-
1
-
-
84859641038
-
Using gene expression noise to understand gene regulation
-
Munsky B, Neuert G, van Oudenaarden A (2012) Using gene expression noise to understand gene regulation. Science 336(6078):183-187.
-
(2012)
Science
, vol.336
, Issue.6078
, pp. 183-187
-
-
Munsky, B.1
Neuert, G.2
Van Oudenaarden, A.3
-
2
-
-
0034608143
-
Random signal fluctuations can reduce random fluctuations in regulated components of chemical regulatory networks
-
Paulsson J, Ehrenberg M (2000) Random signal fluctuations can reduce random fluctuations in regulated components of chemical regulatory networks. Phys Rev Lett 84(23):5447-5450.
-
(2000)
Phys Rev Lett
, vol.84
, Issue.23
, pp. 5447-5450
-
-
Paulsson, J.1
Ehrenberg, M.2
-
3
-
-
33750247101
-
Linking stochastic dynamics to population distribution: An analytical framework of gene expression
-
Friedman N, Cai L, Xie XS (2006) Linking stochastic dynamics to population distribution: An analytical framework of gene expression. Phys Rev Lett 97(16):168302.
-
(2006)
Phys Rev Lett
, vol.97
, Issue.16
, pp. 168302
-
-
Friedman, N.1
Cai, L.2
Xie, X.S.3
-
4
-
-
56249130793
-
Analytical distributions for stochastic gene expression
-
Shahrezaei V, Swain PS (2008) Analytical distributions for stochastic gene expression. Proc Natl Acad Sci USA 105(45):17256-17261.
-
(2008)
Proc Natl Acad Sci USA
, vol.105
, Issue.45
, pp. 17256-17261
-
-
Shahrezaei, V.1
Swain, P.S.2
-
5
-
-
77950646741
-
Macroscopic kinetic effect of cell-to-cell variation in biochemical reactions
-
Kim PJ, Price ND (2010) Macroscopic kinetic effect of cell-to-cell variation in biochemical reactions. Phys Rev Lett 104(14):148103.
-
(2010)
Phys Rev Lett
, vol.104
, Issue.14
, pp. 148103
-
-
Kim, P.J.1
Price, N.D.2
-
6
-
-
77955102352
-
Quantifying E coli proteome and transcriptome with singlemolecule sensitivity in single cells
-
Taniguchi Y, et al. (2010) Quantifying E. coli proteome and transcriptome with singlemolecule sensitivity in single cells. Science 329(5991):533-538.
-
(2010)
Science
, vol.329
, Issue.5991
, pp. 533-538
-
-
Taniguchi, Y.1
-
7
-
-
79953666361
-
Noise contributions in an inducible genetic switch: A whole-cell simulation study
-
Roberts E, Magis A, Ortiz JO, Baumeister W, Luthey-Schulten Z (2011) Noise contributions in an inducible genetic switch: A whole-cell simulation study. PLoS Comput Biol 7(3):e1002010.
-
(2011)
PLoS Comput Biol
, vol.7
, Issue.3
-
-
Roberts, E.1
Magis, A.2
Ortiz, J.O.3
Baumeister, W.4
Luthey-Schulten, Z.5
-
8
-
-
84858439602
-
Constraining the metabolic genotypephenotype relationship using a phylogeny of in silico methods
-
Lewis NE, Nagarajan H, Palsson BO (2012) Constraining the metabolic genotypephenotype relationship using a phylogeny of in silico methods. Nat Rev Microbiol 10(4):291-305.
-
(2012)
Nat Rev Microbiol
, vol.10
, Issue.4
, pp. 291-305
-
-
Lewis, N.E.1
Nagarajan, H.2
Palsson, B.O.3
-
9
-
-
79551662521
-
Quantitative prediction of cellular metabolism with constraint-based models: The COBRA Toolbox v2.0
-
Schellenberger J, et al. (2011) Quantitative prediction of cellular metabolism with constraint-based models: The COBRA Toolbox v2.0. Nat Protoc 6(9):1290-1307.
-
(2011)
Nat Protoc
, vol.6
, Issue.9
, pp. 1290-1307
-
-
Schellenberger, J.1
-
10
-
-
9544253891
-
Genome-scale models of microbial cells: Evaluating the consequences of constraints
-
Price ND, Reed JL, Palsson BØ (2004) Genome-scale models of microbial cells: Evaluating the consequences of constraints. Nat Rev Microbiol 2(11):886-897.
-
(2004)
Nat Rev Microbiol
, vol.2
, Issue.11
, pp. 886-897
-
-
Price, N.D.1
Reed, J.L.2
Palsson, B.Ø.3
-
12
-
-
80054069179
-
A comprehensive genome-scale reconstruction of Escherichia coli metabolism - 2011
-
Orth JD, et al. (2011) A comprehensive genome-scale reconstruction of Escherichia coli metabolism - 2011. Mol Syst Biol 7:535.
-
(2011)
Mol Syst Biol
, vol.7
, pp. 535
-
-
Orth, J.D.1
-
13
-
-
63549148162
-
Genome-scale reconstruction of Escherichia coli's transcriptional and translational machinery: A knowledge base, its mathematical formulation, and its functional characterization
-
Thiele I, Jamshidi N, Fleming R, Palsson B (2009) Genome-scale reconstruction of Escherichia coli's transcriptional and translational machinery: A knowledge base, its mathematical formulation, and its functional characterization. PLoS Comput Biol 5(3):e1000312.
-
(2009)
PLoS Comput Biol
, vol.5
, Issue.3
-
-
Thiele, I.1
Jamshidi, N.2
Fleming, R.3
Palsson, B.4
-
14
-
-
84979279765
-
Human metabolic network: Reconstruction, simulation, and applications in systems biology
-
Wu M, Chan C (2012) Human metabolic network: Reconstruction, simulation, and applications in systems biology. Metabolites 2(1):242-253.
-
(2012)
Metabolites
, vol.2
, Issue.1
, pp. 242-253
-
-
Wu, M.1
Chan, C.2
-
15
-
-
78049255973
-
Probabilistic integrative modeling of genome-scale metabolic and regulatory networks in Escherichia coli and Mycobacterium tuberculosis
-
Chandrasekaran S, Price ND (2010) Probabilistic integrative modeling of genome-scale metabolic and regulatory networks in Escherichia coli and Mycobacterium tuberculosis. Proc Natl Acad Sci USA 107(41):17845-17850.
-
(2010)
Proc Natl Acad Sci USA
, vol.107
, Issue.41
, pp. 17845-17850
-
-
Chandrasekaran, S.1
Price, N.D.2
-
16
-
-
84870933131
-
Reconstruction of genome-scale metabolic models for 126 human tissues using mCADRE
-
Wang Y, Eddy JA, Price ND (2012) Reconstruction of genome-scale metabolic models for 126 human tissues using mCADRE. BMC Syst Biol 6:153.
-
(2012)
BMC Syst Biol
, vol.6
, pp. 153
-
-
Wang, Y.1
Eddy, J.A.2
Price, N.D.3
-
17
-
-
2342648924
-
Integrating highthroughput and computational data elucidates bacterial networks
-
Covert MW, Knight EM, Reed JL, Herrgard MJ, Palsson BO (2004) Integrating highthroughput and computational data elucidates bacterial networks. Nature 429(6987): 92-96.
-
(2004)
Nature
, vol.429
, Issue.6987
, pp. 92-96
-
-
Covert, M.W.1
Knight, E.M.2
Reed, J.L.3
Herrgard, M.J.4
Palsson, B.O.5
-
18
-
-
84864258618
-
A whole-cell computational model predicts phenotype from genotype
-
Karr JR, et al. (2012) A whole-cell computational model predicts phenotype from genotype. Cell 150(2):389-401.
-
(2012)
Cell
, vol.150
, Issue.2
, pp. 389-401
-
-
Karr, J.R.1
-
19
-
-
0000640710
-
-
ed Neidhardt FC (American Society for Microbiology, Washington, DC)
-
Bremer H, Dennis PP (1987) Escherichia coli and Salmonella typhimurium: Cellular and Molecular Biology, ed Neidhardt FC (American Society for Microbiology, Washington, DC), p 1530.
-
(1987)
Escherichia Coli and Salmonella Typhimurium: Cellular and Molecular Biology
, pp. 1530
-
-
Bremer, H.1
Dennis, P.P.2
-
20
-
-
78651330012
-
BRENDA, the enzyme information system in 2011
-
Scheer M, et al. (2011) BRENDA, the enzyme information system in 2011. Nucleic Acids Res 39(Database issue):D670-D676.
-
(2011)
Nucleic Acids Res
, vol.39
, Issue.DATABASE ISSUE
-
-
Scheer, M.1
-
21
-
-
84862159261
-
Gap-filling analysis of the iJO1366 Escherichia coli metabolic network reconstruction for discovery of metabolic functions
-
Orth JD, Palsson B (2012) Gap-filling analysis of the iJO1366 Escherichia coli metabolic network reconstruction for discovery of metabolic functions. BMC Syst Biol 6:30.
-
(2012)
BMC Syst Biol
, vol.6
, pp. 30
-
-
Orth, J.D.1
Palsson, B.2
-
22
-
-
80052006136
-
Optical measurement of cycle-dependent cell growth
-
Mir M, et al. (2011) Optical measurement of cycle-dependent cell growth. Proc Natl Acad Sci USA 108(32):13124-13129.
-
(2011)
Proc Natl Acad Sci USA
, vol.108
, Issue.32
, pp. 13124-13129
-
-
Mir, M.1
-
23
-
-
0037119587
-
Stochastic gene expression in a single cell
-
Elowitz MB, Levine AJ, Siggia ED, Swain PS (2002) Stochastic gene expression in a single cell. Science 297(5584):1183-1186.
-
(2002)
Science
, vol.297
, Issue.5584
, pp. 1183-1186
-
-
Elowitz, M.B.1
Levine, A.J.2
Siggia, E.D.3
Swain, P.S.4
-
24
-
-
0036790975
-
Intrinsic and extrinsic contributions to stochasticity in gene expression
-
Swain PS, Elowitz MB, Siggia ED (2002) Intrinsic and extrinsic contributions to stochasticity in gene expression. Proc Natl Acad Sci USA 99(20):12795-12800.
-
(2002)
Proc Natl Acad Sci USA
, vol.99
, Issue.20
, pp. 12795-12800
-
-
Swain, P.S.1
Elowitz, M.B.2
Siggia, E.D.3
-
25
-
-
65349142617
-
Decomposing complex reaction networks using random sampling, principal component analysis and basis rotation
-
Barrett CL, Herrgard MJ, Palsson B (2009) Decomposing complex reaction networks using random sampling, principal component analysis and basis rotation. BMC Syst Biol 3:30.
-
(2009)
BMC Syst Biol
, vol.3
, pp. 30
-
-
Barrett, C.L.1
Herrgard, M.J.2
Palsson, B.3
-
26
-
-
0025264582
-
Comparison of growth, acetate production, and acetate inhibition of Escherichia coli strains in batch and fed-batch fermentations
-
Luli GW, Strohl WR (1990) Comparison of growth, acetate production, and acetate inhibition of Escherichia coli strains in batch and fed-batch fermentations. Appl Environ Microbiol 56(4):1004-1011.
-
(1990)
Appl Environ Microbiol
, vol.56
, Issue.4
, pp. 1004-1011
-
-
Luli, G.W.1
Strohl, W.R.2
-
27
-
-
84878966835
-
Glycolytic strategy as a tradeoff between energy yield and protein cost
-
Flamholz A, Noor E, Bar-Even A, Liebermeister W, Milo R (2013) Glycolytic strategy as a tradeoff between energy yield and protein cost. Proc Natl Acad Sci USA 110(24): 10039-10044.
-
(2013)
Proc Natl Acad Sci USA
, vol.110
, Issue.24
, pp. 10039-10044
-
-
Flamholz, A.1
Noor, E.2
Bar-Even, A.3
Liebermeister, W.4
Milo, R.5
-
28
-
-
0025063286
-
A radical-chemical route to acetyl-CoA: The anaerobically induced pyruvate formate-lyase system of Escherichia coli
-
Knappe J, Sawers G (1990) A radical-chemical route to acetyl-CoA: The anaerobically induced pyruvate formate-lyase system of Escherichia coli. FEMS Microbiol Rev 6(4): 383-398.
-
(1990)
FEMS Microbiol Rev
, vol.6
, Issue.4
, pp. 383-398
-
-
Knappe, J.1
Sawers, G.2
-
29
-
-
0018818947
-
Bacterial lactate dehydrogenases
-
Garvie EI (1980) Bacterial lactate dehydrogenases. Microbiol Rev 44(1):106-139.
-
(1980)
Microbiol Rev
, vol.44
, Issue.1
, pp. 106-139
-
-
Garvie, E.I.1
-
30
-
-
38649096569
-
Proteome-level responses of Escherichia coli to long-chain fatty acids and use of fatty acid inducible promoter in protein production
-
Han MJ, Lee JW, Lee SY, Yoo JS (2008) Proteome-level responses of Escherichia coli to long-chain fatty acids and use of fatty acid inducible promoter in protein production. J Biomed Biotechnol 2008:735101.
-
(2008)
J Biomed Biotechnol
, vol.2008
, pp. 735101
-
-
Han, M.J.1
Lee, J.W.2
Lee, S.Y.3
Yoo, J.S.4
-
31
-
-
42049108914
-
Protein abundance profiling of the Escherichia coli cytosol
-
Ishihama Y, et al. (2008) Protein abundance profiling of the Escherichia coli cytosol. BMC Genomics 9:102.
-
(2008)
BMC Genomics
, vol.9
, pp. 102
-
-
Ishihama, Y.1
|