-
1
-
-
0742305866
-
Network biology: understanding the cell's functional organization
-
Barabasi A.-L., and Oltvai Z.N. Network biology: understanding the cell's functional organization. Nat. Rev. Genet. 5 2 (2004) 101-113
-
(2004)
Nat. Rev. Genet.
, vol.5
, Issue.2
, pp. 101-113
-
-
Barabasi, A.-L.1
Oltvai, Z.N.2
-
2
-
-
0036948420
-
Allosteric cascade of spliceosome activation
-
Brow A.D. Allosteric cascade of spliceosome activation. Annu. Rev. Genet. 36 (2002) 333-360
-
(2002)
Annu. Rev. Genet.
, vol.36
, pp. 333-360
-
-
Brow, A.D.1
-
3
-
-
0032554840
-
Nucleocytoplasmic transport: driving and directing transport
-
Cole C.N., and Hammell C.M. Nucleocytoplasmic transport: driving and directing transport. Curr. Biol. 8 (1998) 368-372
-
(1998)
Curr. Biol.
, vol.8
, pp. 368-372
-
-
Cole, C.N.1
Hammell, C.M.2
-
5
-
-
33645429016
-
Exact stochastic simulation of coupled chemical reactions
-
Gillespie D.T. Exact stochastic simulation of coupled chemical reactions. J. Phys. Chem. 81 25 (1977) 2340-2361
-
(1977)
J. Phys. Chem.
, vol.81
, Issue.25
, pp. 2340-2361
-
-
Gillespie, D.T.1
-
6
-
-
0032605507
-
Analysis of the stabilizing effect of Rom on the genetic network controlling ColE1 plasmid replication
-
Goss P.J.E., and Peccoud J. Analysis of the stabilizing effect of Rom on the genetic network controlling ColE1 plasmid replication. Pac. Symp. Biocomput. 4 (1999) 65-76
-
(1999)
Pac. Symp. Biocomput.
, vol.4
, pp. 65-76
-
-
Goss, P.J.E.1
Peccoud, J.2
-
7
-
-
21444431780
-
Phosphorylation regulates the activity of the SMN complex during assembly of spliceosomal U snRNPs
-
Grimmler M., Bauer L., Nousiainen M., Körner R., Meister G., and Fischer U. Phosphorylation regulates the activity of the SMN complex during assembly of spliceosomal U snRNPs. EMBO Rep. 6 1 (2005) 70-76
-
(2005)
EMBO Rep.
, vol.6
, Issue.1
, pp. 70-76
-
-
Grimmler, M.1
Bauer, L.2
Nousiainen, M.3
Körner, R.4
Meister, G.5
Fischer, U.6
-
8
-
-
41549085829
-
Petri net modelling of gene regulation of the Duchenne muscular dystrophy
-
Grunwald S., Speer A., Ackermann J., and Koch I. Petri net modelling of gene regulation of the Duchenne muscular dystrophy. BioSystems 92 (2008) 189-205
-
(2008)
BioSystems
, vol.92
, pp. 189-205
-
-
Grunwald, S.1
Speer, A.2
Ackermann, J.3
Koch, I.4
-
9
-
-
27544485048
-
-
Heiner, M., Koch, I., 2004. Petri net based model validation in systems biology. In: Proceedings of the 25th International Conference on Applications and Theory of Petri Nets, Bologna, LCNS 3099, 216-37.
-
Heiner, M., Koch, I., 2004. Petri net based model validation in systems biology. In: Proceedings of the 25th International Conference on Applications and Theory of Petri Nets, Bologna, LCNS 3099, 216-37.
-
-
-
-
10
-
-
11144310642
-
Popping out of the nucleus
-
Hoelz A., and Blobel G. Popping out of the nucleus. Nature 432 (2004) 815-816
-
(2004)
Nature
, vol.432
, pp. 815-816
-
-
Hoelz, A.1
Blobel, G.2
-
11
-
-
0000491652
-
A Petri net application to model metabolic processes
-
Hofestädt R. A Petri net application to model metabolic processes. Syst. Anal. Mod. Sim. 16 (1994) 113-122
-
(1994)
Syst. Anal. Mod. Sim.
, vol.16
, pp. 113-122
-
-
Hofestädt, R.1
-
12
-
-
7244245762
-
-
International Human Genome Sequencing Consortium, 2004. Finishing the euchromatic sequence of the human genome. Nature 431, 931-945.
-
International Human Genome Sequencing Consortium, 2004. Finishing the euchromatic sequence of the human genome. Nature 431, 931-945.
-
-
-
-
13
-
-
0347623371
-
Genome-wide survey of human alternative pre-mRNA splicing with exon junction microarrays
-
Johnson J.M., Castle J., Garret-Engele K., Kan Z., Loerch P.M., Armour C.D., Santos R., Schadt E.E., Stoughton R., and Shoemaker D.D. Genome-wide survey of human alternative pre-mRNA splicing with exon junction microarrays. Science 302 (2003) 2141-2144
-
(2003)
Science
, vol.302
, pp. 2141-2144
-
-
Johnson, J.M.1
Castle, J.2
Garret-Engele, K.3
Kan, Z.4
Loerch, P.M.5
Armour, C.D.6
Santos, R.7
Schadt, E.E.8
Stoughton, R.9
Shoemaker, D.D.10
-
14
-
-
0042671357
-
Pre-mRNA splicing: awash in a sea of proteins
-
Jurica M.S., and Moore M.J. Pre-mRNA splicing: awash in a sea of proteins. Mol. Cell 12 (2003) 5-14
-
(2003)
Mol. Cell
, vol.12
, pp. 5-14
-
-
Jurica, M.S.1
Moore, M.J.2
-
15
-
-
16344381707
-
Application of Petri net theory for modelling and validation of the sucrose breakdown pathway in the potato tuber
-
1219-26
-
Koch I., Junker B.H., and Heiner M. Application of Petri net theory for modelling and validation of the sucrose breakdown pathway in the potato tuber. Bioinformatics 21 7 (2005) 1219-26
-
(2005)
Bioinformatics
, vol.21
, Issue.7
-
-
Koch, I.1
Junker, B.H.2
Heiner, M.3
-
16
-
-
57849119825
-
-
Koch, I., Heiner, M., 2008. Petri nets in analysis of biological network. In: B.H. Junker, F. Schreiber (Eds.) (Series Eds. Yi Pan, Albert Y. Zomaya), Wiley Book Series in Bioinformatics. pp. 139-180 (Chapter 7).
-
Koch, I., Heiner, M., 2008. Petri nets in analysis of biological network. In: B.H. Junker, F. Schreiber (Eds.) (Series Eds. Yi Pan, Albert Y. Zomaya), Wiley Book Series in Bioinformatics. pp. 139-180 (Chapter 7).
-
-
-
-
17
-
-
0033612569
-
Combined biochemical and electron microscopic analyses reveal the architecture of the mammalian U2 snRNP
-
Krämer A., Grüter P., Gröning K., and Kastner B. Combined biochemical and electron microscopic analyses reveal the architecture of the mammalian U2 snRNP. J. Cell Biol. 145 7 (1999) 1355-1368
-
(1999)
J. Cell Biol.
, vol.145
, Issue.7
, pp. 1355-1368
-
-
Krämer, A.1
Grüter, P.2
Gröning, K.3
Kastner, B.4
-
18
-
-
33750401814
-
-
Larhlimi, A., Bockmayr, A., 2006. A new approach to flux coupling analysis of metabolic networks. In: Proceedings of the Computational Life Sciences II, CompLife'06, Cambridge, UK.
-
Larhlimi, A., Bockmayr, A., 2006. A new approach to flux coupling analysis of metabolic networks. In: Proceedings of the Computational Life Sciences II, CompLife'06, Cambridge, UK.
-
-
-
-
19
-
-
57849087017
-
-
Lautenbach, K., 1973. Exact liveness conditions of a Petri net class (in German). GMD Report 82, Bonn.
-
Lautenbach, K., 1973. Exact liveness conditions of a Petri net class (in German). GMD Report 82, Bonn.
-
-
-
-
21
-
-
0036845335
-
Assisted RNP assembly: SMN and PRMT5 complexes cooperate in the formation of the spliceosomal UsnRNPs
-
Meister G., and Fischer U. Assisted RNP assembly: SMN and PRMT5 complexes cooperate in the formation of the spliceosomal UsnRNPs. EMBO J. 21 (2002) 5853-5863
-
(2002)
EMBO J.
, vol.21
, pp. 5853-5863
-
-
Meister, G.1
Fischer, U.2
-
22
-
-
0036337915
-
A genomic view of alternative splicing
-
Modrek B., and Lee C. A genomic view of alternative splicing. Nat. Genet. 30 (2002) 13-19
-
(2002)
Nat. Genet.
, vol.30
, pp. 13-19
-
-
Modrek, B.1
Lee, C.2
-
23
-
-
0037098960
-
SMN, the spinal muscular atrophy protein, forms a pre-import snRNP complex with snurportin1 and importin beta
-
Narayanan U., Ospina J.K., Frey M.R., Hebert M.D., and Matera A.G. SMN, the spinal muscular atrophy protein, forms a pre-import snRNP complex with snurportin1 and importin beta. Hum. Mol. Genet. 11 15 (2002) 1785-1795
-
(2002)
Hum. Mol. Genet.
, vol.11
, Issue.15
, pp. 1785-1795
-
-
Narayanan, U.1
Ospina, J.K.2
Frey, M.R.3
Hebert, M.D.4
Matera, A.G.5
-
24
-
-
0034646512
-
PHAX, a mediator of U snRNA nuclear export whose activity is regulated by phosphorylation
-
Ohno M., Segref A., Bachi A., Wilm M., and Mattaj I.W. PHAX, a mediator of U snRNA nuclear export whose activity is regulated by phosphorylation. Cell 101 (2000) 187-198
-
(2000)
Cell
, vol.101
, pp. 187-198
-
-
Ohno, M.1
Segref, A.2
Bachi, A.3
Wilm, M.4
Mattaj, I.W.5
-
25
-
-
0038341719
-
A low number wins the GeneSweep pool
-
Pennisi E. A low number wins the GeneSweep pool. Science 300 (2003) 1484
-
(2003)
Science
, vol.300
, pp. 1484
-
-
Pennisi, E.1
-
26
-
-
57849107767
-
-
Petri, C.A., 1976. Interpretations of net theory. Internal Report 75-07, GMD, December.
-
Petri, C.A., 1976. Interpretations of net theory. Internal Report 75-07, GMD, December.
-
-
-
-
27
-
-
0344052685
-
METATOOL: for studying metabolic networks
-
Pfeiffer T., Sánchez-Valdenebro I., Nuno J.C., Montero F., and Schuster S. METATOOL: for studying metabolic networks. Bioinformatics 15 (1999) 251-257
-
(1999)
Bioinformatics
, vol.15
, pp. 251-257
-
-
Pfeiffer, T.1
Sánchez-Valdenebro, I.2
Nuno, J.C.3
Montero, F.4
Schuster, S.5
-
28
-
-
33645306314
-
Modelling and analysis of biochemical networks with time Petri nets
-
Popova-Zeugmann L., Heiner M., and Koch I. Modelling and analysis of biochemical networks with time Petri nets. Fundam. Inform. 67 (2005) 149-163
-
(2005)
Fundam. Inform.
, vol.67
, pp. 149-163
-
-
Popova-Zeugmann, L.1
Heiner, M.2
Koch, I.3
-
29
-
-
0030007060
-
The snRNP core assembly pathway: identification of stable core protein heteromeric complexes and an snRNP subcore particle in vitro
-
Raker V.A., Plessel G., and Lührmann R. The snRNP core assembly pathway: identification of stable core protein heteromeric complexes and an snRNP subcore particle in vitro. EMBO J. 15 9 (1996) 2256-2269
-
(1996)
EMBO J.
, vol.15
, Issue.9
, pp. 2256-2269
-
-
Raker, V.A.1
Plessel, G.2
Lührmann, R.3
-
32
-
-
35748935227
-
-
Rino J., Carvalho T., Braga J., Desterro J.M.P., Lührmann R., and Carmo-Fonseca M. PLoS Comput. Biol. 3 10 (2008) 2019-2031
-
(2008)
PLoS Comput. Biol.
, vol.3
, Issue.10
, pp. 2019-2031
-
-
Rino, J.1
Carvalho, T.2
Braga, J.3
Desterro, J.M.P.4
Lührmann, R.5
Carmo-Fonseca, M.6
-
33
-
-
33845417184
-
Application of Petri net based analysis techniques to signal transduction pathways
-
doi:10.1186/1471-2105-7-482
-
Sackmann A., Heiner M., and Koch I. Application of Petri net based analysis techniques to signal transduction pathways. BMC Bioinform. 4 (2006) 482 doi:10.1186/1471-2105-7-482
-
(2006)
BMC Bioinform.
, vol.4
, pp. 482
-
-
Sackmann, A.1
Heiner, M.2
Koch, I.3
-
34
-
-
0034615791
-
Theory for the systemic definition of metabolic pathways and their use in interpreting metabolic function from a pathway oriented perspective
-
Schilling C.H., Letscher D., and Palsson B.O. Theory for the systemic definition of metabolic pathways and their use in interpreting metabolic function from a pathway oriented perspective. J. Theor. Biol. 203 (2000) 229-248
-
(2000)
J. Theor. Biol.
, vol.203
, pp. 229-248
-
-
Schilling, C.H.1
Letscher, D.2
Palsson, B.O.3
-
35
-
-
0000029295
-
On elementary flux modes in biochemical reaction systems at steady state
-
Schuster S., and Hilgetag C. On elementary flux modes in biochemical reaction systems at steady state. J. Biol. Syst. 2 (1994) 165-182
-
(1994)
J. Biol. Syst.
, vol.2
, pp. 165-182
-
-
Schuster, S.1
Hilgetag, C.2
-
36
-
-
84889776836
-
Modelling and simulating metabolic networks
-
Lengauer T. (Ed), Wiley-VCH, Weinheim
-
Schuster S., and Fell D.A. Modelling and simulating metabolic networks. In: Lengauer T. (Ed). Bioinformatics: From Genomes to Therapies, vol. 2 (2007), Wiley-VCH, Weinheim 755-805
-
(2007)
Bioinformatics: From Genomes to Therapies, vol. 2
, pp. 755-805
-
-
Schuster, S.1
Fell, D.A.2
-
37
-
-
0036188159
-
Exploring the pathway structure of metabolism: decomposition into subnetworks and application to Mycoplasma pneumoniae
-
Schuster S., Pfeiffer T., Moldenhauer F., Koch I., and Dandekar T. Exploring the pathway structure of metabolism: decomposition into subnetworks and application to Mycoplasma pneumoniae. Bioinformatics 18 2 (2002) 352-361
-
(2002)
Bioinformatics
, vol.18
, Issue.2
, pp. 352-361
-
-
Schuster, S.1
Pfeiffer, T.2
Moldenhauer, F.3
Koch, I.4
Dandekar, T.5
-
38
-
-
0035725112
-
Use of network analysis of metabolic systems in bioengineering
-
Schuster S., Klamt S., Weckwerth W., Moldenhauer F., and Pfeiffer T. Use of network analysis of metabolic systems in bioengineering. Bioproc. Biosyst. Eng. 24 (2002) 363-372
-
(2002)
Bioproc. Biosyst. Eng.
, vol.24
, pp. 363-372
-
-
Schuster, S.1
Klamt, S.2
Weckwerth, W.3
Moldenhauer, F.4
Pfeiffer, T.5
-
39
-
-
10644266747
-
Rubisco without the Calvin cycle improves the carbon efficiency of developing green seeds
-
Schwender J., Goffman F., Ohlrogge J.B., and Shachar-Hill Y. Rubisco without the Calvin cycle improves the carbon efficiency of developing green seeds. Nature 432 (2004) 779-782
-
(2004)
Nature
, vol.432
, pp. 779-782
-
-
Schwender, J.1
Goffman, F.2
Ohlrogge, J.B.3
Shachar-Hill, Y.4
-
40
-
-
8644268780
-
A pathway of sequential arginine-serine-rich domain-splicing signal interactions during mammalian spliceosome assembly
-
Shen H., and Green M.R. A pathway of sequential arginine-serine-rich domain-splicing signal interactions during mammalian spliceosome assembly. Mol. Cell 16 3 (2004) 363-373
-
(2004)
Mol. Cell
, vol.16
, Issue.3
, pp. 363-373
-
-
Shen, H.1
Green, M.R.2
-
41
-
-
57849102740
-
-
Snoopy, 1999. Snoopy-a Petri net Editor and Simulator. Brandenburg University of Technology at Cottbus. http://www-dssz.informatik.tu-cottbus.de/wwwdssz.
-
Snoopy, 1999. Snoopy-a Petri net Editor and Simulator. Brandenburg University of Technology at Cottbus. http://www-dssz.informatik.tu-cottbus.de/wwwdssz.
-
-
-
-
42
-
-
0032489021
-
Mechanical devices of the spliceosome: motors, clocks, springs, and things
-
Staley J.P., and Guthrie C. Mechanical devices of the spliceosome: motors, clocks, springs, and things. Cell 92 (1998) 315-326
-
(1998)
Cell
, vol.92
, pp. 315-326
-
-
Staley, J.P.1
Guthrie, C.2
-
43
-
-
57849163776
-
-
Starke, P.H., 1990. Analysis of Petri Net Models (in German). Teubner-Verlag, Stuttgart.
-
Starke, P.H., 1990. Analysis of Petri Net Models (in German). Teubner-Verlag, Stuttgart.
-
-
-
-
44
-
-
57849119390
-
-
Starke, P.H., Roch, S., 1999. INA-the Integrated Net Analyzer. Humboldt University, Berlin. http://www2.informatik.hu-berlin.de/starke/ina.html.
-
Starke, P.H., Roch, S., 1999. INA-the Integrated Net Analyzer. Humboldt University, Berlin. http://www2.informatik.hu-berlin.de/starke/ina.html.
-
-
-
-
45
-
-
0034913423
-
Importin-beta-like nuclear transport receptors
-
Stroem A.-C., and Weis K. Importin-beta-like nuclear transport receptors. Genome Biol. 2 6 (2001) 3008.1-30089.30089
-
(2001)
Genome Biol.
, vol.2
, Issue.6
-
-
Stroem, A.-C.1
Weis, K.2
-
46
-
-
57849144879
-
-
TInaNet-T-Invariant analysis of Nets, publication in preparation. Technical University of Applied Sciences Berlin.
-
TInaNet-T-Invariant analysis of Nets, publication in preparation. Technical University of Applied Sciences Berlin.
-
-
-
-
47
-
-
0345096675
-
Steady state analysis of metabolic pathways using Petri nets
-
Voss K., Heiner M., and Koch I. Steady state analysis of metabolic pathways using Petri nets. In Silico Biol. 3 3 (2003) 367-387
-
(2003)
In Silico Biol.
, vol.3
, Issue.3
, pp. 367-387
-
-
Voss, K.1
Heiner, M.2
Koch, I.3
-
48
-
-
0035370526
-
Spliceosomal UsnRNP biogenesis, structure and function
-
Will C.L., and Lührmann R. Spliceosomal UsnRNP biogenesis, structure and function. Curr. Biol. 13 (2001) 290-301
-
(2001)
Curr. Biol.
, vol.13
, pp. 290-301
-
-
Will, C.L.1
Lührmann, R.2
-
49
-
-
0037119975
-
Characterization of novel SF3b and 17S U2 snRNP proteins, including a human Prp5p homologue and an SF3b DEAD-box protein
-
Will C.L., Urlaub H., Achsel T., Gentzel M., Wilm M., and Lührmann R. Characterization of novel SF3b and 17S U2 snRNP proteins, including a human Prp5p homologue and an SF3b DEAD-box protein. EMBO J. 21 18 (2002) 4978-4988
-
(2002)
EMBO J.
, vol.21
, Issue.18
, pp. 4978-4988
-
-
Will, C.L.1
Urlaub, H.2
Achsel, T.3
Gentzel, M.4
Wilm, M.5
Lührmann, R.6
-
50
-
-
0345602990
-
Topological analysis of metabolic networks based on Petri net theory
-
Zevedei-Oancea I., and Schuster S. Topological analysis of metabolic networks based on Petri net theory. In Silico Biol. 3 (2003) 323-345
-
(2003)
In Silico Biol.
, vol.3
, pp. 323-345
-
-
Zevedei-Oancea, I.1
Schuster, S.2
-
51
-
-
15744389378
-
A theoretical framework for detecting signal transfer routes in signalling networks
-
Zevedei-Oancea I., and Schuster S. A theoretical framework for detecting signal transfer routes in signalling networks. Comput. Chem. Eng. 29 (2005) 597-617
-
(2005)
Comput. Chem. Eng.
, vol.29
, pp. 597-617
-
-
Zevedei-Oancea, I.1
Schuster, S.2
|