Dynamic profiling and canonical modeling: Powerful partners in metabolic pathway identification
    • Edited by: GoodacreR and HarriganGG. Dordrect, The Netherlands, Kluwer Academic Publishing
    • Voit EO, Almeida J: Dynamic profiling and canonical modeling: Powerful partners in metabolic pathway identification. Metabolic Profiling: Its role in Biomarker Discovery and Gene Function Analysis Edited by: GoodacreR and HarriganGG. Dordrect, The Netherlands, Kluwer Academic Publishing; 2003:125-139.
    • (2003) Metabolic Profiling: Its Role in Biomarker Discovery and Gene Function Analysis , pp. 125-139
    • Voit, E.O.1    Almeida, J.2
  • 23
    • 4344592548 scopus 로고    scopus 로고
    • Neural-network-based parameter estimation in complex biomedical systems
    • Almeida J, Voit EO: Neural-network-based parameter estimation in complex biomedical systems. Genome Informatics 2003, 14:114-123.
    • (2003) Genome Informatics , vol.14 , pp. 114-123
    • Almeida, J.1    Voit, E.O.2
  • 24
    • 4444351989 scopus 로고    scopus 로고
    • Decoupling dynamical systems for pathway identification from metabolic profiles
    • Voit EO, Almeida J: Decoupling dynamical systems for pathway identification from metabolic profiles. Bioinformatics 2004, 20:1670-1681.
    • (2004) Bioinformatics , vol.20 , pp. 1670-1681
    • Voit, E.O.1    Almeida, J.2
  • 25
    • 0037359826 scopus 로고    scopus 로고
    • Application of a new method of nonlinear dynamical system identification to biochemical problems
    • Karnaukhov AV, Karnaukhova EV: Application of a new method of nonlinear dynamical system identification to biochemical problems. Biochemistry (Mosc) 2003, 68:253-259.
    • (2003) Biochemistry (Mosc) , vol.68 , pp. 253-259
    • Karnaukhov, A.V.1    Karnaukhova, E.V.2
  • 26
    • 0027943868 scopus 로고
    • Identifiability and indistinguishability of nonlinear pharmacokinetic models
    • Godfrey KR, Chapman MJ, Vajda S: Identifiability and indistinguishability of nonlinear pharmacokinetic models. J Pharmacokinet Biopharm 1994, 22:229-257.
    • (1994) J Pharmacokinet Biopharm , vol.22 , pp. 229-257
    • Godfrey, K.R.1    Chapman, M.J.2    Vajda, S.3
  • 27
  • 28
    • 0030848624 scopus 로고    scopus 로고
    • A test case of correlation metric construction of a reaction pathway from measurements
    • Arkin AP, Shen PD, Ross J: A test case of correlation metric construction of a reaction pathway from measurements. Science 1997, 277:1275-1279.
    • (1997) Science , vol.277 , pp. 1275-1279
    • Arkin, A.P.1    Shen, P.D.2    Ross, J.3
  • 29
    • 0033655775 scopus 로고    scopus 로고
    • Mutual information relevance networks: Functional genomic clustering using pairwise entropy measurements
    • Butte AJ, Kohane IS: Mutual information relevance networks: functional genomic clustering using pairwise entropy measurements. Pac Symp Biocomput 2000:418-429.
    • (2000) Pac Symp Biocomput , pp. 418-429
    • Butte, A.J.1    Kohane, I.S.2
  • 30
    • 4444377608 scopus 로고    scopus 로고
    • Pathway finding from given time courses using genetic algorithms
    • Kikuchi S, Tominaga D, Arita M, Tomita M: Pathway finding from given time courses using genetic algorithms. Genome Informatics 2001, 12:304-305.
    • (2001) Genome Informatics , vol.12 , pp. 304-305
    • Kikuchi, S.1    Tominaga, D.2    Arita, M.3    Tomita, M.4
  • 31
    • 0032612220 scopus 로고    scopus 로고
    • Linear modeling of mRNA expression levels during CNS development and injury
    • D'Haeseleer P, Wen X, Fuhrman S, Somogyi R: Linear modeling of mRNA expression levels during CNS development and injury. Pac Symp Biocomput 1999:41-52.
    • (1999) Pac Symp Biocomput , pp. 41-52
    • D'Haeseleer, P.1    Wen, X.2    Fuhrman, S.3    Somogyi, R.4
  • 32
    • 0001622226 scopus 로고
    • Toward a systematic determination of complex reaction mechanisms
    • Chevalier T, Schreiber I, Ross J: Toward a systematic determination of complex reaction mechanisms. J Phys Chem 1993, 97:6776-6787.
    • (1993) J Phys Chem , vol.97 , pp. 6776-6787
    • Chevalier, T.1    Schreiber, I.2    Ross, J.3
  • 33
    • 0035004874 scopus 로고    scopus 로고
    • Simplified method for the computation of parameters of power-law rate equations from time-series
    • Diaz-Sierra R, Fairén V: Simplified method for the computation of parameters of power-law rate equations from time-series. Math Biosci 2001, 171:1-19.
    • (2001) Math Biosci , vol.171 , pp. 1-19
    • Diaz-Sierra, R.1    Fairén, V.2
  • 34
    • 0001064134 scopus 로고    scopus 로고
    • Deduction of chemical mechanisms from the linear response around steady state
    • Diaz-Sierra R, Lozano JB, Fairén V: Deduction of chemical mechanisms from the linear response around steady state. J Phys Chem 1999, 103:337-343.
    • (1999) J Phys Chem , vol.103 , pp. 337-343
    • Diaz-Sierra, R.1    Lozano, J.B.2    Fairén, V.3
  • 35
    • 0038048325 scopus 로고    scopus 로고
    • Inferring Genetic Networks and Identifying Compound Mode of Action via Expression Profiling
    • Gardner Timothy S., di Bernardo Diego, Lorenz David, Collins James J.: Inferring Genetic Networks and Identifying Compound Mode of Action via Expression Profiling. Science 2003, 301:102-105.
    • (2003) Science , vol.301 , pp. 102-105
    • Gardner Timothy, S.1    Di Bernardo, D.2    Lorenz, D.3    Collins, J.J.4
  • 36
    • 0028347018 scopus 로고
    • Structure Identifiability in Metabolic Pathways - Parameter- Estimation in Models Based on the Power-Law Formalism
    • Sorribas A, Cascante M: Structure Identifiability in Metabolic Pathways - Parameter- Estimation in Models Based on the Power-Law Formalism. Biochem J 1994, 298:303-311.
    • (1994) Biochem J , vol.298 , pp. 303-311
    • Sorribas, A.1    Cascante, M.2
  • 37
    • 0030024376 scopus 로고    scopus 로고
    • On the analysis of the inverse problem of metabolic pathways using artificial neural networks
    • Mendes P, Kell DB: On the analysis of the inverse problem of metabolic pathways using artificial neural networks. Biosystems 1996, 38:15-28.
    • (1996) Biosystems , vol.38 , pp. 15-28
    • Mendes, P.1    Kell, D.B.2
  • 38
    • 0033691089 scopus 로고    scopus 로고
    • Hybrid modeling of biotechnological processes using neural networks
    • Chen L, Bernard O, Bastin G, Angelov P: Hybrid modeling of biotechnological processes using neural networks. Control Eng Pract 2000, 8:821-827.
    • (2000) Control Eng Pract , vol.8 , pp. 821-827
    • Chen, L.1    Bernard, O.2    Bastin, G.3    Angelov, P.4
  • 39
    • 4444351989 scopus 로고    scopus 로고
    • Decoupling dynamical systems for pathway identification
    • Voit EO, Almeida JS: Decoupling dynamical systems for pathway identification. Bioinformatics 2004, 20:1670-1681.
    • (2004) Bioinformatics , vol.20 , pp. 1670-1681
    • Voit, E.O.1    Almeida, J.S.2
  • 40
    • 0022687590 scopus 로고
    • Equivalence between S-systems and Volterra-systems
    • Voit EO, Savageau MA: Equivalence between S-systems and Volterra-systems. Math Biosci 1986, 78:47-55.
    • (1986) Math Biosci , vol.78 , pp. 47-55
    • Voit, E.O.1    Savageau, M.A.2
  • 42
    • 0030002954 scopus 로고    scopus 로고
    • Rules for coupled expression of regulator and effector genes in inducible circuits
    • Hlavacek WS, Savageau MA: Rules for coupled expression of regulator and effector genes in inducible circuits. J Mol Biol 1996, 255:121-139.
    • (1996) J Mol Biol , vol.255 , pp. 121-139
    • Hlavacek, W.S.1    Savageau, M.A.2
  • 43
    • 0037686295 scopus 로고    scopus 로고
    • Killing the messenger: Short RNAs that silence gene expression
    • Dykxhoorn DM, Novina CD, Sharp PA: Killing the messenger: Short RNAs that silence gene expression. Nat Rev Mol Cell Biol 2003, 4:457-467.
    • (2003) Nat Rev Mol Cell Biol , vol.4 , pp. 457-467
    • Dykxhoorn, D.M.1    Novina, C.D.2    Sharp, P.A.3
  • 45
    • 0036469175 scopus 로고    scopus 로고
    • Predictive non-linear modeling of complex data by artificial neural networks
    • Almeida J: Predictive non-linear modeling of complex data by artificial neural networks. Curr Opin Biotechnol 2002, 13:72-76.
    • (2002) Curr Opin Biotechnol , vol.13 , pp. 72-76
    • Almeida, J.1
  • 46
    • 0024866495 scopus 로고
    • On the approximate realization of continuous mappings by neural networks
    • Funahashi K,I,: On the approximate realization of continuous mappings by neural networks. Neural Networks 1989, 2:183-192.
    • (1989) Neural Networks , vol.2 , pp. 183-192
    • Funahashi, K.I.1
  • 47
    • 0000482208 scopus 로고    scopus 로고
    • Deriving chemical and biochemical model networks from experimental measurements
    • Sorribas A, Lozano JB, Fairén V: Deriving chemical and biochemical model networks from experimental measurements. Recent Res Devel Phys Chem 1998, 2:553-573.
    • (1998) Recent Res Devel Phys Chem , vol.2 , pp. 553-573
    • Sorribas, A.1    Lozano, J.B.2    Fairén, V.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.