-
1
-
-
0030960672
-
Transcriptional activation by recruitment
-
Ptashne M, Gann A, (1997) Transcriptional activation by recruitment. Nature 386: 569-577.
-
(1997)
Nature
, vol.386
, pp. 569-577
-
-
Ptashne, M.1
Gann, A.2
-
2
-
-
77956495708
-
Transcriptional enhancers in animal development and evolution
-
Levine M, (2010) Transcriptional enhancers in animal development and evolution. Current Biology 20: R754-R763.
-
(2010)
Current Biology
, vol.20
-
-
Levine, M.1
-
4
-
-
77952902183
-
Ligand specific c-fos expression energes from spatiotemporal control of ErbB network dynamics
-
Nakakuki T, Birtwistle MR, Saeki Y, Yumoto N, Ide K, et al. (2011) Ligand specific c-fos expression energes from spatiotemporal control of ErbB network dynamics. Cell 141: 884-896.
-
(2011)
Cell
, vol.141
, pp. 884-896
-
-
Nakakuki, T.1
Birtwistle, M.R.2
Saeki, Y.3
Yumoto, N.4
Ide, K.5
-
5
-
-
0027476456
-
Synergistic activation of transcription in Escherichia coli cAMP receptor protein
-
Joung JK, Le LU, Hochschild A, (1993) Synergistic activation of transcription in Escherichia coli cAMP receptor protein. Proc Natl Acad Sci USA 90: 3083-3087.
-
(1993)
Proc Natl Acad Sci USA
, vol.90
, pp. 3083-3087
-
-
Joung, J.K.1
Le, L.U.2
Hochschild, A.3
-
6
-
-
0028051844
-
Synergistic activation of transcription by bacteriophage lambda cl protein in E. coli cAMP receptor protein
-
Joung JK, Koepp DM, Hochschild A, (1994) Synergistic activation of transcription by bacteriophage lambda cl protein in E. coli cAMP receptor protein. Science 265: 1863-1866.
-
(1994)
Science
, vol.265
, pp. 1863-1866
-
-
Joung, J.K.1
Koepp, D.M.2
Hochschild, A.3
-
7
-
-
15744387380
-
Transcriptional regulation by the numbers: models
-
Bintu L, Buchler NE, Garcia HG, Gerland U, Hwa T, et al. (2005) Transcriptional regulation by the numbers: models. Current Opinion in Gen & Dev 15: 116-124.
-
(2005)
Current Opinion in Gen & Dev
, vol.15
, pp. 116-124
-
-
Bintu, L.1
Buchler, N.E.2
Garcia, H.G.3
Gerland, U.4
Hwa, T.5
-
8
-
-
15744387380
-
Transcriptional regulation by the numbers: applications
-
Bintu L, Buchler NE, Garcia HG, Gerland U, Hwa T, et al. (2005) Transcriptional regulation by the numbers: applications. Current Opinion in Gen & Dev 15: 125-135.
-
(2005)
Current Opinion in Gen & Dev
, vol.15
, pp. 125-135
-
-
Bintu, L.1
Buchler, N.E.2
Garcia, H.G.3
Gerland, U.4
Hwa, T.5
-
9
-
-
77950552036
-
Foxa2 and nurr1 synergistically yield A9 nigral dopamine neurons exhibiting improved differentiation, function, and cell survival
-
Lee HS, Bae EJ, Yi SH, Shim JW, Jo AY, et al. (2010) Foxa2 and nurr1 synergistically yield A9 nigral dopamine neurons exhibiting improved differentiation, function, and cell survival. Stem Cells 28: 501-512.
-
(2010)
Stem Cells
, vol.28
, pp. 501-512
-
-
Lee, H.S.1
Bae, E.J.2
Yi, S.H.3
Shim, J.W.4
Jo, A.Y.5
-
10
-
-
0032874648
-
Nurr1, an orphan nuclear receptor, is a transcriptional activator of endogeneous tyrosine hydroxylase in neural progenitor cells derived from the adult braing
-
Sakurada K, Ohshima-Sakurada M, Palmer TD, Gage FH, (1999) Nurr1, an orphan nuclear receptor, is a transcriptional activator of endogeneous tyrosine hydroxylase in neural progenitor cells derived from the adult braing. Development 126: 4017-4026.
-
(1999)
Development
, vol.126
, pp. 4017-4026
-
-
Sakurada, K.1
Ohshima-Sakurada, M.2
Palmer, T.D.3
Gage, F.H.4
-
11
-
-
33747670219
-
Genetic networks controlling the development of midbrain dopaminergic neurons
-
Prakash N, Wurst W, (2006) Genetic networks controlling the development of midbrain dopaminergic neurons. J Physiol 575: 403-410.
-
(2006)
J Physiol
, vol.575
, pp. 403-410
-
-
Prakash, N.1
Wurst, W.2
-
12
-
-
34547864590
-
Nurr1 is phosphorylated by ERK2 in vitro and its phosphorylation upregulates tyrosine hydroxylase expression in SH-SY5Y cells
-
Zhang T, Jia N, Fai E, Wang P, Liao Z, et al. (2007) Nurr1 is phosphorylated by ERK2 in vitro and its phosphorylation upregulates tyrosine hydroxylase expression in SH-SY5Y cells. Neurosci Lett 423: 118-122.
-
(2007)
Neurosci Lett
, vol.423
, pp. 118-122
-
-
Zhang, T.1
Jia, N.2
Fai, E.3
Wang, P.4
Liao, Z.5
-
13
-
-
38549159511
-
The foxa2 gene controls the birth and spontaneous degeneration of dopamine neurons in old age
-
Kittappa R, Chang WW, Awatramani RB, McKay RDG, (2007) The foxa2 gene controls the birth and spontaneous degeneration of dopamine neurons in old age. PLoS Biol 5: e325.
-
(2007)
PLoS Biol
, vol.5
-
-
Kittappa, R.1
Chang, W.W.2
Awatramani, R.B.3
McKay, R.D.G.4
-
14
-
-
0028094718
-
Transcription activation by the Escherichia coli cyclic AMP receptor protein
-
Busby S, West D, Lawes M, Webster C, (1994) Transcription activation by the Escherichia coli cyclic AMP receptor protein. J Mol Biol 241: 341-352.
-
(1994)
J Mol Biol
, vol.241
, pp. 341-352
-
-
Busby, S.1
West, D.2
Lawes, M.3
Webster, C.4
-
15
-
-
0029973944
-
Assembly of the isomerized TFIIA-TFIID-TATA ternary complex is necessary and sufficient gene activation
-
Chi T, Carey M, (1996) Assembly of the isomerized TFIIA-TFIID-TATA ternary complex is necessary and sufficient gene activation. Genes Dev 10: 2540-2550.
-
(1996)
Genes Dev
, vol.10
, pp. 2540-2550
-
-
Chi, T.1
Carey, M.2
-
16
-
-
0026645119
-
Transcriptional synergy by the Epstein-Barr virus transactivator ZEBRA
-
Carey M, Kolman J, Katz DA, Gradoville L, Barberis L, et al. (1992) Transcriptional synergy by the Epstein-Barr virus transactivator ZEBRA. J Virol 66: 4803-4813.
-
(1992)
J Virol
, vol.66
, pp. 4803-4813
-
-
Carey, M.1
Kolman, J.2
Katz, D.A.3
Gradoville, L.4
Barberis, L.5
-
17
-
-
0028143567
-
Activation of the Epstein-Barr virus BMRF1 and BZLF1 promoters by ZEBRA in saccharomyces cervisiae
-
Countryman JK, Heston L, Gradoville L, Himmelfarb H, Serdy S, et al. (1994) Activation of the Epstein-Barr virus BMRF1 and BZLF1 promoters by ZEBRA in saccharomyces cervisiae. J Virol 68: 7628-7633.
-
(1994)
J Virol
, vol.68
, pp. 7628-7633
-
-
Countryman, J.K.1
Heston, L.2
Gradoville, L.3
Himmelfarb, H.4
Serdy, S.5
-
18
-
-
0032498230
-
The enhanceosome and transcriptional synergy
-
Carey M, (1998) The enhanceosome and transcriptional synergy. Cell 92: 5-8.
-
(1998)
Cell
, vol.92
, pp. 5-8
-
-
Carey, M.1
-
19
-
-
0019884566
-
Lambda repressor and cro: components of an efficient molecular switch
-
Johnson AD, Poteete AR, Lauer G, Sauer RT, Ackers GK, et al. (1981) Lambda repressor and cro: components of an efficient molecular switch. Nature 294: 217-223.
-
(1981)
Nature
, vol.294
, pp. 217-223
-
-
Johnson, A.D.1
Poteete, A.R.2
Lauer, G.3
Sauer, R.T.4
Ackers, G.K.5
-
20
-
-
0001422329
-
Quantitative model for gene regulation by lambda phage repressor
-
Ackers GK, Johnson AD, Shea MA, (1982) Quantitative model for gene regulation by lambda phage repressor. Proc Natl Acad Sci USA 79: 1129-1133.
-
(1982)
Proc Natl Acad Sci USA
, vol.79
, pp. 1129-1133
-
-
Ackers, G.K.1
Johnson, A.D.2
Shea, M.A.3
-
21
-
-
0022429106
-
The or control system of bacteriophage lambda: a physical-chemical model for gene regulation
-
Shea MA, Ackers GA, (1985) The or control system of bacteriophage lambda: a physical-chemical model for gene regulation. J Mol Biol 181: 211-230.
-
(1985)
J Mol Biol
, vol.181
, pp. 211-230
-
-
Shea, M.A.1
Ackers, G.A.2
-
22
-
-
0033582718
-
A mathematical model for synergistic Eukaryotic gene activation
-
Wang J, Ellwood K, Lehman A, Carey MF, She ZS, (1999) A mathematical model for synergistic Eukaryotic gene activation. J Mol Biol 286: 315-325.
-
(1999)
J Mol Biol
, vol.286
, pp. 315-325
-
-
Wang, J.1
Ellwood, K.2
Lehman, A.3
Carey, M.F.4
She, Z.S.5
-
23
-
-
34347232364
-
Combinatorial transcriptional contol of the lactose operon of Escherichia coli
-
Kuhlman T, Zhang Z, Saier MH, Hwa T, (2007) Combinatorial transcriptional contol of the lactose operon of Escherichia coli. Proc Natl Acad Sci USA 104: 6043-6048.
-
(2007)
Proc Natl Acad Sci USA
, vol.104
, pp. 6043-6048
-
-
Kuhlman, T.1
Zhang, Z.2
Saier, M.H.3
Hwa, T.4
-
24
-
-
38749127589
-
Predicting expression patterns from regulatory sequence in Drosophila segmentation
-
Segal E, Raveh-Sadka, Schroeder M, Unnerstall U, Gaul U, (2008) Predicting expression patterns from regulatory sequence in Drosophila segmentation. Nature 451: 535-541.
-
(2008)
Nature
, vol.451
, pp. 535-541
-
-
Segal, E.1
Raveh-Sadka2
Schroeder, M.3
Unnerstall, U.4
Gaul, U.5
-
25
-
-
48449097541
-
When activators repress and repressors activate: a qualitative analysis of the Shea-Ackers model
-
Gedeon T, Mischaikow K, Patterson K, Traldi E, (2008) When activators repress and repressors activate: a qualitative analysis of the Shea-Ackers model. Bull Math Biol 70: 1660-1683.
-
(2008)
Bull Math Biol
, vol.70
, pp. 1660-1683
-
-
Gedeon, T.1
Mischaikow, K.2
Patterson, K.3
Traldi, E.4
-
26
-
-
78049450019
-
Thermodynamics-based model for transcriptional regulation by enhancers: the role of synergistic activation, cooperative bining and short-range repression
-
He X, Samee MAH, Blatti C, Sinha S, (2010) Thermodynamics-based model for transcriptional regulation by enhancers: the role of synergistic activation, cooperative bining and short-range repression. PLoS Comp Biol 6: e1000935.
-
(2010)
PLoS Comp Biol
, vol.6
-
-
He, X.1
Samee, M.A.H.2
Blatti, C.3
Sinha, S.4
-
27
-
-
79952983516
-
Mathematical modeling of gene expression: a guide for the perplexed biologist
-
Ay A, Arnosti DN, (2011) Mathematical modeling of gene expression: a guide for the perplexed biologist. Critical Reviews Biochem Mol Biol 46: 137-151.
-
(2011)
Critical Reviews Biochem Mol Biol
, vol.46
, pp. 137-151
-
-
Ay, A.1
Arnosti, D.N.2
-
28
-
-
79959994529
-
Quantitative dissection of the simple repression input-output function
-
Garcia HG, Phillips R, (2011) Quantitative dissection of the simple repression input-output function. Proc Natl Acad Sci USA 108: 12173-12178.
-
(2011)
Proc Natl Acad Sci USA
, vol.108
, pp. 12173-12178
-
-
Garcia, H.G.1
Phillips, R.2
-
29
-
-
58149354385
-
Analysis of combinatorial cis-regulation in synthetic and genomic promoters
-
Gertz J, Siggia ED, Cohen BA, (2009) Analysis of combinatorial cis-regulation in synthetic and genomic promoters. Nature 457: 215-219.
-
(2009)
Nature
, vol.457
, pp. 215-219
-
-
Gertz, J.1
Siggia, E.D.2
Cohen, B.A.3
-
30
-
-
60749132828
-
Environment-specific combinatorial cis-regulation in synthetic promoters
-
Gertz J, Cohen BA, (2009) Environment-specific combinatorial cis-regulation in synthetic promoters. Mol Systems Biol 5: 244.
-
(2009)
Mol Systems Biol
, vol.5
, pp. 244
-
-
Gertz, J.1
Cohen, B.A.2
-
31
-
-
0003529419
-
-
New York, Oxford University Press
-
Daune M, (1999) Molecular Biophysics New York Oxford University Press.
-
(1999)
Molecular Biophysics
-
-
Daune, M.1
-
32
-
-
33745658106
-
Computational models for neurogenetic gene expression in the Drosophila embryo
-
Zinzen RP, Senger K, Levine M, Papatsenko D, (2006) Computational models for neurogenetic gene expression in the Drosophila embryo. Current Biology 16: 1358-1365.
-
(2006)
Current Biology
, vol.16
, pp. 1358-1365
-
-
Zinzen, R.P.1
Senger, K.2
Levine, M.3
Papatsenko, D.4
-
33
-
-
33044497095
-
Transcriptional control in drosophila
-
Reinitz J, Hou S, Sharp DH, (2003) Transcriptional control in drosophila. ComPlexUs 1: 54-64.
-
(2003)
ComPlexUs
, vol.1
, pp. 54-64
-
-
Reinitz, J.1
Hou, S.2
Sharp, D.H.3
-
34
-
-
76149087772
-
Deciphering a transcriptional regulatory code: modeling short-range repression in the Drosophila embryo
-
Fakhouri WD, Ay A, Sayal R, Dresch J, Dayringer E, et al. (2010) Deciphering a transcriptional regulatory code: modeling short-range repression in the Drosophila embryo. Mol Sys Biol 6: 341.
-
(2010)
Mol Sys Biol
, vol.6
, pp. 341
-
-
Fakhouri, W.D.1
Ay, A.2
Sayal, R.3
Dresch, J.4
Dayringer, E.5
-
35
-
-
34249722123
-
Enhancer responses to similarly distributed antagonistic gradients in development
-
Zinzen RP, Papatsenko D, (2007) Enhancer responses to similarly distributed antagonistic gradients in development. PLoS Comp Biol 3: e84.
-
(2007)
PLoS Comp Biol
, vol.3
-
-
Zinzen, R.P.1
Papatsenko, D.2
-
36
-
-
79958204355
-
The cis-regulatory logic of hedgehog gradient responses: key roles for Gli binding affinity, competition, and cooperativity
-
Parker DS, White MA, Ramos AI, Cohen BA, Barolo S, (2011) The cis-regulatory logic of hedgehog gradient responses: key roles for Gli binding affinity, competition, and cooperativity. Sci Signaling 4: ra38.
-
(2011)
Sci Signaling
, vol.4
-
-
Parker, D.S.1
White, M.A.2
Ramos, A.I.3
Cohen, B.A.4
Barolo, S.5
-
38
-
-
0001163637
-
Reentrant transition induced by multiplicative noise in the time-dependent Ginzburg-Landau model
-
Garcia-Ojalvo J, Parrondo JMR, Sancho JM, van den Broeck C, (1996) Reentrant transition induced by multiplicative noise in the time-dependent Ginzburg-Landau model. Phys Rev E 54: 6918-6921.
-
(1996)
Phys Rev E
, vol.54
, pp. 6918-6921
-
-
Garcia-Ojalvo, J.1
Parrondo, J.M.R.2
Sancho, J.M.3
van den Broeck, C.4
-
39
-
-
0000836743
-
Nonequilibrium transitions induced by multiplicative noise
-
Genovese W, Munoz MA, Sancho JM, (1998) Nonequilibrium transitions induced by multiplicative noise. Phys Rev E 57: R2495-R2498.
-
(1998)
Phys Rev E
, vol.57
-
-
Genovese, W.1
Munoz, M.A.2
Sancho, J.M.3
-
40
-
-
0031224179
-
First-order nonequilibrium phase transition in a spatially extended system
-
Müller R, Lippert K, Kühnel A, Behn U, (1997) First-order nonequilibrium phase transition in a spatially extended system. Phys Rev E 56: 2658-2662.
-
(1997)
Phys Rev E
, vol.56
, pp. 2658-2662
-
-
Müller, R.1
Lippert, K.2
Kühnel, A.3
Behn, U.4
-
41
-
-
1042277257
-
Stability analysis of stationary states of mean field models described by Fokker-Planck equations
-
Frank TD, (2004) Stability analysis of stationary states of mean field models described by Fokker-Planck equations. Physica D 189: 199-218.
-
(2004)
Physica D
, vol.189
, pp. 199-218
-
-
Frank, T.D.1
-
44
-
-
0037325058
-
A sigmoidal transcriptional response: cooperativity, synergy and dose effects
-
Veitia RA, (2003) A sigmoidal transcriptional response: cooperativity, synergy and dose effects. Biol Rev 78: 149-170.
-
(2003)
Biol Rev
, vol.78
, pp. 149-170
-
-
Veitia, R.A.1
-
46
-
-
0023001531
-
Promoter recognition by Escherichia coli RNA polymerase
-
Auble DT, Allen TL, deHaseth PL, (1986) Promoter recognition by Escherichia coli RNA polymerase. J Biol Chemistry 261: 11202-11206.
-
(1986)
J Biol Chemistry
, vol.261
, pp. 11202-11206
-
-
Auble, D.T.1
Allen, T.L.2
deHaseth, P.L.3
-
47
-
-
0023662558
-
Promoter recognition by Escherichia coli RNA polymerase: effects of base substitutions in the -10 and -35 region
-
Szoke PA, Allen TL, deHaseth PL, (1987) Promoter recognition by Escherichia coli RNA polymerase: effects of base substitutions in the -10 and -35 region. Biochemistry 26: 6188-6194.
-
(1987)
Biochemistry
, vol.26
, pp. 6188-6194
-
-
Szoke, P.A.1
Allen, T.L.2
deHaseth, P.L.3
-
48
-
-
56049087108
-
Quantitative analysis of the ternary complex of RNA polymerase, cyclic AMP receptor protein and DNA by fluorescence anisotropy measurements
-
Bonarek P, Kedracka-Krok S, Kepys B, Wasylewski Z, (2008) Quantitative analysis of the ternary complex of RNA polymerase, cyclic AMP receptor protein and DNA by fluorescence anisotropy measurements. Acta Biochimica Pol 55: 537-547.
-
(2008)
Acta Biochimica Pol
, vol.55
, pp. 537-547
-
-
Bonarek, P.1
Kedracka-Krok, S.2
Kepys, B.3
Wasylewski, Z.4
-
49
-
-
0037106542
-
Binding affinity of Escherichia coli RNA polymerase sigma54 holoenzyme for the glnAp2, nifH and nifL promoters
-
Vogel SK, Schulz A, Rippe K, (2002) Binding affinity of Escherichia coli RNA polymerase sigma54 holoenzyme for the glnAp2, nifH and nifL promoters. Nucleic Acids Research 30: 4094-4101.
-
(2002)
Nucleic Acids Research
, vol.30
, pp. 4094-4101
-
-
Vogel, S.K.1
Schulz, A.2
Rippe, K.3
-
50
-
-
77952706498
-
Using deep sequencing to characterize the biophysical mechanisms of a transcriptional regulatory sequence
-
Kinney JB, Murugan A, Callan CG, Cox EC, (2010) Using deep sequencing to characterize the biophysical mechanisms of a transcriptional regulatory sequence. Proc Natl Acad Sci USA 107: 9158-9163.
-
(2010)
Proc Natl Acad Sci USA
, vol.107
, pp. 9158-9163
-
-
Kinney, J.B.1
Murugan, A.2
Callan, C.G.3
Cox, E.C.4
-
51
-
-
0034703473
-
Coupled energetics of lambda cro repressor self-assembly and site-specific DNA operator binding II: cooperative interactions of cro dimers
-
Darling PJ, Holt JM, Ackers GK, (2000) Coupled energetics of lambda cro repressor self-assembly and site-specific DNA operator binding II: cooperative interactions of cro dimers. J Mol Biol 302: 625-638.
-
(2000)
J Mol Biol
, vol.302
, pp. 625-638
-
-
Darling, P.J.1
Holt, J.M.2
Ackers, G.K.3
|