-
1
-
-
0028289467
-
Issues in searching molecular sequence database
-
Altschul, et al. Issues in searching molecular sequence database, Nat. Gen. 6 (1994) 119-129.
-
(1994)
Nat. Gen.
, vol.6
, pp. 119-129
-
-
Altschul1
-
3
-
-
0000769176
-
Mobile ambients
-
Springer, Berlin, Germany
-
L. Cardelli, A.D. Gordon, Mobile ambients, in: Foundations of Software Science and Computation Structures: First Internat. Conf., FOSSACS '98, Springer, Berlin, Germany, 1998.
-
(1998)
Foundations of Software Science and Computation Structures: First Internat. Conf., FOSSACS '98
-
-
Cardelli, L.1
Gordon, A.D.2
-
5
-
-
84958594411
-
A core modeling language for the working molecular biologist
-
C. Priami (Ed.), Rovereto, Italy, February 24-26, 2003, Lecture Notes in Computer Science, Springer, Berlin
-
M. Chiaverini, V. Danos, A core modeling language for the working molecular biologist, in: C. Priami (Ed.), Computational Methods in Systems Biology, First Internat. Workshop, CMSB 2003, Proc., Rovereto, Italy, February 24-26, 2003, Lecture Notes in Computer Science, Vol. 2602, Springer, Berlin, 2003.
-
(2003)
Computational Methods in Systems Biology, First Internat. Workshop, CMSB 2003, Proc.
, vol.2602
-
-
Chiaverini, M.1
Danos, V.2
-
6
-
-
4444278272
-
Causal π -calculus for biochemical modelling
-
C. Priami (Ed.), Rovereto, Italy, February 24-26, 2003, Lecture Notes in Computer Science, Springer, Berlin
-
V. Danos, C. Laneve, Causal π -calculus for biochemical modelling, in: C. Priami (Ed.), Computational Methods in Systems Biology, First Internat. Workshop, CMSB 2003, Proc., Rovereto, Italy, February 24-26, 2003, Lecture Notes in Computer Science, Vol. 2602, Springer, Berlin, 2003.
-
(2003)
Computational Methods in Systems Biology, First Internat. Workshop, CMSB 2003, Proc.
, vol.2602
-
-
Danos, V.1
Laneve, C.2
-
7
-
-
35048824387
-
Core formal molecular biology
-
P. Degano (Ed.), Programming Languages and Systems, Warsaw, Poland, April 7-11, 2003, Lecture Notes in Computer Science, Springer, Berlin
-
V. Danos, C. Laneve, Core formal molecular biology, in: P. Degano (Ed.), Programming Languages and Systems, 12th European Symp. on Programming, ESOP 2003, Warsaw, Poland, April 7-11, 2003, Lecture Notes in Computer Science, Vol. 2618, Springer, Berlin, 2003.
-
(2003)
12th European Symp. on Programming, ESOP 2003
, vol.2618
-
-
Danos, V.1
Laneve, C.2
-
8
-
-
0000631298
-
Non-interleaving semantics for mobile processes
-
Degano P., Priami C. Non-interleaving semantics for mobile processes. Theoret. Comput. Sci. 216(1, 2):1999;237-270.
-
(1999)
Theoret. Comput. Sci.
, vol.216
, Issue.1-2
, pp. 237-270
-
-
Degano, P.1
Priami, C.2
-
9
-
-
0011122770
-
Enhanced operational semantics: A tool for describing and analysing concurrent systems
-
Degano P., Priami C. Enhanced operational semantics. a tool for describing and analysing concurrent systems ACM Comput. Surv. 33(2):2001;135-176.
-
(2001)
ACM Comput. Surv.
, vol.33
, Issue.2
, pp. 135-176
-
-
Degano, P.1
Priami, C.2
-
10
-
-
4444319409
-
Eos for system biology
-
C. Priami (Ed.), Rovereto, Italy, February 24-26, 2003, Lecture Notes in Computer Science, Springer, Berlin
-
P. Degano, C. Priami, Eos for system biology, in: C. Priami (Ed.), Computational Methods in Systems Biology, First Internat. Workshop, CMSB 2003, Proc., Rovereto, Italy, February 24-26, 2003, Lecture Notes in Computer Science, Vol. 2602, Springer, Berlin, 2003.
-
(2003)
Computational Methods in Systems Biology, First Internat. Workshop, CMSB 2003, Proc.
, vol.2602
-
-
Degano, P.1
Priami, C.2
-
11
-
-
0036364829
-
Pathway logic: Symbolic analysis of biological signaling
-
S. Eker, M. Knapp, K. Laderoute, P. Lincoln, J. Meseguer, K. Sonmez, Pathway logic: symbolic analysis of biological signaling, in: Proc. Pacific Symp. on Biocomputing, 2002, pp. 400-412.
-
(2002)
Proc. Pacific Symp. on Biocomputing
, pp. 400-412
-
-
Eker, S.1
Knapp, M.2
Laderoute, K.3
Lincoln, P.4
Meseguer, J.5
Sonmez, K.6
-
12
-
-
0035905782
-
Modelling cellular behaviour
-
Endy D., Brent R. Modelling cellular behaviour. Nature. 409:2001;391-395.
-
(2001)
Nature
, vol.409
, pp. 391-395
-
-
Endy, D.1
Brent, R.2
-
13
-
-
0002321760
-
-
Addison-Wesley, Reading MA
-
W. Fontana, L.W. Buss, The Barrier of Objects: From Dynamical System to Bounded Organizations, Addison-Wesley, Reading MA, 1996, pp. 56-116.
-
(1996)
The Barrier of Objects: From Dynamical System to Bounded Organizations
, pp. 56-116
-
-
Fontana, W.1
Buss, L.W.2
-
14
-
-
0017030517
-
A general method for numerically simulating the stochastic time evolution of coupled chemical reactions
-
Gillespie D.T. A general method for numerically simulating the stochastic time evolution of coupled chemical reactions. J. Comput. Phys. 22:1976;403-434.
-
(1976)
J. Comput. Phys.
, vol.22
, pp. 403-434
-
-
Gillespie, D.T.1
-
15
-
-
33645429016
-
Exact stochastic simulation of coupled chemical reactions
-
Gillespie D.T. Exact stochastic simulation of coupled chemical reactions. J. Phys. Chem. 81:1977;2340-2361.
-
(1977)
J. Phys. Chem.
, vol.81
, pp. 2340-2361
-
-
Gillespie, D.T.1
-
17
-
-
0032499741
-
Quantitative modeling of stochastic systems in molecular biology by using stochastic Petri nets
-
USA
-
P.J.E. Goss, J. Peccoud, Quantitative modeling of stochastic systems in molecular biology by using stochastic Petri nets, in: Proc. of the National Academy of Sciences, USA, No. 12, 1998, pp. 6750-6754.
-
(1998)
Proc. of the National Academy of Sciences
, Issue.12
, pp. 6750-6754
-
-
Goss, P.J.E.1
Peccoud, J.2
-
18
-
-
0008611714
-
Analysis and simulation of steady states in metabolic pathways with petri nets
-
K. Jensen (Ed.)
-
M. Heiner, I. Koch, K. Voss, Analysis and simulation of steady states in metabolic pathways with petri nets, in: K. Jensen (Ed.), CPN'01-Third Workshop and Tutorial on Practical Use of Coloured Petri Nets and the CPN Tools, 2001, pp. 15-34.
-
(2001)
CPN'01-Third Workshop and Tutorial on Practical Use of Coloured Petri Nets and the CPN Tools
, pp. 15-34
-
-
Heiner, M.1
Koch, I.2
Voss, K.3
-
19
-
-
84958609259
-
Model validation of biological pathway using petri nets - Demonstrated for apoptosis
-
C. Priami (Ed.), Rovereto, Proc., Italy, February 24-26, 2003, Lecture Notes in Computer Science, Springer, Berlin
-
M. Heiner, I. Koch, J. Will, Model validation of biological pathway using petri nets - demonstrated for apoptosis, in: C. Priami (Ed.), Computational Methods in Systems Biology, First Internat. Workshop, CMSB 2003, Rovereto, Proc., Italy, February 24-26, 2003, Lecture Notes in Computer Science, Vol. 2602, Springer, Berlin, 2003.
-
(2003)
Computational Methods in Systems Biology, First Internat. Workshop, CMSB 2003
, vol.2602
-
-
Heiner, M.1
Koch, I.2
Will, J.3
-
20
-
-
0032229446
-
Quantitative modeling of biochemical networks
-
Hofestädt R., Thelen S. Quantitative modeling of biochemical networks. In. Silico Biol. 1(1):1998;39-53.
-
(1998)
Silico Biol.
, vol.1
, Issue.1
, pp. 39-53
-
-
Hofestädt, R.1
Thelen, S.2
-
21
-
-
0043085211
-
Computational models of immunological pathways
-
Sheffield, UK
-
M. Holcombe, A. Bell, Computational Models of Immunological Pathways, Proceedings of IPCAT 97, Sheffield, UK, 1997, pp. 213-226.
-
(1997)
Proceedings of IPCAT 97
, pp. 213-226
-
-
Holcombe, M.1
Bell, A.2
-
22
-
-
0037342537
-
The System biology markup language (SBML): A medium for representation and exchange of biochemical network models
-
Hucka M., et al. The System biology markup language (SBML): a medium for representation and exchange of biochemical network models. Bioinformatics. 19:2003;524-531.
-
(2003)
Bioinformatics
, vol.19
, pp. 524-531
-
-
Hucka, M.1
-
23
-
-
1242333959
-
The immune system as a reactive system: Modelling tall activation with statecharts
-
The Weizmann Institute of Science, Rehovot, Israel, June
-
N. Kam, I.R. Cohen, D. Harel, The immune system as a reactive system: modelling t all activation with statecharts, Tech. Rep MCS01-09, The Weizmann Institute of Science, Rehovot, Israel, June 2001.
-
(2001)
Tech. Rep MCS01-09
-
-
Kam, N.1
Cohen, I.R.2
Harel, D.3
-
24
-
-
3042780252
-
Modelling biological nactivity: Statecharts vs. boolean logic
-
Pasadena, CA, USA, November
-
N. Kam, D. Harel, I.R. Cohen, Modelling biological nactivity: statecharts vs. boolean logic, Proc. 2nd Int. Conf. on Systems Biology, Pasadena, CA, USA, November 2001.
-
(2001)
Proc. 2nd Int. Conf. on Systems Biology
-
-
Kam, N.1
Harel, D.2
Cohen, I.R.3
-
25
-
-
0034093737
-
Signal transduction by the tcr for antigen
-
Kane L.P., Lin J., Weiss A. Signal transduction by the tcr for antigen. Curr. Opin. Immunol. 12:2000;242-249.
-
(2000)
Curr. Opin. Immunol.
, vol.12
, pp. 242-249
-
-
Kane, L.P.1
Lin, J.2
Weiss, A.3
-
26
-
-
0033982936
-
Kegg: Kyoto encyclopedia of genes and genomes
-
Kanehisa M., Goto S. Kegg. Kyoto encyclopedia of genes and genomes Nucleic Acids Res. 28(1):2000;27-30.
-
(2000)
Nucleic Acids Res.
, vol.28
, Issue.1
, pp. 27-30
-
-
Kanehisa, M.1
Goto, S.2
-
27
-
-
0034040680
-
An ontology for biological function based on molecular interactions
-
Karp P.D. An ontology for biological function based on molecular interactions. Bioinformatics. 16:2000;269-285.
-
(2000)
Bioinformatics
, vol.16
, pp. 269-285
-
-
Karp, P.D.1
-
28
-
-
0035860545
-
Pathway databases: A case study in computational symbolic theories
-
Karp P.D. Pathway databases. a case study in computational symbolic theories Science. 293:2001;2040-2044.
-
(2001)
Science
, vol.293
, pp. 2040-2044
-
-
Karp, P.D.1
-
29
-
-
0032895464
-
Eco cyc: Encyclopedia of Escherichia coli genes and metabolism
-
Karp P.D., Riley M., Paley S.M., Pellegrini-Toole A., Krummenacker M. Eco cyc. encyclopedia of Escherichia coli genes and metabolism Nucleic Acids Res. 27(1):1999;55-58.
-
(1999)
Nucleic Acids Res.
, vol.27
, Issue.1
, pp. 55-58
-
-
Karp, P.D.1
Riley, M.2
Paley, S.M.3
Pellegrini-Toole, A.4
Krummenacker, M.5
-
30
-
-
0032776303
-
Molecular interaction map of the mammalian cell cycle control and dna repair systems
-
Kohn K.W. Molecular interaction map of the mammalian cell cycle control and dna repair systems. Molecular Biology of the Cell. 10:1999;2703-2734.
-
(1999)
Molecular Biology of the Cell
, vol.10
, pp. 2703-2734
-
-
Kohn, K.W.1
-
31
-
-
0025804163
-
Identification of regulatory properties of metabolic networks by graph theoretical modeling
-
Kohn M.C., Lemieux D.R. Identification of regulatory properties of metabolic networks by graph theoretical modeling. J. Theoret. Biol. 150:1991;3-25.
-
(1991)
J. Theoret. Biol.
, vol.150
, pp. 3-25
-
-
Kohn, M.C.1
Lemieux, D.R.2
-
32
-
-
0031712214
-
Genenet: A gene network database and its automated visualization
-
Kolpakov F.A., Ananko E.A., Kolesov G.B., Kolchanov N.A. Genenet. a gene network database and its automated visualization Bioinformatics. 14(8):1998;529-537.
-
(1998)
Bioinformatics
, vol.14
, Issue.8
, pp. 529-537
-
-
Kolpakov, F.A.1
Ananko, E.A.2
Kolesov, G.B.3
Kolchanov, N.A.4
-
33
-
-
0033648431
-
Hybrid petri net representation of gene regulatory network
-
H. Matsuno, A. Doi, M. Nagasaki, S. Miyano, Hybrid petri net representation of gene regulatory network, in: Pacific Symp. on Biocomputing, 2000.
-
(2000)
Pacific Symp. on Biocomputing
-
-
Matsuno, H.1
Doi, A.2
Nagasaki, M.3
Miyano, S.4
-
34
-
-
0034565532
-
An evaluation of ontology exchange languages for bioinformatics
-
R. Altman, L. Bailey, Timothy, P. Bourne, M. Gribskov, T. Lengauer, I.N. Shindyalov (Eds.), AAAI Press, Menlo Park, CA, August 16-23
-
R. McEntire, P. Karp, N. Abernethy, D. Benton, G. Helt, M. DeJongh, R. Kent, A. Kosky, S. Lewis, D. Hodnett, E. Neumann, F. Olken, D. Pathak, P. Tarczy-Hornoch, L. Toldo, T. Topaloglou, An evaluation of ontology exchange languages for bioinformatics, in: R. Altman, L. Bailey, Timothy, P. Bourne, M. Gribskov, T. Lengauer, I.N. Shindyalov (Eds.), Proc. of the 8th Internat. Conf. on Intelligent Systems for Molecular (ISMB-00), AAAI Press, Menlo Park, CA, August 16-23, 2000, pp. 239-250.
-
(2000)
Proc. of the 8th Internat. Conf. on Intelligent Systems for Molecular (ISMB-00)
, pp. 239-250
-
-
McEntire, R.1
Karp, P.2
Abernethy, N.3
Benton, D.4
Helt, G.5
Dejongh, M.6
Kent, R.7
Kosky, A.8
Lewis, S.9
Hodnett, D.10
Neumann, E.11
Olken, F.12
Pathak, D.13
Tarczy-Hornoch, P.14
Toldo, L.15
Topaloglou, T.16
-
35
-
-
0027370376
-
Gepasi: A software package for modelling the dynamics, steady states and control of biochemical and other systems
-
Mendes P. Gepasi. a software package for modelling the dynamics, steady states and control of biochemical and other systems Comput. Appl. Biosci. 9(5):1993;563-571.
-
(1993)
Comput. Appl. Biosci.
, vol.9
, Issue.5
, pp. 563-571
-
-
Mendes, P.1
-
37
-
-
84976193394
-
Functions as processes
-
Milner R. Functions as processes. Math. Struct. CS. 2(2):1992;119-141.
-
(1992)
Math. Struct. CS
, vol.2
, Issue.2
, pp. 119-141
-
-
Milner, R.1
-
39
-
-
44049113210
-
A calculus of mobile processes (i and ii)
-
Milner R., Parrow J., Walker D. A calculus of mobile processes (i and ii). Inform. Comput. 100(1):1992;1-72.
-
(1992)
Inform. Comput.
, vol.100
, Issue.1
, pp. 1-72
-
-
Milner, R.1
Parrow, J.2
Walker, D.3
-
40
-
-
0030740189
-
Qualitative modeling of normal blood coagulation and its pathological states using stochastic activity networks
-
Mounts W.M., Liebman M.N. Qualitative modeling of normal blood coagulation and its pathological states using stochastic activity networks. Internat. J. Biol. Macromol. 20:1997;265-281.
-
(1997)
Internat. J. Biol. Macromol.
, vol.20
, pp. 265-281
-
-
Mounts, W.M.1
Liebman, M.N.2
-
42
-
-
0035481247
-
Performance evaluation of mobile processes via abstract machines
-
Nottegar C., Priami C., Degano P. Performance evaluation of mobile processes via abstract machines. IEEE Trans. Software Engrg. 27(10):2001;867-889.
-
(2001)
IEEE Trans. Software Engrg.
, vol.27
, Issue.10
, pp. 867-889
-
-
Nottegar, C.1
Priami, C.2
Degano, P.3
-
43
-
-
0032919364
-
Kegg: Kyoto encyclopedia of genes and genomes
-
Ogata H., Goto S., Sato K., Fujibuchi W., Bono H., Kanehisa M. Kegg. Kyoto encyclopedia of genes and genomes Nucleic Acid Res. 27(1):2000;29-34.
-
(2000)
Nucleic Acid Res.
, vol.27
, Issue.1
, pp. 29-34
-
-
Ogata, H.1
Goto, S.2
Sato, K.3
Fujibuchi, W.4
Bono, H.5
Kanehisa, M.6
-
44
-
-
0036300225
-
Modeling biological processes using workflow and petri net models
-
Peleg M., Yeh I., Altman R. Modeling biological processes using workflow and petri net models. Bioinformatics. 18:2002;825-837.
-
(2002)
Bioinformatics
, vol.18
, pp. 825-837
-
-
Peleg, M.1
Yeh, I.2
Altman, R.3
-
45
-
-
84974715948
-
Stochastic π -calculus
-
Priami C. Stochastic. π -calculus Comput. J. 38(6):1995;578-589.
-
(1995)
Comput. J.
, vol.38
, Issue.6
, pp. 578-589
-
-
Priami, C.1
-
46
-
-
0037098847
-
Language-based performance prediction for distributed and mobile systems
-
Priami C. Language-based performance prediction for distributed and mobile systems. Inform. and Comput. 175:2002.
-
(2002)
Inform. and Comput.
, vol.175
-
-
Priami, C.1
-
47
-
-
0035888407
-
Application of a stochastic passing-name calculus to representation and simulation of molecular processes
-
Priami C., Regev A., Silverman W., Shapiro E. Application of a stochastic passing-name calculus to representation and simulation of molecular processes. Inform. Process. Lett. 80:2001;25-31.
-
(2001)
Inform. Process. Lett.
, vol.80
, pp. 25-31
-
-
Priami, C.1
Regev, A.2
Silverman, W.3
Shapiro, E.4
-
48
-
-
0030973579
-
Transcription factors of the nfat family: Regulation and function
-
Rao A., Luo C., Hogan P.G. Transcription factors of the nfat family. regulation and function Ann. Rev. Immunol. 15:1997;707-747.
-
(1997)
Ann. Rev. Immunol.
, vol.15
, pp. 707-747
-
-
Rao, A.1
Luo, C.2
Hogan, P.G.3
-
51
-
-
0037179670
-
Cells as computations
-
Regev A., Shapiro E. Cells as computations. Nature. 419:2002;343.
-
(2002)
Nature
, vol.419
, pp. 343
-
-
Regev, A.1
Shapiro, E.2
-
52
-
-
0035235039
-
Representation and simulation of biochemical processes using the π -calculus process algebra
-
A. Regev, W. Silverman, E. Shapiro, Representation and simulation of biochemical processes using the π -calculus process algebra, in: Pacific Symp. of Biocomputing (PSB2001), 2001, pp. 459-470.
-
(2001)
Pacific Symp. of Biocomputing (PSB2001)
, pp. 459-470
-
-
Regev, A.1
Silverman, W.2
Shapiro, E.3
-
54
-
-
0005386225
-
The ERATO systems biology workbench: Architectural evolution
-
T.M. Yi, M. Hucka, H. Kitano (Eds.)
-
M. Hucka, A. Finney, H. Sauro, H. Bolouri, The ERATO systems biology workbench: architectural evolution, in: T.M. Yi, M. Hucka, H. Kitano (Eds.), Proc. 2nd International Conference on Systems Biology, 2001.
-
(2001)
Proc. 2nd International Conference on Systems Biology
-
-
Hucka, M.1
Finney, A.2
Sauro, H.3
Bolouri, H.4
-
55
-
-
0033031386
-
E-CELL: Software environment for whole-cell simulation
-
Tomita M., et al. E-CELL. software environment for whole-cell simulation Bioinformatics. 15:1998;72-84.
-
(1998)
Bioinformatics
, vol.15
, pp. 72-84
-
-
Tomita, M.1
-
56
-
-
4444222629
-
-
Xml web site: http://www.w3.org/xml.
-
Xml Web Site
-
-
|