메뉴 건너뛰기




Volumn 4860 LNCS, Issue , 2007, Pages 353-366

Towards a complete covering of SBML functionalities

Author keywords

[No Author keywords available]

Indexed keywords

BIOLOGICAL SYSTEMS; COMPUTATIONAL METHODS; INFORMATION ANALYSIS; MATHEMATICAL MODELS; SOFTWARE ARCHITECTURE;

EID: 38549162571     PISSN: 03029743     EISSN: 16113349     Source Type: Book Series    
DOI: 10.1007/978-3-540-77312-2_22     Document Type: Conference Paper
Times cited : (5)

References (36)
  • 3
    • 33845214005 scopus 로고    scopus 로고
    • Cavaliere, M., Sedwards, S.: Modelling cellular processes using membrane systems with peripheral and integral proteins. In: Priami, C. (ed.) CMSB 2006. LNCS (LNBI), 4210, pp. 108-126. Springer, Heidelberg (2006)
    • Cavaliere, M., Sedwards, S.: Modelling cellular processes using membrane systems with peripheral and integral proteins. In: Priami, C. (ed.) CMSB 2006. LNCS (LNBI), vol. 4210, pp. 108-126. Springer, Heidelberg (2006)
  • 5
    • 33751376743 scopus 로고    scopus 로고
    • Supporting the sbml layout extension
    • Deckard, A., Bergmann, F.T., Sauro, H.M.: Supporting the sbml layout extension. Bioinformatics 22(23), 2966-2967 (2006)
    • (2006) Bioinformatics , vol.22 , Issue.23 , pp. 2966-2967
    • Deckard, A.1    Bergmann, F.T.2    Sauro, H.M.3
  • 6
    • 33845352304 scopus 로고    scopus 로고
    • Design and implementation of a tool for translating sbml into the biochemical stochastic pi-calculus
    • Eccher, C., Priami, C.: Design and implementation of a tool for translating sbml into the biochemical stochastic pi-calculus. Bioinformatics 22(24), 3075-3308 (2006)
    • (2006) Bioinformatics , vol.22 , Issue.24 , pp. 3075-3308
    • Eccher, C.1    Priami, C.2
  • 7
    • 0032938036 scopus 로고    scopus 로고
    • The biopolymer markup language
    • Fenyo, D.: The biopolymer markup language. Bioinformatics 15(4), 339-340 (1999)
    • (1999) Bioinformatics , vol.15 , Issue.4 , pp. 339-340
    • Fenyo, D.1
  • 8
    • 0348049802 scopus 로고    scopus 로고
    • Systems biology markup language: Level 2 and beyond
    • Finney, A.M., Hucka, M.: Systems biology markup language: Level 2 and beyond. Biochem. Soc. Trans. 31, 1472-1473 (2003)
    • (2003) Biochem. Soc. Trans , vol.31 , pp. 1472-1473
    • Finney, A.M.1    Hucka, M.2
  • 9
    • 84901407432 scopus 로고    scopus 로고
    • Project GlassFish
    • Project GlassFish: The jaxb project, https://jaxb.dev.java.net/
    • The jaxb project
  • 10
    • 0036455918 scopus 로고    scopus 로고
    • Proml - the protein markup language for specification of protein sequences, structures and families
    • Hanisch, D., Zimmer, R., Lengauer, T.: Proml - the protein markup language for specification of protein sequences, structures and families. In Silico Biology 2(3), 313-324 (2002)
    • (2002) In Silico Biology , vol.2 , Issue.3 , pp. 313-324
    • Hanisch, D.1    Zimmer, R.2    Lengauer, T.3
  • 12
    • 0742323374 scopus 로고    scopus 로고
    • The hupopsiŠs molecular interaction format - a community standard for the representation of protein interaction data
    • Hermjakob, H., et al.: The hupopsiŠs molecular interaction format - a community standard for the representation of protein interaction data. Nature Biotechnol. 22(2), 177-183 (2004)
    • (2004) Nature Biotechnol , vol.22 , Issue.2 , pp. 177-183
    • Hermjakob, H.1
  • 13
    • 0037342537 scopus 로고    scopus 로고
    • The systems biology markup language (sbml): A medium for representation and exchange of biochemical network models
    • Hucka, M., et al.: The systems biology markup language (sbml): a medium for representation and exchange of biochemical network models. Bioinformatics 19(4), 524-531 (2003)
    • (2003) Bioinformatics , vol.19 , Issue.4 , pp. 524-531
    • Hucka, M.1
  • 15
    • 38549093354 scopus 로고    scopus 로고
    • LabBook Inc.: Bsml (bioinformatics sequence markup language) 2.2 (2002), http://www.labbook.com/products/xmlbsml.asp
    • LabBook Inc.: Bsml (bioinformatics sequence markup language) 2.2 (2002), http://www.labbook.com/products/xmlbsml.asp
  • 17
    • 0033982936 scopus 로고    scopus 로고
    • Kegg: Kyoto encyclopedia of genes and genomes
    • Kanehisa, M., Goto, S.: Kegg: Kyoto encyclopedia of genes and genomes. Nucleic Acids Research 28(1), 27-30 (2000)
    • (2000) Nucleic Acids Research , vol.28 , Issue.1 , pp. 27-30
    • Kanehisa, M.1    Goto, S.2
  • 18
    • 33646884848 scopus 로고    scopus 로고
    • Sbmltoolbox: An sbml toolbox for matlab users
    • Keating, S.M., Bornstein, B.J., Finney, A., Hucka, M.: Sbmltoolbox: an sbml toolbox for matlab users. Bioinformatics 22(10), 1275-1277 (2006)
    • (2006) Bioinformatics , vol.22 , Issue.10 , pp. 1275-1277
    • Keating, S.M.1    Bornstein, B.J.2    Finney, A.3    Hucka, M.4
  • 19
    • 0034019315 scopus 로고    scopus 로고
    • Negative feedback and ultrasensitivity can bring about oscillations in the mitogen-activated protein kinase cascades
    • Kholodenko, B.N.: Negative feedback and ultrasensitivity can bring about oscillations in the mitogen-activated protein kinase cascades. Eur. J. Biochem 267, 1583-1588 (2000)
    • (2000) Eur. J. Biochem , vol.267 , pp. 1583-1588
    • Kholodenko, B.N.1
  • 20
    • 38549174921 scopus 로고    scopus 로고
    • Kleingeld, P., Brown, E.: Cosmopolitanism. In: The Stanford Encyclopedia of Philosophy, Edward N. Zalta (winter 2006)
    • Kleingeld, P., Brown, E.: Cosmopolitanism. In: The Stanford Encyclopedia of Philosophy, Edward N. Zalta (winter 2006)
  • 22
    • 0036646530 scopus 로고    scopus 로고
    • The chemical markup language
    • Liao, Y.M., Ghanadan, H.: The chemical markup language. Anal. Chem. 74(13), 389A-390A (2002)
    • (2002) Anal. Chem , vol.74 , Issue.13
    • Liao, Y.M.1    Ghanadan, H.2
  • 23
    • 33745631242 scopus 로고    scopus 로고
    • The sbml ode solver library: A native api for symbolic and fast numerical analysis of reaction networks
    • Machné, R., Finney, A., Müller, S., Lu, J., Widder, S., Flamm, C.: The sbml ode solver library: a native api for symbolic and fast numerical analysis of reaction networks. Bioinformatics 22(11), 1406-1407 (2006)
    • (2006) Bioinformatics , vol.22 , Issue.11 , pp. 1406-1407
    • Machné, R.1    Finney, A.2    Müller, S.3    Lu, J.4    Widder, S.5    Flamm, C.6
  • 25
    • 0027370376 scopus 로고
    • Gepasi: A software package for modeling the dynamics, steady states, and control of biochemical and other systems
    • Mendes, P.: Gepasi: a software package for modeling the dynamics, steady states, and control of biochemical and other systems. Comput. Applic. Biosci. 9, 563-571 (1993)
    • (1993) Comput. Applic. Biosci , vol.9 , pp. 563-571
    • Mendes, P.1
  • 27
    • 38549104783 scopus 로고    scopus 로고
    • Centre for Computational and Systems Biology
    • The Microsoft Research University of Trento
    • The Microsoft Research University of Trento. Centre for Computational and Systems Biology. Web page of Cyto-Sim (2006), http://www.cosbi.eu/ Rpty_Soft_CytoSim.php
    • (2006) Web page of Cyto-Sim
  • 28
    • 4544344218 scopus 로고    scopus 로고
    • Web-based modelling using jws online
    • Olivier, B.G., Snoep, J.L.: Web-based modelling using jws online. Bioinformatics 20, 2143-2144 (2004)
    • (2004) Bioinformatics , vol.20 , pp. 2143-2144
    • Olivier, B.G.1    Snoep, J.L.2
  • 29
    • 38549140372 scopus 로고    scopus 로고
    • Apache XML project
    • Apache XML project: Xerces2 java parser 2.9.0 (2004), http://xml.apache.org/xerces2-j/
    • (2004) Xerces2 java parser 2.9.0
  • 30
    • 33947623106 scopus 로고    scopus 로고
    • Sbmleditor: Effective creation of models in the systems biology markup language (sbml)
    • published online March
    • Rodriguez, N., Donizelli, M., Le Novère, N.: Sbmleditor: effective creation of models in the systems biology markup language (sbml). Bioinformatics 8(79) (published online March 2007)
    • (2007) Bioinformatics , vol.8 , Issue.79
    • Rodriguez, N.1    Donizelli, M.2    Le Novère, N.3
  • 31
    • 0034634571 scopus 로고    scopus 로고
    • Understanding glucose transport by the bacterial phosphoenolpyruvate: Glycose phosphotransferase system on the basis of kinetic measurements in vitro
    • Rohwer, J.M., Meadowi, N.D., Rosemani, S., Westerhoff, H.V., Postma, P.W.: Understanding glucose transport by the bacterial phosphoenolpyruvate: glycose phosphotransferase system on the basis of kinetic measurements in vitro. The Journal of Biological Chemistry 275(45), 34909-34921 (2000)
    • (2000) The Journal of Biological Chemistry , vol.275 , Issue.45 , pp. 34909-34921
    • Rohwer, J.M.1    Meadowi, N.D.2    Rosemani, S.3    Westerhoff, H.V.4    Postma, P.W.5
  • 33
    • 8844269072 scopus 로고    scopus 로고
    • Mathsbml: A package for manipulating sbml-based biological models
    • Shapiro, B.E., Hucka, M., Finney, A., Doyle, J.: Mathsbml: a package for manipulating sbml-based biological models. Bioinformatics 20(16), 2829-2831 (2004)
    • (2004) Bioinformatics , vol.20 , Issue.16 , pp. 2829-2831
    • Shapiro, B.E.1    Hucka, M.2    Finney, A.3    Doyle, J.4
  • 34
    • 0037163144 scopus 로고    scopus 로고
    • Spellman, P.T., Miller, M.: Design and implementation of microarray gene expression markup language (mage-ml). Genome Biol. 3(9), 0046.0041-0046.0049 (2002)
    • Spellman, P.T., Miller, M.: Design and implementation of microarray gene expression markup language (mage-ml). Genome Biol. 3(9), 0046.0041-0046.0049 (2002)
  • 35
    • 0037337307 scopus 로고    scopus 로고
    • A systematic approach to modeling, capturing, and disseminating proteomics experimental data
    • Taylor, C.F., Paton, N.W.: A systematic approach to modeling, capturing, and disseminating proteomics experimental data. Nature Biotechnol. 21, 247-254 (2003)
    • (2003) Nature Biotechnol , vol.21 , pp. 247-254
    • Taylor, C.F.1    Paton, N.W.2
  • 36
    • 33750415038 scopus 로고    scopus 로고
    • Sbml-pet: A systems biology markup language-based parameter estimation tool
    • Zhike, Z., Klipp, E.: Sbml-pet: a systems biology markup language-based parameter estimation tool. Bioinformatics 22(21), 2704-2705 (2006)
    • (2006) Bioinformatics , vol.22 , Issue.21 , pp. 2704-2705
    • Zhike, Z.1    Klipp, E.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.