-
1
-
-
20344379457
-
Topological units of environmental signal processing in the transcriptional regulatory network of Escherichia coli
-
Balázsi G, Barabási AL, Oltvai ZN (2005) Topological units of environmental signal processing in the transcriptional regulatory network of Escherichia coli. Proc Natl Acad Sci USA 102: 7841-7846
-
(2005)
Proc Natl Acad Sci USA
, vol.102
, pp. 7841-7846
-
-
Balázsi, G.1
Barabási, A.L.2
Oltvai, Z.N.3
-
2
-
-
68049100110
-
Absolute metabolite concentrations and implied enzyme active site occupancy in Escherichia coli
-
Bennett BD, Kimball EH, GaoM, Osterhout R, Van Dien SJ, Rabinowitz JD (2009) Absolute metabolite concentrations and implied enzyme active site occupancy in Escherichia coli. Nat Chem Biol 5: 593-599
-
(2009)
Nat Chem Biol
, vol.5
, pp. 593-599
-
-
Bennett, B.D.1
Kimball, E.H.2
Gaom Osterhout, R.3
Van Dien, S.J.4
Rabinowitz, J.D.5
-
3
-
-
34948909644
-
Correlation between growth rates, EIIACrr phosphorylation, and intracellular cyclic AMP levels in Escherichia coli K-12
-
Bettenbrock K, Sauter T, Jahreis K, Kremling A, Lengeler JW, Gilles E-D (2007) Correlation between growth rates, EIIACrr phosphorylation, and intracellular cyclic AMP levels in Escherichia coli K-12. J Bacteriol 189: 6891-6900
-
(2007)
J Bacteriol
, vol.189
, pp. 6891-6900
-
-
Bettenbrock, K.1
Sauter, T.2
Jahreis, K.3
Kremling, A.4
Lengeler, J.W.5
Gilles, E.-D.6
-
4
-
-
0141941680
-
Making informed decisions: Regulatory interactions between two-component systems
-
Bijlsma JJ, Groisman EA (2003) Making informed decisions: regulatory interactions between two-component systems. Trends Microbiol 11: 359-366
-
(2003)
Trends Microbiol
, vol.11
, pp. 359-366
-
-
Bijlsma, J.J.1
Groisman, E.A.2
-
6
-
-
27144517984
-
Interlinked fast and slow positive feedback loops drive reliable cell decisions
-
Brandman O, Ferrell Jr JE, Li R, Meyer T (2005) Interlinked fast and slow positive feedback loops drive reliable cell decisions. Science 310: 496-498
-
(2005)
Science
, vol.310
, pp. 496-498
-
-
Brandman, O.1
Ferrell Jr, J.E.2
Li, R.3
Meyer, T.4
-
7
-
-
84913559202
-
Modulation of chemical composition and other parameters of the cell at different exponential growth rates
-
Böck A et al (eds). Module 5.2.3. Washington DC: ASM Press
-
Bremer H, Dennis PP (2008) Modulation of chemical composition and other parameters of the cell at different exponential growth rates. In EcoSal\Escherichia coli and Salmonella: Cellular and Molecular Biology, Böck A et al (eds). Module 5.2.3. Washington DC: ASM Press
-
(2008)
In EcoSal\Escherichia Coli and Salmonella: Cellular and Molecular Biology
-
-
Bremer, H.1
Dennis, P.P.2
-
8
-
-
33748557777
-
The statistical mechanics of complex signaling networks: Nerve growth factor signaling
-
Brown KS, Hill CC, Calero GA, Myers CR, Lee KH, Sethna JP, Cerione RA (2004) The statistical mechanics of complex signaling networks: nerve growth factor signaling. Phys Biol 1: 184-195
-
(2004)
Phys Biol
, vol.1
, pp. 184-195
-
-
Brown, K.S.1
Hill, C.C.2
Calero, G.A.3
Myers, C.R.4
Lee, K.H.5
Sethna, J.P.6
Cerione, R.A.7
-
10
-
-
2342648924
-
Integrating high-throughput and computational data elucidates bacterial networks
-
Covert MW, Knight EM, Reed JL, Herrgard MJ, Palsson BO (2004) Integrating high-throughput and computational data elucidates bacterial networks. Nature 429: 92-96
-
(2004)
Nature
, vol.429
, pp. 92-96
-
-
Covert, M.W.1
Knight, E.M.2
Reed, J.L.3
Herrgard, M.J.4
Palsson, B.O.5
-
11
-
-
35748977901
-
Universally sloppy parameter sensitivities in systems biology models
-
Gutenkunst RN, Waterfall JJ, Casey FP, Brown KS, Myers CR,Sethna JP (2007) Universally sloppy parameter sensitivities in systems biology models. PLoS Comput Biol 3: 1871-1878
-
(2007)
PLoS Comput Biol
, vol.3
, pp. 1871-1878
-
-
Gutenkunst, R.N.1
Waterfall, J.J.2
Casey, F.P.3
Brown, K.S.4
Myers Crsethna, J.P.5
-
12
-
-
0037122935
-
Biochim biophys acta
-
Janausch IG, Zientz E, Tran QH, Krsger A, Unden G (2002) C4-dicarboxylate carriers and sensors in bacteria. Biochim Biophys Acta 1553: 39-56
-
(2002)
C4-dicarboxylate Carriers and Sensors in Bacteria
, vol.1553
, pp. 39-56
-
-
Janausch, I.G.1
Zientz, E.2
Tran, Q.H.3
Krsger, A.4
Unden, G.5
-
13
-
-
36749095093
-
Coordination logic of the sensing machinery in the transcriptional regulatory network of Escherichia coli
-
Janga SC, Salgado H, Martinez-Antonio A, Collado-Vides J (2007) Coordination logic of the sensing machinery in the transcriptional regulatory network of Escherichia coli. Nucleic Acids Res 35: 6963-6972
-
(2007)
Nucleic Acids Res
, vol.35
, pp. 6963-6972
-
-
Janga, S.C.1
Salgado, H.2
Martinez-Antonio, A.3
Collado-Vides, J.4
-
14
-
-
58149179979
-
EcoCyc: A comprehensive view of Escherichia coli biology
-
Keseler IM, Bonavides-Mart'nez C, Collado-Vides J, Gama-Castro S, Gunsalus RP, Johnson DA, Krummenacker M, Nolan LM, Paley S, Paulsen IT, Peralta-Gil M, Santos-Zavaleta A, Shearer AG, Karp PD (2009) EcoCyc: a comprehensive view of Escherichia coli biology. Nucleic Acids Res 37: D464-D470
-
(2009)
Nucleic Acids Res
, vol.37
-
-
Keseler, I.M.1
Bonavides-Mart'Nez, C.2
Collado-Vides, J.3
Gama-Castro, S.4
Gunsalus, R.P.5
Johnson, D.A.6
Krummenacker, M.7
Nolan, L.M.8
Paley, S.9
Paulsen, I.T.10
Peralta-Gil, M.11
Santos-Zavaleta, A.12
Shearer, A.G.13
Karp, P.D.14
-
15
-
-
0036500993
-
Systems biology: A brief overview
-
Kitano H (2002a) Systems biology: a brief overview. Science 295: 1662-1664
-
(2002)
Science
, vol.295
, pp. 1662-1664
-
-
Kitano, H.1
-
16
-
-
0037079054
-
Computational systems biology
-
Kitano H (2002b) Computational systems biology. Nature 420: 206-210
-
(2002)
Nature
, vol.420
, pp. 206-210
-
-
Kitano, H.1
-
17
-
-
60149094488
-
A divide-and-conquer approach to analyze underdetermined biochemical models
-
Kotte O, Heinemann M (2009) A divide-and-conquer approach to analyze underdetermined biochemical models. Bioinformatics 25: 519-525
-
(2009)
Bioinformatics
, vol.25
, pp. 519-525
-
-
Kotte, O.1
Heinemann, M.2
-
18
-
-
40049093544
-
A feed-forward loop guarantees robust behavior in Escherichia coli carbohydrate uptake
-
Kremling A, Bettenbrock K, Gilles ED (2008) A feed-forward loop guarantees robust behavior in Escherichia coli carbohydrate uptake. Bioinformatics 24: 704-710
-
(2008)
Bioinformatics
, vol.24
, pp. 704-710
-
-
Kremling, A.1
Bettenbrock, K.2
Gilles, E.D.3
-
19
-
-
38049188050
-
Combinatorics of feedback in cellular uptake and metabolism of small molecules
-
Krishna S, Semsey S, Sneppen K (2007) Combinatorics of feedback in cellular uptake and metabolism of small molecules. Proc Natl Acad Sci USA 104: 20815-20819
-
(2007)
Proc Natl Acad Sci USA
, vol.104
, pp. 20815-20819
-
-
Krishna, S.1
Semsey, S.2
Sneppen, K.3
-
20
-
-
0021741048
-
The branch point effect. Ultrasensitivity and subsensitivity to metabolic control
-
LaPorte DC, Walsh K, Koshland Jr DE (1984) The branch point effect. Ultrasensitivity and subsensitivity to metabolic control. J Biol Chem 259: 14068-14075
-
(1984)
J Biol Chem
, vol.259
, pp. 14068-14075
-
-
Laporte, D.C.1
Walsh, K.2
Koshland Jr, D.E.3
-
21
-
-
34447498409
-
Glyoxylate and pyruvate are antagonistic effectors of the Escherichia coli IclR transcriptional regulator
-
Lorca GL, EzerskyA,Lunin VV, Walker JR, AltamentovaS,Evdokimova E, Vedadi M, Bochkarev A, Savchenko A (2007) Glyoxylate and pyruvate are antagonistic effectors of the Escherichia coli IclR transcriptional regulator. J Biol Chem 82: 16476-16491
-
(2007)
J Biol Chem
, vol.82
, pp. 16476-16491
-
-
Lorca, G.L.1
Ezerskyalunin, V.V.2
Walker, J.R.3
Altamentovasevdokimova, E.4
Vedadi, M.5
Bochkarev, A.6
Savchenko, A.7
-
22
-
-
0015147278
-
The effect of carbon and nitrogen sources on the level of metabolic intermediates in Escherichia coli
-
Lowry OH, Carter J, Ward JB, Glaser L (1971) The effect of carbon and nitrogen sources on the level of metabolic intermediates in Escherichia coli. J Biol Chem 246: 6511-6521
-
(1971)
J Biol Chem
, vol.246
, pp. 6511-6521
-
-
Lowry, O.H.1
Carter, J.2
Ward, J.B.3
Glaser, L.4
-
23
-
-
30344484891
-
Internal-sensing machinery directs the activity of the regulatory network in Escherichia coli
-
Martinez-Antonio A, Janga SC, Salgado H, Collado-Vides J (2006) Internal-sensing machinery directs the activity of the regulatory network in Escherichia coli. Trends Microbiol 14: 22-27
-
(2006)
Trends Microbiol
, vol.14
, pp. 22-27
-
-
Martinez-Antonio, A.1
Janga, S.C.2
Salgado, H.3
Collado-Vides, J.4
-
24
-
-
0037066717
-
Global expression profiling of acetate-grown Escherichia coli
-
Oh MK, Rohlin L, Kao KC, Liao JC (2002) Global expression profiling of acetate-grown Escherichia coli. J Biol Chem 277: 13175-13183
-
(2002)
J Biol Chem
, vol.277
, pp. 13175-13183
-
-
Oh, M.K.1
Rohlin, L.2
Kao, K.C.3
Liao, J.C.4
-
25
-
-
1442354192
-
Multistability in the lactose utilization network of Escherichia coli
-
Ozbudak EM, Thattai M, Lim HN, Shraiman BI, van Oudenaarden A (2004) Multistability in the lactose utilization network of Escherichia coli. Nature 427: 737-740
-
(2004)
Nature
, vol.427
, pp. 737-740
-
-
Ozbudak, E.M.1
Thattai, M.2
Lim, H.N.3
Shraiman, B.I.4
Van Oudenaarden, A.5
-
26
-
-
0036217950
-
Regulation of gene expression in the PTS in Escherichia coli: The role and interactions of Mlc
-
Plumbridge J (2002) Regulation of gene expression in the PTS in Escherichia coli: the role and interactions of Mlc. Curr Opin Microbiol 5: 187-193
-
(2002)
Curr Opin Microbiol
, vol.5
, pp. 187-193
-
-
Plumbridge, J.1
-
27
-
-
0028913511
-
Purification, characterization and mode of action of PdhR, the transcriptional repressor of the pdhR-aceEF-lpd operon of Escherichia coli
-
Quail MA, Guest JR (1995) Purification, characterization and mode of action of PdhR, the transcriptional repressor of the pdhR-aceEF-lpd operon of Escherichia coli. Mol Microbiol 15: 519-529
-
(1995)
Mol Microbiol
, vol.15
, pp. 519-529
-
-
Quail, M.A.1
Guest, J.R.2
-
28
-
-
0027444619
-
In vitro binding of the pleiotropic transcriptional regulatory protein, FruR, to the fru, pps, ace, pts and icd operons of Escherichia coli and Salmonella typhimurium
-
Ramseier TM, Negre D, Cortay JC, Scarabel M, Cozzone AJ, Saier Jr MH (1993) In vitro binding of the pleiotropic transcriptional regulatory protein, FruR, to the fru, pps, ace, pts and icd operons of Escherichia coli and Salmonella typhimurium. J Mol Biol 234: 28-44
-
(1993)
J Mol Biol
, vol.234
, pp. 28-44
-
-
Ramseier, T.M.1
Negre, D.2
Cortay, J.C.3
Scarabel, M.4
Cozzone, A.J.5
Saier Jr, M.H.6
-
29
-
-
33646842002
-
Nutrient-regulated gene expression in eukaryotes
-
Reece RJ, Beynon L, Holden S, Hughes AD, Rebora K, Sellick CA (2006) Nutrient-regulated gene expression in eukaryotes. Biochem Soc Symp 73: 85-96
-
(2006)
Biochem Soc Symp
, vol.73
, pp. 85-96
-
-
Reece, R.J.1
Beynon, L.2
Holden, S.3
Hughes, A.D.4
Rebora, K.5
Sellick, C.A.6
-
30
-
-
17644375240
-
The PEP-pyruvate-oxaloacetate node as the switch point for carbon flux distribution in bacteria
-
Sauer U, Eikmanns BJ (2004) The PEP-pyruvate-oxaloacetate node as the switch point for carbon flux distribution in bacteria. FEMS Microbiol Rev 29: 765-794
-
(2004)
FEMS Microbiol Rev
, vol.29
, pp. 765-794
-
-
Sauer, U.1
Eikmanns, B.J.2
-
31
-
-
33748846417
-
Transcriptional regulatory networks in bacteria: From input signals to output responses
-
Seshasayee AS, Bertone P, Fraser GM, Luscombe NM (2006) Transcriptional regulatory networks in bacteria: from input signals to output responses. Curr Opin Microbiol 9: 511-519
-
(2006)
Curr Opin Microbiol
, vol.9
, pp. 511-519
-
-
Seshasayee, A.S.1
Bertone, P.2
Fraser, G.M.3
Luscombe, N.M.4
-
32
-
-
0036096732
-
The N terminus of the Escherichia coli transcription activator MalT is the domain of interaction with MalY
-
Schlegel A, Danot O, Richet E, Ferenci T, Boos W (2002) The N terminus of the Escherichia coli transcription activator MalT is the domain of interaction with MalY. J Bacteriol 184: 3069-3077
-
(2002)
J Bacteriol
, vol.184
, pp. 3069-3077
-
-
Schlegel, A.1
Danot, O.2
Richet, E.3
Ferenci, T.4
Boos, W.5
-
33
-
-
34247183123
-
A genome-scale computational study of the interplay between transcriptional regulation and metabolism
-
Shlomi T, Eisenberg Y, Sharan R, Ruppin E (2007) A genome-scale computational study of the interplay between transcriptional regulation and metabolism. Mol Syst Biol 3: 101
-
(2007)
Mol Syst Biol
, vol.3
, pp. 101
-
-
Shlomi, T.1
Eisenberg, Y.2
Sharan, R.3
Ruppin, E.4
-
34
-
-
62849127949
-
Dynamics of uptake and metabolism of small molecules in cellular response systems
-
Werner M, Semsey S, Sneppen K, Krishna S (2009) Dynamics of uptake and metabolism of small molecules in cellular response systems. PLoS One 4: e4923
-
(2009)
PLoS One
, vol.4
-
-
Werner, M.1
Semsey, S.2
Sneppen, K.3
Krishna, S.4
-
35
-
-
0037676107
-
Motifs, modules and games in bacteria
-
Wolf D, Arkin A (2003) Motifs, modules and games in bacteria. Curr Opin Microbiol 6: 125-134
-
(2003)
Curr Opin Microbiol
, vol.6
, pp. 125-134
-
-
Wolf, D.1
Arkin, A.2
|