-
1
-
-
34548856538
-
Rational design of memory in eukaryotic cells
-
Ajo-Franklin CM, Drubin DA, Eskin JA, Gee EP, Landgraf D, Phillips I, Silver PA (2007) Rational design of memory in eukaryotic cells. Genes Dev 21: 2271-2276
-
(2007)
Genes Dev
, vol.21
, pp. 2271-2276
-
-
Ajo-Franklin, C.M.1
Drubin, D.A.2
Eskin, J.A.3
Gee, E.P.4
Landgraf, D.5
Phillips, I.6
Silver, P.A.7
-
2
-
-
0025238437
-
The protein Id: A negative regulator of helix-loop-helix DNA binding proteins
-
Benezra R, Davis RL, Lockshon D, Turner DL, Weintraub H (1990) The protein Id: a negative regulator of helix-loop-helix DNA binding proteins. Cell 61: 49-59
-
(1990)
Cell
, vol.61
, pp. 49-59
-
-
Benezra, R.1
Davis, R.L.2
Lockshon, D.3
Turner, D.L.4
Weintraub, H.5
-
3
-
-
15744387380
-
Transcriptional regulation by the numbers: Applications
-
Bintu L, Buchler NE, Garcia HG, Gerland U, Hwa T, Kondev J, Kuhlman T, Phillips R (2005) Transcriptional regulation by the numbers: applications. Curr Opin Genet Dev 15: 125-135
-
(2005)
Curr Opin Genet Dev
, vol.15
, pp. 125-135
-
-
Bintu, L.1
Buchler, N.E.2
Garcia, H.G.3
Gerland, U.4
Hwa, T.5
Kondev, J.6
Kuhlman, T.7
Phillips, R.8
-
4
-
-
56949098506
-
Molecular titration and ultrasensitivity in regulatory networks
-
Buchler NE, Louis M (2008) Molecular titration and ultrasensitivity in regulatory networks. J Mol Biol 384: 1106-1119
-
(2008)
J Mol Biol
, vol.384
, pp. 1106-1119
-
-
Buchler, N.E.1
Louis, M.2
-
6
-
-
0032531831
-
Cooperative DNA-binding by Bicoid provides a mechanism for threshold-dependent gene activation in the Drosophila embryo
-
Burz DS, Rivera-Pomar R, Jackle H, Hanes SD (1998) Cooperative DNA-binding by Bicoid provides a mechanism for threshold-dependent gene activation in the Drosophila embryo. EMBO J 17: 5998-6009
-
(1998)
EMBO J
, vol.17
, pp. 5998-6009
-
-
Burz, D.S.1
Rivera-Pomar, R.2
Jackle, H.3
Hanes, S.D.4
-
7
-
-
33748058888
-
Bistability in bacteria
-
Dubnau D, Losick R (2006) Bistability in bacteria. Mol Microbiol 61: 564-572
-
(2006)
Mol Microbiol
, vol.61
, pp. 564-572
-
-
Dubnau, D.1
Losick, R.2
-
8
-
-
0030445778
-
Tripping the switch fantastic: How a protein kinase cascade can convert graded inputs into switch-like outputs
-
Ferrell Jr JE (1996) Tripping the switch fantastic: how a protein kinase cascade can convert graded inputs into switch-like outputs. Trends Biochem Sci 21: 460-466
-
(1996)
Trends Biochem Sci
, vol.21
, pp. 460-466
-
-
Ferrell Jr, J.E.1
-
9
-
-
0031203921
-
How responses get more switch-like as you move down a protein kinase cascade
-
Ferrell Jr JE (1997) How responses get more switch-like as you move down a protein kinase cascade. Trends Biochem Sci 22: 288-289
-
(1997)
Trends Biochem Sci
, vol.22
, pp. 288-289
-
-
Ferrell Jr, J.E.1
-
10
-
-
0347635508
-
Design of genetic networks with specified functions by evolution in silico
-
Francois P, Hakim V (2004) Design of genetic networks with specified functions by evolution in silico. Proc Natl Acad Sci USA 101: 580-585
-
(2004)
Proc Natl Acad Sci USA
, vol.101
, pp. 580-585
-
-
Francois, P.1
Hakim, V.2
-
12
-
-
0023805741
-
Negative effect of the transcriptional activator GAL4
-
Gill G, Ptashne M (1988) Negative effect of the transcriptional activator GAL4. Nature 334: 721-724
-
(1988)
Nature
, vol.334
, pp. 721-724
-
-
Gill, G.1
Ptashne, M.2
-
13
-
-
0020171028
-
Sensitivity amplification in biochemical systems
-
Goldbeter A, Koshland Jr DE (1982) Sensitivity amplification in biochemical systems. Q Rev Biophys 15: 555-591
-
(1982)
Q Rev Biophys
, vol.15
, pp. 555-591
-
-
Goldbeter, A.1
Koshland Jr, D.E.2
-
14
-
-
0021715523
-
Ultrasensitivity in biochemical systems controlled by covalent modification. Interplay between zero-order and multistep effects
-
Goldbeter A, Koshland Jr DE (1984) Ultrasensitivity in biochemical systems controlled by covalent modification. Interplay between zero-order and multistep effects. J Biol Chem 259:14441-14447
-
(1984)
J Biol Chem
, vol.259
, pp. 14441-14447
-
-
Goldbeter, A.1
Koshland Jr, D.E.2
-
16
-
-
26844571282
-
Multisite protein phosphorylation makes a good threshold but can be a poor switch
-
Gunawardena J (2005) Multisite protein phosphorylation makes a good threshold but can be a poor switch. Proc Natl Acad Sci USA 102: 14617-14622
-
(2005)
Proc Natl Acad Sci USA
, vol.102
, pp. 14617-14622
-
-
Gunawardena, J.1
-
17
-
-
0023239517
-
Functional inactivation of genes by dominant negative mutations
-
Herskowitz I (1987) Functional inactivation of genes by dominant negative mutations. Nature 329: 219-222
-
(1987)
Nature
, vol.329
, pp. 219-222
-
-
Herskowitz, I.1
-
18
-
-
14844358192
-
Ultrasensitivity and noise propagation in a synthetic transcriptional cascade
-
Hooshangi S, Thiberge S, Weiss R (2005) Ultrasensitivity and noise propagation in a synthetic transcriptional cascade. Proc Natl Acad Sci USA 102: 3581-3586
-
(2005)
Proc Natl Acad Sci USA
, vol.102
, pp. 3581-3586
-
-
Hooshangi, S.1
Thiberge, S.2
Weiss, R.3
-
20
-
-
0031559933
-
Quantification of information transfer via cellular signal transduction pathways
-
Kholodenko BN, Hoek JB, Westerhoff HV, Brown GC (1997) Quantification of information transfer via cellular signal transduction pathways. FEBS Lett 414: 430-434
-
(1997)
FEBS Lett
, vol.414
, pp. 430-434
-
-
Kholodenko, B.N.1
Hoek, J.B.2
Westerhoff, H.V.3
Brown, G.C.4
-
21
-
-
55549113874
-
A quantitative model of transcription factor-activated gene expression
-
Kim HD, O'Shea EK (2008) A quantitative model of transcription factor-activated gene expression. Nat Struct Mol Biol 15:1192-1198
-
(2008)
Nat Struct Mol Biol
, vol.15
, pp. 1192-1198
-
-
Kim, H.D.1
O'Shea, E.K.2
-
22
-
-
33947304756
-
Substrate competition as a source of ultrasensitivity in the inactivation of Wee1
-
Kim SY, Ferrell Jr JE (2007) Substrate competition as a source of ultrasensitivity in the inactivation of Wee1. Cell 128: 1133-1145
-
(2007)
Cell
, vol.128
, pp. 1133-1145
-
-
Kim, S.Y.1
Ferrell Jr, J.E.2
-
23
-
-
0030782191
-
A general method to design dominant negatives to B-HLHZip proteins that abolish DNA binding
-
Krylov D, Kasai K, Echlin DR, Taparowsky EJ, Arnheiter H, Vinson C (1997) A general method to design dominant negatives to B-HLHZip proteins that abolish DNA binding. Proc Natl Acad Sci USA 94:12274-12279
-
(1997)
Proc Natl Acad Sci USA
, vol.94
, pp. 12274-12279
-
-
Krylov, D.1
Kasai, K.2
Echlin, D.R.3
Taparowsky, E.J.4
Arnheiter, H.5
Vinson, C.6
-
24
-
-
0028786167
-
Extending dimerization interfaces: The bZIP basic region can form a coiled coil
-
Krylov D, Olive M, Vinson C (1995) Extending dimerization interfaces: the bZIP basic region can form a coiled coil. EMBO J 14: 5329-5337
-
(1995)
EMBO J
, vol.14
, pp. 5329-5337
-
-
Krylov, D.1
Olive, M.2
Vinson, C.3
-
25
-
-
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
-
26
-
-
23844525556
-
Quantitative analysis of ultrasensitive responses
-
Legewie S, Bluthgen N, Herzel H (2005a) Quantitative analysis of ultrasensitive responses. FEBS J 272: 4071-4079
-
(2005)
FEBS J
, vol.272
, pp. 4071-4079
-
-
Legewie, S.1
Bluthgen, N.2
Herzel, H.3
-
27
-
-
36248946925
-
Ultrasensitization: Switch-like regulation of cellular signaling by transcriptional induction
-
Legewie S, Bluthgen N, Schafer R, Herzel H (2005b) Ultrasensitization: switch-like regulation of cellular signaling by transcriptional induction. PLoS Comput Biol 1: e54
-
(2005)
PLoS Comput Biol
, vol.1
-
-
Legewie, S.1
Bluthgen, N.2
Schafer, R.3
Herzel, H.4
-
28
-
-
55949097145
-
Small RNAs establish delays and temporal thresholds in gene expression
-
Legewie S, Dienst D, Wilde A, Herzel H, Axmann IM (2008) Small RNAs establish delays and temporal thresholds in gene expression. Biophys J 95:3232-3238
-
(2008)
Biophys J
, vol.95
, pp. 3232-3238
-
-
Legewie, S.1
Dienst, D.2
Wilde, A.3
Herzel, H.4
Axmann, I.M.5
-
29
-
-
3142564584
-
The small RNA chaperone Hfq and multiple small RNAs control quorum sensing in Vibrio harveyi and Vibrio cholerae
-
Lenz DH, Mok KC, Lilley BN, Kulkarni RV, Wingreen NS, Bassler BL (2004) The small RNA chaperone Hfq and multiple small RNAs control quorum sensing in Vibrio harveyi and Vibrio cholerae. Cell 118: 69-82
-
(2004)
Cell
, vol.118
, pp. 69-82
-
-
Lenz, D.H.1
Mok, K.C.2
Lilley, B.N.3
Kulkarni, R.V.4
Wingreen, N.S.5
Bassler, B.L.6
-
30
-
-
34548668642
-
Quantitative characteristics of gene regulation by small RNA
-
Levine E, Zhang Z, Kuhlman T, Hwa T (2007) Quantitative characteristics of gene regulation by small RNA. PLoS Biol 5: e229
-
(2007)
PLoS Biol
, vol.5
-
-
Levine, E.1
Zhang, Z.2
Kuhlman, T.3
Hwa, T.4
-
31
-
-
0022449017
-
Determinator-inhibitor pairs as a mechanism for threshold setting in development: A possible function for pseudogenes
-
McCarrey JR, Riggs AD (1986) Determinator-inhibitor pairs as a mechanism for threshold setting in development: a possible function for pseudogenes. Proc Natl Acad Sci USA 83: 679-683
-
(1986)
Proc Natl Acad Sci USA
, vol.83
, pp. 679-683
-
-
McCarrey, J.R.1
Riggs, A.D.2
-
32
-
-
54049118804
-
A quantitative comparison of sRNA-based and protein-based gene regulation
-
Mehta P, Goyal S, Wingreen NS (2008) A quantitative comparison of sRNA-based and protein-based gene regulation. Mol Syst Biol 4:221
-
(2008)
Mol Syst Biol
, vol.4
, pp. 221
-
-
Mehta, P.1
Goyal, S.2
Wingreen, N.S.3
-
35
-
-
0033568251
-
A strong carbon source effect is mediated by pUC plasmid sequences in a series of classical yeast vectors designed for promoter characterization
-
Pauwels K, Abadjieva A, Hilven P, Crabeel M (1999) A strong carbon source effect is mediated by pUC plasmid sequences in a series of classical yeast vectors designed for promoter characterization. Yeast 15: 1269-1274
-
(1999)
Yeast
, vol.15
, pp. 1269-1274
-
-
Pauwels, K.1
Abadjieva, A.2
Hilven, P.3
Crabeel, M.4
-
36
-
-
15544388848
-
Noise propagation in gene networks
-
Pedraza JM, van Oudenaarden A (2005) Noise propagation in gene networks. Science 307:1965-1969
-
(2005)
Science
, vol.307
, pp. 1965-1969
-
-
Pedraza, J.M.1
van Oudenaarden, A.2
-
37
-
-
15544371346
-
Gene regulation at the single-cell level
-
Rosenfeld N, Young JW, Alon U, Swain PS, Elowitz MB (2005) Gene regulation at the single-cell level. Science 307:1962-1965
-
(2005)
Science
, vol.307
, pp. 1962-1965
-
-
Rosenfeld, N.1
Young, J.W.2
Alon, U.3
Swain, P.S.4
Elowitz, M.B.5
-
38
-
-
0033638332
-
Transcriptional control: Rheostat converted to on/off switch
-
Rossi FM, Kringstein AM, Spicher A, Guicherit OM, Blau HM (2000) Transcriptional control: rheostat converted to on/off switch. Mol Cell 6: 723-728
-
(2000)
Mol Cell
, vol.6
, pp. 723-728
-
-
Rossi, F.M.1
Kringstein, A.M.2
Spicher, A.3
Guicherit, O.M.4
Blau, H.M.5
-
40
-
-
34748871477
-
Regulation of gene expression by small non-coding RNAs: A quantitative view
-
Shimoni Y, Friedlander G, Hetzroni G, Niv G, Altuvia S, Biham O, Margalit H (2007) Regulation of gene expression by small non-coding RNAs: a quantitative view. Mol Syst Biol 3: 138
-
(2007)
Mol Syst Biol
, vol.3
, pp. 138
-
-
Shimoni, Y.1
Friedlander, G.2
Hetzroni, G.3
Niv, G.4
Altuvia, S.5
Biham, O.6
Margalit, H.7
-
41
-
-
0024977417
-
Elevated recombination rates in transcriptionally active DNA
-
Thomas BJ, Rothstein R (1989) Elevated recombination rates in transcriptionally active DNA. Cell 56: 619-630
-
(1989)
Cell
, vol.56
, pp. 619-630
-
-
Thomas, B.J.1
Rothstein, R.2
-
42
-
-
0025778902
-
The Drosophila extramacrochaetae protein antagonizes sequence-specific DNA binding by daughterless/achaete-scute protein complexes
-
Van Doren M, Ellis HM, Posakony JW (1991) The Drosophila extramacrochaetae protein antagonizes sequence-specific DNA binding by daughterless/achaete-scute protein complexes. Development 113: 245-255
-
(1991)
Development
, vol.113
, pp. 245-255
-
-
Van Doren, M.1
Ellis, H.M.2
Posakony, J.W.3
-
43
-
-
32844454497
-
Origins of extrinsic variability in eukaryotic gene expression
-
Volfson D, Marciniak J, Blake WJ, Ostroff N, Tsimring LS, Hasty J (2006) Origins of extrinsic variability in eukaryotic gene expression. Nature 439: 861-864
-
(2006)
Nature
, vol.439
, pp. 861-864
-
-
Volfson, D.1
Marciniak, J.2
Blake, W.J.3
Ostroff, N.4
Tsimring, L.S.5
Hasty, J.6
-
44
-
-
0032556443
-
On the relationship between genomic regulatory element organization and gene regulatory dynamics
-
Wolf DM, Eeckman FH (1998) On the relationship between genomic regulatory element organization and gene regulatory dynamics. J Theor Biol 195: 167-186
-
(1998)
J Theor Biol
, vol.195
, pp. 167-186
-
-
Wolf, D.M.1
Eeckman, F.H.2
-
45
-
-
21344437987
-
BMP antagonists: Their roles in development and involvement in pathophysiology
-
Yanagita M (2005) BMP antagonists: their roles in development and involvement in pathophysiology. Cytokine Growth Factor Rev 16: 309-317
-
(2005)
Cytokine Growth Factor Rev
, vol.16
, pp. 309-317
-
-
Yanagita, M.1
-
47
-
-
0035458732
-
Time zones: A comparative genetics of circadian clocks
-
Young MW, Kay SA (2001) Time zones: a comparative genetics of circadian clocks. Nat Rev Genet 2: 702-715
-
(2001)
Nat Rev Genet
, vol.2
, pp. 702-715
-
-
Young, M.W.1
Kay, S.A.2
|