메뉴 건너뛰기




Volumn 105, Issue 2, 2011, Pages 162-168

An application programming interface for CellNetAnalyzer

Author keywords

Constraint based modeling; Elementary modes; Metabolic networks; Network analysis; Signaling networks; Systems biology

Indexed keywords

ALGORITHM; BIOLOGY; DATA PROCESSING; DATA SET; GRAPHICAL METHOD; MAP; METABOLISM; NETWORK ANALYSIS; NUMERICAL MODEL; SIGNAL; SOFTWARE; VISUALIZATION; WORLD WIDE WEB;

EID: 79960375921     PISSN: 03032647     EISSN: 18728324     Source Type: Journal    
DOI: 10.1016/j.biosystems.2011.02.002     Document Type: Article
Times cited : (45)

References (28)
  • 2
    • 34347258175 scopus 로고    scopus 로고
    • Quantitative prediction of cellular metabolism with constraint-based models: the COBRA Toolbox
    • Becker S.A., Feist A.M., Mo M.L., Hannum G., Palsson B.O., Herrgard M.J. Quantitative prediction of cellular metabolism with constraint-based models: the COBRA Toolbox. Nat. Protoc. 2007, 2:727-738.
    • (2007) Nat. Protoc. , vol.2 , pp. 727-738
    • Becker, S.A.1    Feist, A.M.2    Mo, M.L.3    Hannum, G.4    Palsson, B.O.5    Herrgard, M.J.6
  • 4
    • 77957117220 scopus 로고    scopus 로고
    • Computationally efficient flux variability analysis
    • Gudmundsson S., Thiele I. Computationally efficient flux variability analysis. BMC Bioinformatics 2010, 11:489.
    • (2010) BMC Bioinformatics , vol.11 , pp. 489
    • Gudmundsson, S.1    Thiele, I.2
  • 5
    • 77952585143 scopus 로고    scopus 로고
    • CASOP: a computational approach for strain optimization aiming at high productivity
    • Hädicke O., Klamt S. CASOP: a computational approach for strain optimization aiming at high productivity. J. Biotechnol. 2010, 147:88-101.
    • (2010) J. Biotechnol. , vol.147 , pp. 88-101
    • Hädicke, O.1    Klamt, S.2
  • 6
    • 85194568481 scopus 로고    scopus 로고
    • Computing complex metabolic intervention strategies using constrained minimal cut sets
    • 2010 Dec 13. [Epub ahead of print].
    • Hädicke, O., Klamt, S., 2010b. Computing complex metabolic intervention strategies using constrained minimal cut sets. Metab. Eng. 2010 Dec 13. [Epub ahead of print].
    • (2010) Metab. Eng.
    • Hädicke, O.1    Klamt, S.2
  • 9
    • 32144453095 scopus 로고    scopus 로고
    • Generalized concept of minimal cut sets in biochemical networks
    • Klamt S. Generalized concept of minimal cut sets in biochemical networks. Biosystems 2006, 83:233-247.
    • (2006) Biosystems , vol.83 , pp. 233-247
    • Klamt, S.1
  • 10
    • 77955867869 scopus 로고    scopus 로고
    • TRANSWESD: inferring cellular networks with transitive reduction
    • Klamt S., Flassig R.J., Sundmacher K. TRANSWESD: inferring cellular networks with transitive reduction. Bioinformatics 2010, 26:2160-2168.
    • (2010) Bioinformatics , vol.26 , pp. 2160-2168
    • Klamt, S.1    Flassig, R.J.2    Sundmacher, K.3
  • 11
    • 1042269472 scopus 로고    scopus 로고
    • Minimal cut sets in biochemical reaction networks
    • Klamt S., Gilles E.D. Minimal cut sets in biochemical reaction networks. Bioinformatics 2004, 20:226-234.
    • (2004) Bioinformatics , vol.20 , pp. 226-234
    • Klamt, S.1    Gilles, E.D.2
  • 12
    • 34447551397 scopus 로고    scopus 로고
    • Structural and functional analysis of cellular networks with CellNetAnalyzer
    • Klamt S., Saez-Rodriguez J., Gilles E.D. Structural and functional analysis of cellular networks with CellNetAnalyzer. BMC Syst. Biol. 2007, 1:2.
    • (2007) BMC Syst. Biol. , vol.1 , pp. 2
    • Klamt, S.1    Saez-Rodriguez, J.2    Gilles, E.D.3
  • 14
    • 67650517797 scopus 로고    scopus 로고
    • Computing paths and cycles in biological interaction graphs
    • Klamt S., von Kamp A. Computing paths and cycles in biological interaction graphs. BMC Bioinformatics 2009, 10:181.
    • (2009) BMC Bioinformatics , vol.10 , pp. 181
    • Klamt, S.1    von Kamp, A.2
  • 17
    • 51749122228 scopus 로고    scopus 로고
    • Dynamical modeling and multi-experiment fitting with PottersWheel
    • Maiwald T., Timmer J. Dynamical modeling and multi-experiment fitting with PottersWheel. Bioinformatics 2008, 24:2037-2043.
    • (2008) Bioinformatics , vol.24 , pp. 2037-2043
    • Maiwald, T.1    Timmer, J.2
  • 19
    • 65649126411 scopus 로고    scopus 로고
    • Flux balance analysis: interrogating genome-scale metabolic networks
    • Oberhardt M.A., Chavali A.K., Papin J.A. Flux balance analysis: interrogating genome-scale metabolic networks. Methods Mol. Biol. 2009, 500:61-80.
    • (2009) Methods Mol. Biol. , vol.500 , pp. 61-80
    • Oberhardt, M.A.1    Chavali, A.K.2    Papin, J.A.3
  • 20
    • 33747193585 scopus 로고    scopus 로고
    • ScrumPy: metabolic modelling with Python
    • Poolman M.G. ScrumPy: metabolic modelling with Python. Syst. Biol. (Stevenage) 2006, 153:375-378.
    • (2006) Syst. Biol. (Stevenage) , vol.153 , pp. 375-378
    • Poolman, M.G.1
  • 23
    • 77149160061 scopus 로고    scopus 로고
    • Computing combinatorial intervention strategies and failure modes in signaling networks
    • Samaga R., Von Kamp A., Klamt S. Computing combinatorial intervention strategies and failure modes in signaling networks. J. Comput. Biol. 2010, 17:39-53.
    • (2010) J. Comput. Biol. , vol.17 , pp. 39-53
    • Samaga, R.1    Von Kamp, A.2    Klamt, S.3
  • 25
    • 32544443964 scopus 로고    scopus 로고
    • Systems Biology Toolbox for MATLAB: a computational platform for research in systems biology
    • Schmidt H., Jirstrand M. Systems Biology Toolbox for MATLAB: a computational platform for research in systems biology. Bioinformatics 2006, 22:514-515.
    • (2006) Bioinformatics , vol.22 , pp. 514-515
    • Schmidt, H.1    Jirstrand, M.2
  • 27
    • 52949098408 scopus 로고    scopus 로고
    • Large-scale computation of elementary flux modes with bit pattern trees
    • Terzer M., Stelling J. Large-scale computation of elementary flux modes with bit pattern trees. Bioinformatics 2008, 24:2229-2235.
    • (2008) Bioinformatics , vol.24 , pp. 2229-2235
    • Terzer, M.1    Stelling, J.2
  • 28
    • 33747856186 scopus 로고    scopus 로고
    • Metatool 5.0: fast and flexible elementary modes analysis
    • von Kamp A., Schuster S. Metatool 5.0: fast and flexible elementary modes analysis. Bioinformatics 2006, 22:1930-1931.
    • (2006) Bioinformatics , vol.22 , pp. 1930-1931
    • von Kamp, A.1    Schuster, S.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.