-
1
-
-
47549109227
-
The probability of HIV infection in a new host and its reduction with microbicides
-
Tuckwell HC, Shipman PD, Perelson AS (2008) The probability of HIV infection in a new host and its reduction with microbicides. Math Biosci 214: 81-86.
-
(2008)
Math Biosci
, vol.214
, pp. 81-86
-
-
Tuckwell, H.C.1
Shipman, P.D.2
Perelson, A.S.3
-
2
-
-
66049139947
-
Genetic identity, biological phenotype, and evolutionary pathways of transmitted/ founder viruses in acute and early HIV-1 infection
-
Salazar-Gonzalez JF, Salazar MG, Keele BF, Learn GH, Giorgi EE, et al. (2009) Genetic identity, biological phenotype, and evolutionary pathways of transmitted/ founder viruses in acute and early HIV-1 infection. J Exp Med 206: 1273-1289.
-
(2009)
J Exp Med
, vol.206
, pp. 1273-1289
-
-
Salazar-Gonzalez, J.F.1
Salazar, M.G.2
Keele, B.F.3
Learn, G.H.4
Giorgi, E.E.5
-
3
-
-
34547635063
-
HIV integration site selection: Analysis by massively parallel pyrosequencing reveals association with epigenetic modifications
-
Wang GP, Ciuffi A, Leipzig J, Berry CC, Bushman FD (2007) HIV integration site selection: analysis by massively parallel pyrosequencing reveals association with epigenetic modifications. Genome Res 17: 1186-1194.
-
(2007)
Genome Res
, vol.17
, pp. 1186-1194
-
-
Wang, G.P.1
Ciuffi, A.2
Leipzig, J.3
Berry, C.C.4
Bushman, F.D.5
-
4
-
-
22744441386
-
Stochastic gene expression in a lentiviral positive-feedback loop: HIV-1 Tat fluctuations drive phenotypic diversity
-
Weinberger LS, Burnett JC, Toettcher JE, Arkin AP, Schaffer DV (2005) Stochastic gene expression in a lentiviral positive-feedback loop: HIV-1 Tat fluctuations drive phenotypic diversity. Cell 122: 169-182.
-
(2005)
Cell
, vol.122
, pp. 169-182
-
-
Weinberger, L.S.1
Burnett, J.C.2
Toettcher, J.E.3
Arkin, A.P.4
Schaffer, D.V.5
-
5
-
-
76449087202
-
The effect of intrinsic stochasticity on transmitted HIV drug resistance patterns
-
Marks AJ, Pillay D, McLean AR (2009) The effect of intrinsic stochasticity on transmitted HIV drug resistance patterns. J Theor Biol 262: 1-13.
-
(2009)
J Theor Biol
, vol.262
, pp. 1-13
-
-
Marks, A.J.1
Pillay, D.2
McLean, A.R.3
-
6
-
-
55949083820
-
HIV rebounds from latently infected cells, rather than from continuing low-level replication
-
Joos B, Fischer M, Kuster H, Pillai SK, Wong JK, et al. (2008) HIV rebounds from latently infected cells, rather than from continuing low-level replication. Proc Natl Acad Sci U S A 105: 16725-16730.
-
(2008)
Proc Natl Acad Sci U S A
, vol.105
, pp. 16725-16730
-
-
Joos, B.1
Fischer, M.2
Kuster, H.3
Pillai, S.K.4
Wong, J.K.5
-
7
-
-
34548849134
-
Regulation of HIV-1 latency by T-cell activation
-
Williams SA, Greene WC (2007) Regulation of HIV-1 latency by T-cell activation. Cytokine 39: 63-74.
-
(2007)
Cytokine
, vol.39
, pp. 63-74
-
-
Williams, S.A.1
Greene, W.C.2
-
8
-
-
41349095731
-
Transient-mediated fate determination in a transcriptional circuit of HIV
-
Weinberger LS, Dar RD, Simpson ML (2008) Transient-mediated fate determination in a transcriptional circuit of HIV. Nat Genet 40: 466-470.
-
(2008)
Nat Genet
, vol.40
, pp. 466-470
-
-
Weinberger, L.S.1
Dar, R.D.2
Simpson, M.L.3
-
9
-
-
0035794637
-
The site of HIV-1 integration in the human genome determines basal transcriptional activity and response to Tat transactivation
-
Jordan A, Defechereux P, Verdin E (2001) The site of HIV-1 integration in the human genome determines basal transcriptional activity and response to Tat transactivation. EMBO J 20: 1726-1738.
-
(2001)
EMBO J
, vol.20
, pp. 1726-1738
-
-
Jordan, A.1
Defechereux, P.2
Verdin, E.3
-
10
-
-
59249086373
-
Control of stochastic gene expression by host factors at the HIV promoter
-
Burnett JC, Miller-Jensen K, Shah PS, Arkin AP, Schaffer DV (2009) Control of stochastic gene expression by host factors at the HIV promoter. PLoS Pathog 5: e1000260.
-
(2009)
PLoS Pathog
, vol.5
-
-
Burnett, J.C.1
Miller-Jensen, K.2
Shah, P.S.3
Arkin, A.P.4
Schaffer, D.V.5
-
11
-
-
0242584383
-
Heterogeneous clearance rates of long-lived lymphocytes infected with HIV: Intrinsic stability predicts lifelong persistence
-
Strain MC, Gunthard HF, Havlir DV, Ignacio CC, Smith DM, et al. (2003) Heterogeneous clearance rates of long-lived lymphocytes infected with HIV: intrinsic stability predicts lifelong persistence. Proc Natl Acad Sci U S A 100: 4819-4824.
-
(2003)
Proc Natl Acad Sci U S A
, vol.100
, pp. 4819-4824
-
-
Strain, M.C.1
Gunthard, H.F.2
Havlir, D.V.3
Ignacio, C.C.4
Smith, D.M.5
-
12
-
-
7244255971
-
The multifactorial nature of HIV-1 latency
-
Lassen K, Han Y, Zhou Y, Siliciano J, Siliciano RF (2004) The multifactorial nature of HIV-1 latency. Trends Mol Med 10: 525-531.
-
(2004)
Trends Mol Med
, vol.10
, pp. 525-531
-
-
Lassen, K.1
Han, Y.2
Zhou, Y.3
Siliciano, J.4
Siliciano, R.F.5
-
13
-
-
0030913366
-
Quantification of latent tissue reservoirs and total body viral load in HIV-1 infection
-
Chun TW, Carruth L, Finzi D, Shen X, DiGiuseppe JA, et al. (1997) Quantification of latent tissue reservoirs and total body viral load in HIV-1 infection. Nature 387: 183-188.
-
(1997)
Nature
, vol.387
, pp. 183-188
-
-
Chun, T.W.1
Carruth, L.2
Finzi, D.3
Shen, X.4
DiGiuseppe, J.A.5
-
14
-
-
21044451712
-
Genome-wide analysis of chromosomal features repressing human immunodeficiency virus transcription
-
Lewinski MK, Bisgrove D, Shinn P, Chen H, Hoffmann C, et al. (2005) Genome-wide analysis of chromosomal features repressing human immunodeficiency virus transcription. J Virol 79: 6610-6619.
-
(2005)
J Virol
, vol.79
, pp. 6610-6619
-
-
Lewinski, M.K.1
Bisgrove, D.2
Shinn, P.3
Chen, H.4
Hoffmann, C.5
-
15
-
-
34548405530
-
Domain-wide regulation of gene expression in the human genome
-
Gierman HJ, Indemans MH, Koster J, Goetze S, Seppen J, et al. (2007) Domain-wide regulation of gene expression in the human genome. Genome Res 17: 1286-1295.
-
(2007)
Genome Res
, vol.17
, pp. 1286-1295
-
-
Gierman, H.J.1
Indemans, M.H.2
Koster, J.3
Goetze, S.4
Seppen, J.5
-
16
-
-
47849116920
-
Genomewide transposon tagging reveals location-dependent effects on transcription and chromatin organization in Arabidopsis
-
Rosin FM, Watanabe N, Cacas JL, Kato N, Arroyo JM, et al. (2008) Genomewide transposon tagging reveals location-dependent effects on transcription and chromatin organization in Arabidopsis. Plant J 55: 514-525.
-
(2008)
Plant J
, vol.55
, pp. 514-525
-
-
Rosin, F.M.1
Watanabe, N.2
Cacas, J.L.3
Kato, N.4
Arroyo, J.M.5
-
17
-
-
0001258914
-
The Burst Size Distribution in the Growth of Bacterial Viruses (Bacteriophages)
-
Delbruck M (1945) The Burst Size Distribution in the Growth of Bacterial Viruses (Bacteriophages). J Bacteriol 50: 131-135.
-
(1945)
J Bacteriol
, vol.50
, pp. 131-135
-
-
Delbruck, M.1
-
18
-
-
0017185026
-
Non-genetic individuality: Chance in the single cell
-
Spudich JL, Koshland DE, Jr. (1976) Non-genetic individuality: chance in the single cell. Nature 262: 467-471.
-
(1976)
Nature
, vol.262
, pp. 467-471
-
-
Spudich, J.L.1
Koshland Jr., D.E.2
-
19
-
-
0026075591
-
A stochastic model for gene induction
-
Ko MS (1991) A stochastic model for gene induction. J Theor Biol 153: 181-194.
-
(1991)
J Theor Biol
, vol.153
, pp. 181-194
-
-
Ko, M.S.1
-
20
-
-
34147131574
-
From fluctuations to phenotypes: The physiology of noise
-
Samoilov MS, Price G, Arkin AP (2006) From fluctuations to phenotypes: the physiology of noise. Sci STKE 2006: re17.
-
(2006)
Sci STKE
, vol.2006
-
-
Samoilov, M.S.1
Price, G.2
Arkin, A.P.3
-
21
-
-
0037075022
-
Establishment of developmental precision and proportions in the early Drosophila embryo
-
Houchmandzadeh B, Wieschaus E, Leibler S (2002) Establishment of developmental precision and proportions in the early Drosophila embryo. Nature 415: 798-802.
-
(2002)
Nature
, vol.415
, pp. 798-802
-
-
Houchmandzadeh, B.1
Wieschaus, E.2
Leibler, S.3
-
22
-
-
4644343922
-
Bacterial persistence as a phenotypic switch
-
Balaban NQ, Merrin J, Chait R, Kowalik L, Leibler S (2004) Bacterial persistence as a phenotypic switch. Science 305: 1622-1625.
-
(2004)
Science
, vol.305
, pp. 1622-1625
-
-
Balaban, N.Q.1
Merrin, J.2
Chait, R.3
Kowalik, L.4
Leibler, S.5
-
23
-
-
14744282987
-
Diversity in times of adversity: Probabilistic strategies in microbial survival games
-
Wolf DM, Vazirani VV, Arkin AP (2005) Diversity in times of adversity: probabilistic strategies in microbial survival games. J Theor Biol 234: 227-253.
-
(2005)
J Theor Biol
, vol.234
, pp. 227-253
-
-
Wolf, D.M.1
Vazirani, V.V.2
Arkin, A.P.3
-
24
-
-
44349162752
-
Transcriptome-wide noise controls lineage choice in mammalian progenitor cells
-
Chang HH, Hemberg M, Barahona M, Ingber DE, Huang S (2008) Transcriptome-wide noise controls lineage choice in mammalian progenitor cells. Nature 453: 544-547.
-
(2008)
Nature
, vol.453
, pp. 544-547
-
-
Chang, H.H.1
Hemberg, M.2
Barahona, M.3
Ingber, D.E.4
Huang, S.5
-
25
-
-
33749842033
-
Deviant effects in molecular reaction pathways
-
Samoilov MS, Arkin AP (2006) Deviant effects in molecular reaction pathways. Nat Biotechnol 24: 1235-1240.
-
(2006)
Nat Biotechnol
, vol.24
, pp. 1235-1240
-
-
Samoilov, M.S.1
Arkin, A.P.2
-
26
-
-
33846097600
-
Dynamics of single-cell gene expression
-
Longo D, Hasty J (2006) Dynamics of single-cell gene expression. Mol Syst Biol 2: 64.
-
(2006)
Mol Syst Biol
, vol.2
, pp. 64
-
-
Longo, D.1
Hasty, J.2
-
28
-
-
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 U S A 79: 1129-1133.
-
(1982)
Proc Natl Acad Sci U S A
, vol.79
, pp. 1129-1133
-
-
Ackers, G.K.1
Johnson, A.D.2
Shea, M.A.3
-
29
-
-
38349185928
-
Effects of molecular memory and bursting on fluctuations in gene expression
-
Pedraza JM, Paulsson J (2008) Effects of molecular memory and bursting on fluctuations in gene expression. Science 319: 339-343.
-
(2008)
Science
, vol.319
, pp. 339-343
-
-
Pedraza, J.M.1
Paulsson, J.2
-
30
-
-
62449302589
-
Elongation dynamics shape bursty transcription and translation
-
Dobrzynski M, Bruggeman FJ (2009) Elongation dynamics shape bursty transcription and translation. Proc Natl Acad Sci U S A 106: 2583-2588.
-
(2009)
Proc Natl Acad Sci U S A
, vol.106
, pp. 2583-2588
-
-
Dobrzynski, M.1
Bruggeman, F.J.2
-
31
-
-
55549113874
-
A quantitative model of transcription factoractivated gene expression
-
Kim HD, O'Shea EK (2008) A quantitative model of transcription factoractivated 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
-
32
-
-
0036578645
-
Regulation of noise in the expression of a single gene
-
Ozbudak EM, Thattai M, Kurtser I, Grossman AD, van Oudenaarden A (2002) Regulation of noise in the expression of a single gene. Nat Genet 31: 69-73.
-
(2002)
Nat Genet
, vol.31
, pp. 69-73
-
-
Ozbudak, E.M.1
Thattai, M.2
Kurtser, I.3
Grossman, A.D.4
van Oudenaarden, A.5
-
33
-
-
32844454497
-
Origins of extrinsic variability in eukaryotic gene expression
-
Volfson D, Marciniak J, Blake WJ, Ostroff N, Tsimring LS, et al. (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
-
34
-
-
0842285841
-
Summing up the noise in gene networks
-
Paulsson J (2004) Summing up the noise in gene networks. Nature 427: 415-418.
-
(2004)
Nature
, vol.427
, pp. 415-418
-
-
Paulsson, J.1
-
36
-
-
25144450143
-
Contributions of low molecule number and chromosomal positioning to stochastic gene expression
-
Becskei A, Kaufmann BB, van Oudenaarden A (2005) Contributions of low molecule number and chromosomal positioning to stochastic gene expression. Nat Genet 37: 937-944.
-
(2005)
Nat Genet
, vol.37
, pp. 937-944
-
-
Becskei, A.1
Kaufmann, B.B.2
van Oudenaarden, A.3
-
37
-
-
33745683386
-
Stochastically driven genetic circuits
-
Tsimring LS, Volfson D, Hasty J (2006) Stochastically driven genetic circuits. Chaos 16: 026103.
-
(2006)
Chaos
, vol.16
, pp. 026103
-
-
Tsimring, L.S.1
Volfson, D.2
Hasty, J.3
-
38
-
-
33745220278
-
Single-cell proteomic analysis of S. cerevisiae reveals the architecture of biological noise
-
Newman JR, Ghaemmaghami S, Ihmels J, Breslow DK, Noble M, et al. (2006) Single-cell proteomic analysis of S. cerevisiae reveals the architecture of biological noise. Nature 441: 840-846.
-
(2006)
Nature
, vol.441
, pp. 840-846
-
-
Newman, J.R.1
Ghaemmaghami, S.2
Ihmels, J.3
Breslow, D.K.4
Noble, M.5
-
39
-
-
33745287724
-
Noise in protein expression scales with natural protein abundance
-
Bar-Even A, Paulsson J, Maheshri N, Carmi M, O'Shea E, et al. (2006) Noise in protein expression scales with natural protein abundance. Nat Genet 38: 636-643.
-
(2006)
Nat Genet
, vol.38
, pp. 636-643
-
-
Bar-Even, A.1
Paulsson, J.2
Maheshri, N.3
Carmi, M.4
O'Shea, E.5
-
40
-
-
34547519199
-
Evolution of chromosome organization driven by selection for reduced gene expression noise
-
Batada NN, Hurst LD (2007) Evolution of chromosome organization driven by selection for reduced gene expression noise. Nat Genet 39: 945-949.
-
(2007)
Nat Genet
, vol.39
, pp. 945-949
-
-
Batada, N.N.1
Hurst, L.D.2
-
41
-
-
63449105244
-
Intrinsic variability of gene expression encoded in nucleosome positioning sequences
-
Choi JK, Kim YJ (2009) Intrinsic variability of gene expression encoded in nucleosome positioning sequences. Nat Genet 41: 498-503.
-
(2009)
Nat Genet
, vol.41
, pp. 498-503
-
-
Choi, J.K.1
Kim, Y.J.2
-
42
-
-
42949131308
-
Selection to minimise noise in living systems and its implications for the evolution of gene expression
-
Lehner B (2008) Selection to minimise noise in living systems and its implications for the evolution of gene expression. Mol Syst Biol 4: 170.
-
(2008)
Mol Syst Biol
, vol.4
, pp. 170
-
-
Lehner, B.1
-
43
-
-
69249127529
-
Genomic analysis reveals a tight link between transcription factor dynamics and regulatory network architecture
-
Jothi R, Balaji S, Wuster A, Grochow JA, Gsponer J, et al. (2009) Genomic analysis reveals a tight link between transcription factor dynamics and regulatory network architecture. Mol Syst Biol 5: 294.
-
(2009)
Mol Syst Biol
, vol.5
, pp. 294
-
-
Jothi, R.1
Balaji, S.2
Wuster, A.3
Grochow, J.A.4
Gsponer, J.5
-
45
-
-
0242416539
-
Noise in eukaryotic gene expression
-
MKA
-
Blake WJ, M KA, Cantor CR, Collins JJ (2003) Noise in eukaryotic gene expression. Nature 422: 633-637.
-
(2003)
Nature
, vol.422
, pp. 633-637
-
-
Blake, W.J.1
Cantor, C.R.2
Collins, J.J.3
-
46
-
-
33748994704
-
Stochastic mRNA synthesis in mammalian cells
-
Raj A, Peskin CS, Tranchina D, Vargas DY, Tyagi S (2006) Stochastic mRNA synthesis in mammalian cells. PLoS Biol 4: e309.
-
(2006)
PLoS Biol
, vol.4
-
-
Raj, A.1
Peskin, C.S.2
Tranchina, D.3
Vargas, D.Y.4
Tyagi, S.5
-
47
-
-
2942718723
-
Control of stochasticity in eukaryotic gene expression
-
Raser JM, O'Shea EK (2004) Control of stochasticity in eukaryotic gene expression. Science 304: 1811-1814.
-
(2004)
Science
, vol.304
, pp. 1811-1814
-
-
Raser, J.M.1
O'Shea, E.K.2
-
48
-
-
57149101122
-
Single-RNA counting reveals alternative modes of gene expression in yeast
-
Zenklusen D, Larson DR, Singer RH (2008) Single-RNA counting reveals alternative modes of gene expression in yeast. Nat Struct Mol Biol 15: 1263-1271.
-
(2008)
Nat Struct Mol Biol
, vol.15
, pp. 1263-1271
-
-
Zenklusen, D.1
Larson, D.R.2
Singer, R.H.3
-
49
-
-
65449158009
-
Protein dynamics in individual human cells: Experiment and theory
-
Cohen AA, Kalisky T, Mayo A, Geva-Zatorsky N, Danon T, et al. (2009) Protein dynamics in individual human cells: experiment and theory. PLoS One 4: e4901.
-
(2009)
PLoS One
, vol.4
-
-
Cohen, A.A.1
Kalisky, T.2
Mayo, A.3
Geva-Zatorsky, N.4
Danon, T.5
-
50
-
-
53549123008
-
Nature, nurture, or chance: Stochastic gene expression and its consequences
-
Raj A, van Oudenaarden A (2008) Nature, nurture, or chance: stochastic gene expression and its consequences. Cell 135: 216-226.
-
(2008)
Cell
, vol.135
, pp. 216-226
-
-
Raj, A.1
van Oudenaarden, A.2
-
51
-
-
27944487541
-
Tat gets the ''green'' light on transcription initiation
-
Brady J, Kashanchi F (2005) Tat gets the ''green'' light on transcription initiation. Retrovirology 2: 69.
-
(2005)
Retrovirology
, vol.2
, pp. 69
-
-
Brady, J.1
Kashanchi, F.2
-
53
-
-
34547360659
-
Understanding stochastic simulations of the smallest genetic networks
-
Schultz D, Onuchic JN, Wolynes PG (2007) Understanding stochastic simulations of the smallest genetic networks. J Chem Phys 126: 245102.
-
(2007)
J Chem Phys
, vol.126
, pp. 245102
-
-
Schultz, D.1
Onuchic, J.N.2
Wolynes, P.G.3
-
54
-
-
0000111447
-
Markovian Modeling of Gene-Product Synthesis
-
Peccoud JaY, B (1995) Markovian Modeling of Gene-Product Synthesis. Theor Pop Biol 48: 13.
-
(1995)
Theor Pop Biol
, vol.48
, pp. 13
-
-
Peccoud Jay, B.1
-
56
-
-
77951604611
-
Transcriptional bursting from the HIV-1 promoter is a significant source of stochastic noise in HIV-1 gene expression
-
Singh A, Razooky B, Cox CD, Simpson ML, Weinberger LS. Transcriptional bursting from the HIV-1 promoter is a significant source of stochastic noise in HIV-1 gene expression. Biophys J 98: L32-34.
-
Biophys J
, vol.98
-
-
Singh, A.1
Razooky, B.2
Cox, C.D.3
Simpson, M.L.4
Weinberger, L.S.5
-
57
-
-
0026862118
-
Induction mechanism of a single gene molecule: Stochastic or deterministic?
-
Ko MS (1992) Induction mechanism of a single gene molecule: stochastic or deterministic? Bioessays 14: 341-346.
-
(1992)
Bioessays
, vol.14
, pp. 341-346
-
-
Ko, M.S.1
-
58
-
-
33845257870
-
Variability and memory of protein levels in human cells
-
Sigal A, Milo R, Cohen A, Geva-Zatorsky N, Klein Y, et al. (2006) Variability and memory of protein levels in human cells. Nature 444: 643-646.
-
(2006)
Nature
, vol.444
, pp. 643-646
-
-
Sigal, A.1
Milo, R.2
Cohen, A.3
Geva-Zatorsky, N.4
Klein, Y.5
-
59
-
-
0036232430
-
Counterregulation of chromatin deacetylation and histone deacetylase occupancy at the integrated promoter of human immunodeficiency virus type 1 (HIV-1) by the HIV-1 repressor YY1 and HIV-1 activator Tat
-
He G, Margolis DM (2002) Counterregulation of chromatin deacetylation and histone deacetylase occupancy at the integrated promoter of human immunodeficiency virus type 1 (HIV-1) by the HIV-1 repressor YY1 and HIV-1 activator Tat. Mol Cell Biol 22: 2965-2973.
-
(2002)
Mol Cell Biol
, vol.22
, pp. 2965-2973
-
-
He, G.1
Margolis, D.M.2
-
60
-
-
52449107549
-
Factors controlling chromatin organization and nucleosome positioning for establishment and maintenance of HIV latency
-
Sadowski I, Lourenco P, Malcolm T (2008) Factors controlling chromatin organization and nucleosome positioning for establishment and maintenance of HIV latency. Curr HIV Res 6: 286-295.
-
(2008)
Curr HIV Res
, vol.6
, pp. 286-295
-
-
Sadowski, I.1
Lourenco, P.2
Malcolm, T.3
-
61
-
-
65349193781
-
A limited group of class I histone deacetylases acts to repress human immunodeficiency virus type 1 expression
-
Keedy KS, Archin NM, Gates AT, Espeseth A, Hazuda DJ, et al. (2009) A limited group of class I histone deacetylases acts to repress human immunodeficiency virus type 1 expression. J Virol 83: 4749-4756.
-
(2009)
J Virol
, vol.83
, pp. 4749-4756
-
-
Keedy, K.S.1
Archin, N.M.2
Gates, A.T.3
Espeseth, A.4
Hazuda, D.J.5
-
62
-
-
35148858784
-
c-Myc and Sp1 Contribute to Proviral Latency by Recruiting HDAC1 to the Human Immunodeficiency Virus Type 1 promoter
-
Jiang G, Espeseth A, Hazuda DJ, Margolis DM (2007) c-Myc and Sp1 Contribute to Proviral Latency by Recruiting HDAC1 to the Human Immunodeficiency Virus Type 1 promoter. J Virol 81: 10914-10923.
-
(2007)
J Virol
, vol.81
, pp. 10914-10923
-
-
Jiang, G.1
Espeseth, A.2
Hazuda, D.J.3
Margolis, D.M.4
-
63
-
-
30444431914
-
NFkappaB p50 promotes HIV latency through HDAC recruitment and repression of transcriptional initiation
-
Williams SA, Chen LF, Kwon H, Ruiz-Jarabo CM, Verdin E, et al. (2006) NFkappaB p50 promotes HIV latency through HDAC recruitment and repression of transcriptional initiation. EMBO J 25: 139-149.
-
(2006)
EMBO J
, vol.25
, pp. 139-149
-
-
Williams, S.A.1
Chen, L.F.2
Kwon, H.3
Ruiz-Jarabo, C.M.4
Verdin, E.5
-
64
-
-
0029671333
-
NF-kappa Bmediated chromatin reconfiguration and transcriptional activation of the HIV-1 enhancer in vitro
-
Pazin MJ, Sheridan PL, Cannon K, Cao Z, Keck JG, et al. (1996) NF-kappa Bmediated chromatin reconfiguration and transcriptional activation of the HIV-1 enhancer in vitro. Genes Dev 10: 37-49.
-
(1996)
Genes Dev
, vol.10
, pp. 37-49
-
-
Pazin, M.J.1
Sheridan, P.L.2
Cannon, K.3
Cao, Z.4
Keck, J.G.5
-
65
-
-
0027209915
-
A cooperative interaction between NF-kappa B and Sp1 is required for HIV-1 enhancer activation
-
Perkins ND, Edwards NL, Duckett CS, Agranoff AB, Schmid RM, et al. (1993) A cooperative interaction between NF-kappa B and Sp1 is required for HIV-1 enhancer activation. EMBO J 12: 3551-3558.
-
(1993)
EMBO J
, vol.12
, pp. 3551-3558
-
-
Perkins, N.D.1
Edwards, N.L.2
Duckett, C.S.3
Agranoff, A.B.4
Schmid, R.M.5
-
66
-
-
0030614504
-
Regulation of NF-kappaB by cyclin-dependent kinases associated with the p300 coactivator
-
Perkins ND, Felzien LK, Betts JC, Leung K, Beach DH, et al. (1997) Regulation of NF-kappaB by cyclin-dependent kinases associated with the p300 coactivator. Science 275: 523-527.
-
(1997)
Science
, vol.275
, pp. 523-527
-
-
Perkins, N.D.1
Felzien, L.K.2
Betts, J.C.3
Leung, K.4
Beach, D.H.5
-
67
-
-
0029953664
-
cis-acting sequences located downstream of the human immunodeficiency virus type 1 promoter affect its chromatin structure and transcriptional activity
-
El Kharroubi A, Martin MA (1996) cis-acting sequences located downstream of the human immunodeficiency virus type 1 promoter affect its chromatin structure and transcriptional activity. Mol Cell Biol 16: 2958-2966.
-
(1996)
Mol Cell Biol
, vol.16
, pp. 2958-2966
-
-
El Kharroubi, A.1
Martin, M.A.2
-
68
-
-
0141841774
-
Structure of NFAT1 bound as a dimer to the HIV-1 LTR kappa B element
-
Giffin MJ, Stroud JC, Bates DL, von Koenig KD, Hardin J, et al. (2003) Structure of NFAT1 bound as a dimer to the HIV-1 LTR kappa B element. Nat Struct Biol 10: 800-806.
-
(2003)
Nat Struct Biol
, vol.10
, pp. 800-806
-
-
Giffin, M.J.1
Stroud, J.C.2
Bates, D.L.3
von Koenig, K.D.4
Hardin, J.5
-
69
-
-
0024454740
-
Human immunodeficiency virus type 1 LTR TATA and TAR region sequences required for transcriptional regulation
-
Garcia JA, Harrich D, Soultanakis E, Wu F, Mitsuyasu R, et al. (1989) Human immunodeficiency virus type 1 LTR TATA and TAR region sequences required for transcriptional regulation. EMBO J 8: 765-778.
-
(1989)
EMBO J
, vol.8
, pp. 765-778
-
-
Garcia, J.A.1
Harrich, D.2
Soultanakis, E.3
Wu, F.4
Mitsuyasu, R.5
-
70
-
-
0026501088
-
Functional roles for the TATA promoter and enhancers in basal and Tat-induced expression of the human immunodeficiency virus type 1 long terminal repeat
-
Berkhout B, Jeang KT (1992) Functional roles for the TATA promoter and enhancers in basal and Tat-induced expression of the human immunodeficiency virus type 1 long terminal repeat. J Virol 66: 139-149.
-
(1992)
J Virol
, vol.66
, pp. 139-149
-
-
Berkhout, B.1
Jeang, K.T.2
-
71
-
-
43749088127
-
Two strategies for gene regulation by promoter nucleosomes
-
Tirosh I, Barkai N (2008) Two strategies for gene regulation by promoter nucleosomes. Genome Res 18: 1084-1091.
-
(2008)
Genome Res
, vol.18
, pp. 1084-1091
-
-
Tirosh, I.1
Barkai, N.2
-
72
-
-
69449102464
-
Genome-wide mapping of HATs and HDACs reveals distinct functions in active and inactive genes
-
Wang Z, Zang C, Cui K, Schones DE, Barski A, et al. (2009) Genome-wide mapping of HATs and HDACs reveals distinct functions in active and inactive genes. Cell 138: 1019-1031.
-
(2009)
Cell
, vol.138
, pp. 1019-1031
-
-
Wang, Z.1
Zang, C.2
Cui, K.3
Schones, D.E.4
Barski, A.5
-
73
-
-
0344897665
-
Nongenic transcription, gene regulation and action at a distance
-
Cook PR (2003) Nongenic transcription, gene regulation and action at a distance. J Cell Sci 116: 4483-4491.
-
(2003)
J Cell Sci
, vol.116
, pp. 4483-4491
-
-
Cook, P.R.1
-
74
-
-
33847077659
-
Beyond the sequence: Cellular organization of genome function
-
Misteli T (2007) Beyond the sequence: cellular organization of genome function. Cell 128: 787-800.
-
(2007)
Cell
, vol.128
, pp. 787-800
-
-
Misteli, T.1
-
75
-
-
36849074774
-
Dynamics and interplay of nuclear architecture, genome organization, and gene expression
-
Schneider R, Grosschedl R (2007) Dynamics and interplay of nuclear architecture, genome organization, and gene expression. Genes Dev 21: 3027-3043.
-
(2007)
Genes Dev
, vol.21
, pp. 3027-3043
-
-
Schneider, R.1
Grosschedl, R.2
-
76
-
-
43449096915
-
Chromatin decouples promoter threshold from dynamic range
-
Lam FH, Steger DJ, O'Shea EK (2008) Chromatin decouples promoter threshold from dynamic range. Nature 453: 246-250.
-
(2008)
Nature
, vol.453
, pp. 246-250
-
-
Lam, F.H.1
Steger, D.J.2
O'Shea, E.K.3
-
77
-
-
48649089113
-
Transcriptional interference antagonizes proviral gene expression to promote HIV latency
-
Lenasi T, Contreras X, Peterlin BM (2008) Transcriptional interference antagonizes proviral gene expression to promote HIV latency. Cell Host Microbe 4: 123-133.
-
(2008)
Cell Host Microbe
, vol.4
, pp. 123-133
-
-
Lenasi, T.1
Contreras, X.2
Peterlin, B.M.3
-
78
-
-
0348087031
-
HIV Tat, its TARgets and the control of viral gene expression
-
Brigati C, Giacca M, Noonan DM, Albini A (2003) HIV Tat, its TARgets and the control of viral gene expression. FEMS Microbiol Lett 220: 57-65.
-
(2003)
FEMS Microbiol Lett
, vol.220
, pp. 57-65
-
-
Brigati, C.1
Giacca, M.2
Noonan, D.M.3
Albini, A.4
-
79
-
-
0029956642
-
Enhanced processivity of RNA polymerase II triggered by Tat-induced phosphorylation of its carboxy-terminal domain
-
Parada CA, Roeder RG (1996) Enhanced processivity of RNA polymerase II triggered by Tat-induced phosphorylation of its carboxy-terminal domain. Nature 384: 375-378.
-
(1996)
Nature
, vol.384
, pp. 375-378
-
-
Parada, C.A.1
Roeder, R.G.2
-
80
-
-
0024414213
-
HIV-1 Tat protein increases transcriptional initiation and stabilizes elongation
-
Laspia MF, Rice AP, Mathews MB (1989) HIV-1 Tat protein increases transcriptional initiation and stabilizes elongation. Cell 59: 283-292.
-
(1989)
Cell
, vol.59
, pp. 283-292
-
-
Laspia, M.F.1
Rice, A.P.2
Mathews, M.B.3
-
81
-
-
0037013851
-
Transcriptional synergy between Tat and PCAF is dependent on the binding of acetylated Tat to the PCAF bromodomain
-
Dorr A, Kiermer V, Pedal A, Rackwitz HR, Henklein P, et al. (2002) Transcriptional synergy between Tat and PCAF is dependent on the binding of acetylated Tat to the PCAF bromodomain. EMBO J 21: 2715-2723.
-
(2002)
EMBO J
, vol.21
, pp. 2715-2723
-
-
Dorr, A.1
Kiermer, V.2
Pedal, A.3
Rackwitz, H.R.4
Henklein, P.5
-
82
-
-
57349140010
-
Transcriptional regulation constrains the organization of genes on eukaryotic chromosomes
-
Janga SC, Collado-Vides J, Babu MM (2008) Transcriptional regulation constrains the organization of genes on eukaryotic chromosomes. Proc Natl Acad Sci U S A 105: 15761-15766.
-
(2008)
Proc Natl Acad Sci U S A
, vol.105
, pp. 15761-15766
-
-
Janga, S.C.1
Collado-Vides, J.2
Babu, M.M.3
-
83
-
-
66049090454
-
The impact of genomic neighborhood on the evolution of human and chimpanzee transcriptome
-
De S, Teichmann SA, Babu MM (2009) The impact of genomic neighborhood on the evolution of human and chimpanzee transcriptome. Genome Res 19: 785-794.
-
(2009)
Genome Res
, vol.19
, pp. 785-794
-
-
De, S.1
Teichmann, S.A.2
Babu, M.M.3
-
84
-
-
59649118645
-
Higherorder genomic organization of cellular functions in yeast
-
Tuller T, Rubinstein U, Bar D, Gurevitch M, Ruppin E, et al. (2009) Higherorder genomic organization of cellular functions in yeast. J Comput Biol 16: 303-316.
-
(2009)
J Comput Biol
, vol.16
, pp. 303-316
-
-
Tuller, T.1
Rubinstein, U.2
Bar, D.3
Gurevitch, M.4
Ruppin, E.5
-
85
-
-
58549091848
-
Eukaryotic gene regulation in three dimensions and its impact on genome evolution
-
Babu MM, Janga SC, de Santiago I, Pombo A (2008) Eukaryotic gene regulation in three dimensions and its impact on genome evolution. Curr Opin Genet Dev 18: 571-582.
-
(2008)
Curr Opin Genet Dev
, vol.18
, pp. 571-582
-
-
Babu, M.M.1
Janga, S.C.2
de Santiago, I.3
Pombo, A.4
-
86
-
-
0031710033
-
A thirdgeneration lentivirus vector with a conditional packaging system
-
Dull T, Zufferey R, Kelly M, Mandel RJ, Nguyen M, et al. (1998) A thirdgeneration lentivirus vector with a conditional packaging system. J Virol 72: 8463-8471.
-
(1998)
J Virol
, vol.72
, pp. 8463-8471
-
-
Dull, T.1
Zufferey, R.2
Kelly, M.3
Mandel, R.J.4
Nguyen, M.5
-
89
-
-
33751347484
-
The finite state projection algorithm for the solution of the chemical master equation
-
Munsky B, Khammash M (2006) The finite state projection algorithm for the solution of the chemical master equation. J Chem Phys 124: 044104.
-
(2006)
J Chem Phys
, vol.124
, pp. 044104
-
-
Munsky, B.1
Khammash, M.2
|