-
1
-
-
0024146931
-
Enhancers: Mechanisms of action and cell specificity
-
Atchison ML (1988) Enhancers: Mechanisms of action and cell specificity. Annu Rev Cell Biol 4:127-153.
-
(1988)
Annu Rev Cell Biol
, vol.4
, Issue.1
, pp. 27-153
-
-
Atchison, M.L.1
-
3
-
-
84865800494
-
The long-range interaction landscape of gene promoters
-
Sanyal A, Lajoie BR, Jain G, Dekker J (2012) The long-range interaction landscape of gene promoters. Nature 489 (7414):109-113.
-
(2012)
Nature
, vol.489
, Issue.7414
, pp. 109-113
-
-
Sanyal, A.1
Lajoie, B.R.2
Jain, G.3
Dekker, J.4
-
4
-
-
84861964135
-
Controlling long-range genomic interactions at a native locus by targeted tethering of a looping factor
-
Deng WL, et al. (2012) Controlling long-range genomic interactions at a native locus by targeted tethering of a looping factor. Cell 149 (6):1233-1244.
-
(2012)
Cell
, vol.149
, Issue.6
, pp. 1233-1244
-
-
Deng, W.L.1
-
5
-
-
84860379799
-
Enhancer and promoter interactions-long distance calls
-
Krivega I, Dean A (2012) Enhancer and promoter interactions-long distance calls. Curr Opin Genet Dev 22 (2):79-85.
-
(2012)
Curr Opin Genet Dev
, vol.22
, Issue.2
, pp. 79-85
-
-
Krivega, I.1
Dean, A.2
-
6
-
-
0004211673
-
-
Cold Spring Harbor Laboratory, Cold Spring Harbor, NY
-
Ptashne M, Gann A (2002) Genes and Signals (Cold Spring Harbor Laboratory, Cold Spring Harbor, NY).
-
(2002)
Genes and Signals
-
-
Ptashne, M.1
Gann, A.2
-
7
-
-
0842265974
-
Regulation of RNA polymerase II transcription by sequence-specific DNA binding factors
-
Kadonaga JT (2004) Regulation of RNA polymerase II transcription by sequence-specific DNA binding factors. Cell 116 (2):247-257.
-
(2004)
Cell
, vol.116
, Issue.2
, pp. 247-257
-
-
Kadonaga, J.T.1
-
8
-
-
1842591130
-
The regulation of bacterial transcription initiation
-
Browning DF, Busby SJ (2004) The regulation of bacterial transcription initiation. Nat Rev Microbiol 2 (1):57-65.
-
(2004)
Nat Rev Microbiol
, vol.2
, Issue.1
, pp. 57-65
-
-
Browning, D.F.1
Busby, S.J.2
-
9
-
-
81255210794
-
Transcriptional regulation in Saccharomyces cerevisiae: Transcription factor regulation and function, mechanisms of initiation, and roles of activators and coactivators
-
Hahn S, Young ET (2011) Transcriptional regulation in Saccharomyces cerevisiae: Transcription factor regulation and function, mechanisms of initiation, and roles of activators and coactivators. Genetics 189 (3):705-736.
-
(2011)
Genetics
, vol.189
, Issue.3
, pp. 705-736
-
-
Hahn, S.1
Young, E.T.2
-
10
-
-
0037200079
-
Structural basis of transcription activation: The CAP-alpha CTD-DNA complex
-
Benoff B, et al. (2002) Structural basis of transcription activation: The CAP-alpha CTD-DNA complex. Science 297 (5586):1562-1566.
-
(2002)
Science
, vol.297
, Issue.5586
, pp. 1562-1566
-
-
Benoff, B.1
-
11
-
-
1642441938
-
Structure of a ternary transcription activation complex
-
Jain D, Nickels BE, Sun L, Hochschild A, Darst SA (2004) Structure of a ternary transcription activation complex. Mol Cell 13 (1):45-53.
-
(2004)
Mol Cell
, vol.13
, Issue.1
, pp. 45-53
-
-
Jain, D.1
Nickels, B.E.2
Sun, L.3
Hochschild, A.4
Darst, S.A.5
-
12
-
-
0034705320
-
Crystal structure of the lambda re-pressor C-terminal domain provides a model for cooperative operator binding
-
Bell CE, Frescura P, Hochschild A, Lewis M (2000) Crystal structure of the lambda re-pressor C-terminal domain provides a model for cooperative operator binding. Cell 101 (7):801-811.
-
(2000)
Cell
, vol.101
, Issue.7
, pp. 801-811
-
-
Bell, C.E.1
Frescura, P.2
Hochschild, A.3
Lewis, M.4
-
13
-
-
0035861984
-
Crystal structure of the lambda repressor C-terminal domain octamer
-
Bell CE, Lewis M (2001) Crystal structure of the lambda repressor C-terminal domain octamer. J Mol Biol 314 (5):1127-1136.
-
(2001)
J Mol Biol
, vol.314
, Issue.5
, pp. 1127-1136
-
-
Bell, C.E.1
Lewis, M.2
-
14
-
-
42549086222
-
Crystal structure of the lambda repressor and a model for pairwise cooperative operator binding
-
Stayrook S, Jaru-Ampornpan P, Ni J, Hochschild A, Lewis M (2008) Crystal structure of the lambda repressor and a model for pairwise cooperative operator binding. Nature 452 (7190):1022-1025.
-
(2008)
Nature
, vol.452
, Issue.7190
, pp. 1022-1025
-
-
Stayrook, S.1
Jaru-Ampornpan, P.2
Ni, J.3
Hochschild, A.4
Lewis, M.5
-
15
-
-
0033545416
-
Four dimers of lambda repressor bound to two suitably spaced pairs of lambda operators form octamers and DNA loops over large distances
-
Révet B, von Wilcken-Bergmann B, Bessert H, Barker A, Müller-Hill B (1999) Four dimers of lambda repressor bound to two suitably spaced pairs of lambda operators form octamers and DNA loops over large distances. Curr Biol 9 (3):151-154.
-
(1999)
Curr Biol
, vol.9
, Issue.3
, pp. 151-154
-
-
Révet, B.1
Von Wilcken-Bergmann, B.2
Bessert, H.3
Barker, A.4
Müller-Hill, B.5
-
16
-
-
1042278041
-
Cooperativity in long-range gene regulation by the lambda CI repressor
-
Dodd IB, et al. (2004) Cooperativity in long-range gene regulation by the lambda CI repressor. Genes Dev 18 (3):344-354.
-
(2004)
Genes Dev
, vol.18
, Issue.3
, pp. 344-354
-
-
Dodd, I.B.1
-
17
-
-
15444379609
-
On the role of Cro in lambda prophage induction
-
Svenningsen SL, Costantino N, Court DL, Adhya S (2005) On the role of Cro in lambda prophage induction. Proc Natl Acad Sci USA 102 (12):4465-4469.
-
(2005)
Proc Natl Acad Sci USA
, vol.102
, Issue.12
, pp. 4465-4469
-
-
Svenningsen, S.L.1
Costantino, N.2
Court, D.L.3
Adhya, S.4
-
18
-
-
0035890132
-
Octamerization of lambda CI re-pressor is needed for effective repression of P (RM) and efficient switching from ly-sogeny
-
Dodd IB, Perkins AJ, Tsemitsidis D, Egan JB (2001) Octamerization of lambda CI re-pressor is needed for effective repression of P (RM) and efficient switching from ly-sogeny. Genes Dev 15 (22):3013-3022.
-
(2001)
Genes Dev
, vol.15
, Issue.22
, pp. 3013-3022
-
-
Dodd, I.B.1
Perkins, A.J.2
Tsemitsidis, D.3
Egan, J.B.4
-
19
-
-
66249111861
-
Direct demonstration and quantification of long-range DNA looping by the lambda bacteriophage repressor
-
Zurla C, et al. (2009) Direct demonstration and quantification of long-range DNA looping by the lambda bacteriophage repressor. Nucleic Acids Res 37 (9):2789-2795.
-
(2009)
Nucleic Acids Res
, vol.37
, Issue.9
, pp. 2789-2795
-
-
Zurla, C.1
-
20
-
-
80052563421
-
Multilevel autoregulation of a; Repressor protein CI by DNA looping in vitro
-
Lewis D, Le P, Zurla C, Finzi L, Adhya S (2011) Multilevel autoregulation of a; repressor protein CI by DNA looping in vitro. Proc Natl Acad Sci USA 108 (36):14807-14812.
-
(2011)
Proc Natl Acad Sci USA
, vol.108
, Issue.36
, pp. 14807-14812
-
-
Lewis, D.1
Le Zurla P, C.2
Finzi, L.3
Adhya, S.4
-
21
-
-
44449154784
-
DNA looping can enhance lysogenic CI transcription in phage lambda
-
Anderson LM, Yang H (2008) DNA looping can enhance lysogenic CI transcription in phage lambda. Proc Natl Acad Sci USA 105 (15):5827-5832.
-
(2008)
Proc Natl Acad Sci USA
, vol.105
, Issue.15
, pp. 5827-5832
-
-
Anderson, L.M.1
Yang, H.2
-
22
-
-
78049435111
-
Stability and instability in the lysogenic state of phage lambda
-
Little JW, Michalowski CB (2010) Stability and instability in the lysogenic state of phage lambda. J Bacteriol 192 (22):6064-6076.
-
(2010)
J Bacteriol
, vol.192
, Issue.22
, pp. 6064-6076
-
-
Little, J.W.1
Michalowski, C.B.2
-
23
-
-
0030602875
-
Identification of an UP element within the IHF binding site at the PL1-PL2 tandem promoter of bacteriophage lambda
-
Giladi H, Murakami K, Ishihama A, Oppenheim AB (1996) Identification of an UP element within the IHF binding site at the PL1-PL2 tandem promoter of bacteriophage lambda. J Mol Biol 260 (4):484-491.
-
(1996)
J Mol Biol
, vol.260
, Issue.4
, pp. 484-491
-
-
Giladi, H.1
Murakami, K.2
Ishihama, A.3
Oppenheim, A.B.4
-
24
-
-
0031595527
-
Participation of IHF and a distant UP element in the stimulation of the phage lambda PL promoter
-
Giladi H, et al. (1998) Participation of IHF and a distant UP element in the stimulation of the phage lambda PL promoter. Mol Microbiol 30 (2):443-451.
-
(1998)
Mol Microbiol
, vol.30
, Issue.2
, pp. 443-451
-
-
Giladi, H.1
-
25
-
-
0025072237
-
Stringent spacing requirements for transcription activation by CRP
-
Gaston K, Bell A, Kolb A, Buc H, Busby S (1990) Stringent spacing requirements for transcription activation by CRP. Cell 62 (4):733-743.
-
(1990)
Cell
, vol.62
, Issue.4
, pp. 733-743
-
-
Gaston, K.1
Bell, A.2
Kolb, A.3
Buc, H.4
Busby, S.5
-
26
-
-
0025185784
-
Helical phase dependent action of CRP: Effect of the distance between the CRP site and the-35 region on promoter activity
-
Ushida C, Aiba H (1990) Helical phase dependent action of CRP: Effect of the distance between the CRP site and the-35 region on promoter activity. Nucleic Acids Res 18 (21):6325-6330.
-
(1990)
Nucleic Acids Res
, vol.18
, Issue.21
, pp. 6325-6330
-
-
Ushida, C.1
Aiba, H.2
-
27
-
-
0033567215
-
Bacterial promoter architecture: Subsite structure of UP elements and interactions with the carboxy-terminal domain of the RNA polymerase alpha subunit
-
Estrem ST, et al. (1999) Bacterial promoter architecture: Subsite structure of UP elements and interactions with the carboxy-terminal domain of the RNA polymerase alpha subunit. Genes Dev 13 (16):2134-2147.
-
(1999)
Genes Dev
, vol.13
, Issue.16
, pp. 2134-2147
-
-
Estrem, S.T.1
-
28
-
-
0035886540
-
UP element-dependent transcription at the Escherichia coli rrnB P1 promoter: Positional requirements and role of the RNA polymerase alpha subunit linker
-
Meng W, et al. (2001) UP element-dependent transcription at the Escherichia coli rrnB P1 promoter: Positional requirements and role of the RNA polymerase alpha subunit linker. Nucleic Acids Res 29 (20):4166-4178.
-
(2001)
Nucleic Acids Res
, vol.29
, Issue.20
, pp. 4166-4178
-
-
Meng, W.1
-
29
-
-
34249862579
-
The C-terminal domain of the Escherichia coli RNA poly-merase alpha subunit plays a role in the CI-dependent activation of the bacterio-phage lambda pM promoter
-
Kedzierska B, et al. (2007) The C-terminal domain of the Escherichia coli RNA poly-merase alpha subunit plays a role in the CI-dependent activation of the bacterio-phage lambda pM promoter. Nucleic Acids Res 35 (7):2311-2320.
-
(2007)
Nucleic Acids Res
, vol.35
, Issue.7
, pp. 2311-2320
-
-
Kedzierska, B.1
-
30
-
-
0037123602
-
Structural basis of transcription initiation: An RNA polymerase holoenzyme-DNA complex
-
Murakami KS, Masuda S, Campbell EA, Muzzin O, Darst SA (2002) Structural basis of transcription initiation: An RNA polymerase holoenzyme-DNA complex. Science 296 (5571):1285-1290.
-
(2002)
Science
, vol.296
, Issue.5571
, pp. 1285-1290
-
-
Murakami, K.S.1
Masuda, S.2
Campbell, E.A.3
Muzzin, O.4
Darst, S.A.5
-
32
-
-
0029090166
-
A variant of lambda repressor with an altered pattern of cooperative binding to DNA sites
-
Astromoff A, Ptashne M (1995) A variant of lambda repressor with an altered pattern of cooperative binding to DNA sites. Proc Natl Acad Sci USA 92 (18):8110-8114.
-
(1995)
Proc Natl Acad Sci USA
, vol.92
, Issue.18
, pp. 8110-8114
-
-
Astromoff, A.1
Ptashne, M.2
-
33
-
-
0025359549
-
Integration host factor stimulates the phage lambda pL promoter
-
Giladi H, Gottesman M, Oppenheim AB (1990) Integration host factor stimulates the phage lambda pL promoter. J Mol Biol 213 (1):109-121.
-
(1990)
J Mol Biol
, vol.213
, Issue.1
, pp. 109-121
-
-
Giladi, H.1
Gottesman, M.2
Oppenheim, A.B.3
-
34
-
-
33846895023
-
Bacterial enhancer-binding proteins: Unlocking sigma54-dependent gene transcription
-
Rappas M, Bose D, Zhang X (2007) Bacterial enhancer-binding proteins: Unlocking sigma54-dependent gene transcription. Curr Opin Struct Biol 17 (1):110-116.
-
(2007)
Curr Opin Struct Biol
, vol.17
, Issue.1
, pp. 110-116
-
-
Rappas, M.1
Bose, D.2
Zhang, X.3
-
35
-
-
0032530555
-
DNA sequence-dependent deformability deduced from protein-DNA crystal complexes
-
Olson WK, Gorin AA, Lu XJ, Hock LM, Zhurkin VB (1998) DNA sequence-dependent deformability deduced from protein-DNA crystal complexes. Proc Natl Acad Sci USA 95 (19):11163-11168.
-
(1998)
Proc Natl Acad Sci USA
, vol.95
, Issue.19
, pp. 11163-11168
-
-
Olson, W.K.1
Gorin, A.A.2
Lu, X.J.3
Hock, L.M.4
Zhurkin, V.B.5
-
36
-
-
3543012707
-
Crystallography & NMR system: A new software suite for macromolecular structure determination
-
Brünger AT, et al. (1998) Crystallography & NMR system: A new software suite for macromolecular structure determination. Acta Crystallogr D Biol Crystallogr 54 (Pt 5):905-921.
-
(1998)
Acta Crystallogr D Biol Crystallogr
, vol.54
, Issue.PART 5
, pp. 905-921
-
-
Brünger, A.T.1
-
37
-
-
78650905964
-
ROSETTA3: An object-oriented software suite for the simulation and design of macromolecules
-
Leaver-Fay A, et al. (2011) ROSETTA3: An object-oriented software suite for the simulation and design of macromolecules. Methods Enzymol 487:545-574.
-
(2011)
Methods Enzymol
, vol.487
, pp. 545-574
-
-
Leaver-Fay, A.1
|