-
1
-
-
0031879114
-
Stochastic kinetic analysis of developmental pathway bifurcation in phage lambda-infected Escherichia coli cells
-
A. Arkin, J. Ross, and H.H. McAdams Stochastic kinetic analysis of developmental pathway bifurcation in phage lambda-infected Escherichia coli cells Genetics 149 1998 1633 1648
-
(1998)
Genetics
, vol.149
, pp. 1633-1648
-
-
Arkin, A.1
Ross, J.2
McAdams, H.H.3
-
2
-
-
0034212551
-
Engineering stability in gene networks by autoregulation
-
A. Becskei, and L. Serrano Engineering stability in gene networks by autoregulation Nature 405 2000 590 593
-
(2000)
Nature
, vol.405
, pp. 590-593
-
-
Becskei, A.1
Serrano, L.2
-
3
-
-
17144456808
-
Positive feedback in eukaryotic gene networks: Cell differentiation by graded to binary response conversion
-
A. Becskei, B. Seraphin, and L. Serrano Positive feedback in eukaryotic gene networks: cell differentiation by graded to binary response conversion EMBO J. 20 2001 2528 2535
-
(2001)
EMBO J.
, vol.20
, pp. 2528-2535
-
-
Becskei, A.1
Seraphin, B.2
Serrano, L.3
-
5
-
-
0035050963
-
Generation of HIV latency during thymopoiesis
-
D.G. Brooks, S.G. Kitchen, C.M. Kitchen, D.D. Scripture-Adams, and J.A. Zack Generation of HIV latency during thymopoiesis Nat. Med. 7 2001 459 464
-
(2001)
Nat. Med.
, vol.7
, pp. 459-464
-
-
Brooks, D.G.1
Kitchen, S.G.2
Kitchen, C.M.3
Scripture-Adams, D.D.4
Zack, J.A.5
-
6
-
-
0037062424
-
A monomeric red fluorescent protein
-
R.E. Campbell, O. Tour, A.E. Palmer, P.A. Steinbach, G.S. Baird, D.A. Zacharias, and R.Y. Tsien A monomeric red fluorescent protein Proc. Natl. Acad. Sci. USA 99 2002 7877 7882
-
(2002)
Proc. Natl. Acad. Sci. USA
, vol.99
, pp. 7877-7882
-
-
Campbell, R.E.1
Tour, O.2
Palmer, A.E.3
Steinbach, P.A.4
Baird, G.S.5
Zacharias, D.A.6
Tsien, R.Y.7
-
7
-
-
0031710033
-
A third-generation lentivirus vector with a conditional packaging system
-
T. Dull, R. Zufferey, M. Kelly, R.J. Mandel, M. Nguyen, D. Trono, and L. Naldini A third-generation lentivirus vector with a conditional packaging system J. Virol. 72 1998 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
Trono, D.6
Naldini, L.7
-
8
-
-
0034688173
-
A synthetic oscillatory network of transcriptional regulators
-
M.B. Elowitz, and S. Leibler A synthetic oscillatory network of transcriptional regulators Nature 403 2000 335 338
-
(2000)
Nature
, vol.403
, pp. 335-338
-
-
Elowitz, M.B.1
Leibler, S.2
-
11
-
-
0032953920
-
Latent infection of CD4+ T cells provides a mechanism for lifelong persistence of HIV-1, even in patients on effective combination therapy
-
D. Finzi, J. Blankson, J.D. Siliciano, J.B. Margolick, K. Chadwick, T. Pierson, K. Smith, J. Lisziewicz, F. Lori, and C. Flexner Latent infection of CD4+ T cells provides a mechanism for lifelong persistence of HIV-1, even in patients on effective combination therapy Nat. Med. 5 1999 512 517
-
(1999)
Nat. Med.
, vol.5
, pp. 512-517
-
-
Finzi, D.1
Blankson, J.2
Siliciano, J.D.3
Margolick, J.B.4
Chadwick, K.5
Pierson, T.6
Smith, K.7
Lisziewicz, J.8
Lori, F.9
Flexner, C.10
-
12
-
-
0017030517
-
General method for numerically simulating stochastic time evolution of coupled chemical-reactions
-
D.T. Gillespie General method for numerically simulating stochastic time evolution of coupled chemical-reactions J. Comput. Phys. 22 1976 403 434
-
(1976)
J. Comput. Phys.
, vol.22
, pp. 403-434
-
-
Gillespie, D.T.1
-
13
-
-
33645429016
-
Exact stochastic simulation of coupled chemical-reactions
-
D.T. Gillespie Exact stochastic simulation of coupled chemical-reactions J. Phys. Chem. 81 1977 2340 2361
-
(1977)
J. Phys. Chem.
, vol.81
, pp. 2340-2361
-
-
Gillespie, D.T.1
-
14
-
-
0018933483
-
Characteristics of an SV40-plasmid recombinant and its movement into and out of the genome of a murine cell
-
D. Hanahan, D. Lane, L. Lipsich, M. Wigler, and M. Botchan Characteristics of an SV40-plasmid recombinant and its movement into and out of the genome of a murine cell Cell 21 1980 127 139
-
(1980)
Cell
, vol.21
, pp. 127-139
-
-
Hanahan, D.1
Lane, D.2
Lipsich, L.3
Wigler, M.4
Botchan, M.5
-
16
-
-
0031908399
-
A novel domain in the CD30 cytoplasmic tail mediates NFkappaB activation
-
R. Horie, S. Aizawa, M. Nagai, K. Ito, M. Higashihara, T. Ishida, J. Inoue, and T. Watanabe A novel domain in the CD30 cytoplasmic tail mediates NFkappaB activation Int. Immunol. 10 1998 203 210
-
(1998)
Int. Immunol.
, vol.10
, pp. 203-210
-
-
Horie, R.1
Aizawa, S.2
Nagai, M.3
Ito, K.4
Higashihara, M.5
Ishida, T.6
Inoue, J.7
Watanabe, T.8
-
18
-
-
0020283636
-
DNA methylation, retroviruses, and embryogenesis
-
R. Jaenisch, K. Harbers, D. Jahner, C. Stewart, and H. Stuhlmann DNA methylation, retroviruses, and embryogenesis J. Cell. Biochem. 20 1982 331 336
-
(1982)
J. Cell. Biochem.
, vol.20
, pp. 331-336
-
-
Jaenisch, R.1
Harbers, K.2
Jahner, D.3
Stewart, C.4
Stuhlmann, H.5
-
19
-
-
0035794637
-
The site of HIV-1 integration in the human genome determines basal transcriptional activity and response to Tat transactivation
-
A. Jordan, P. Defechereux, and E. Verdin The site of HIV-1 integration in the human genome determines basal transcriptional activity and response to Tat transactivation EMBO J. 20 2001 1726 1738
-
(2001)
EMBO J.
, vol.20
, pp. 1726-1738
-
-
Jordan, A.1
Defechereux, P.2
Verdin, E.3
-
20
-
-
0037446948
-
HIV reproducibly establishes a latent infection after acute infection of T cells in vitro
-
A. Jordan, D. Bisgrove, and E. Verdin HIV reproducibly establishes a latent infection after acute infection of T cells in vitro EMBO J. 22 2003 1868 1877
-
(2003)
EMBO J.
, vol.22
, pp. 1868-1877
-
-
Jordan, A.1
Bisgrove, D.2
Verdin, E.3
-
21
-
-
0042671259
-
Acetylation of Tat defines a cyclinT1-independent step in HIV transactivation
-
K. Kaehlcke, A. Dorr, C. Hetzer-Egger, V. Kiermer, P. Henklein, M. Schnoelzer, E. Loret, P.A. Cole, E. Verdin, and M. Ott Acetylation of Tat defines a cyclinT1-independent step in HIV transactivation Mol. Cell 12 2003 167 176
-
(2003)
Mol. Cell
, vol.12
, pp. 167-176
-
-
Kaehlcke, K.1
Dorr, A.2
Hetzer-Egger, C.3
Kiermer, V.4
Henklein, P.5
Schnoelzer, M.6
Loret, E.7
Cole, P.A.8
Verdin, E.9
Ott, M.10
-
22
-
-
33044491706
-
Tat, a novel regulator of HIV transcription and latency
-
C. Kuiken F. McCutchan B. Foley J.W. Mellors B. Hahn J. Moore P. Marx S.M. Wolinsky Theoretical Biology and Biophysics Group, Los Alamos National Laboratory Los Alamos, New Mexico
-
J. Karn Tat, a novel regulator of HIV transcription and latency C. Kuiken F. McCutchan B. Foley J.W. Mellors B. Hahn J. Moore P. Marx S.M. Wolinsky HIV Sequence Compendium 2000 2000 Theoretical Biology and Biophysics Group, Los Alamos National Laboratory Los Alamos, New Mexico 2 18
-
(2000)
HIV Sequence Compendium 2000
, pp. 2-18
-
-
Karn, J.1
-
23
-
-
0033230613
-
HIV-1 tat transcriptional activity is regulated by acetylation
-
R.E. Kiernan, C. Vanhulle, L. Schiltz, E. Adam, H. Xiao, F. Maudoux, C. Calomme, A. Burny, Y. Nakatani, and K.T. Jeang HIV-1 tat transcriptional activity is regulated by acetylation EMBO J. 18 1999 6106 6118
-
(1999)
EMBO J.
, vol.18
, pp. 6106-6118
-
-
Kiernan, R.E.1
Vanhulle, C.2
Schiltz, L.3
Adam, E.4
Xiao, H.5
Maudoux, F.6
Calomme, C.7
Burny, A.8
Nakatani, Y.9
Jeang, K.T.10
-
24
-
-
0036337415
-
Direct and quantitative single-cell analysis of human immunodeficiency virus type 1 reactivation from latency
-
O. Kutsch, E.N. Benveniste, G.M. Shaw, and D.N. Levy Direct and quantitative single-cell analysis of human immunodeficiency virus type 1 reactivation from latency J. Virol. 76 2002 8776 8786
-
(2002)
J. Virol.
, vol.76
, pp. 8776-8786
-
-
Kutsch, O.1
Benveniste, E.N.2
Shaw, G.M.3
Levy, D.N.4
-
25
-
-
21044451712
-
Genome-wide analysis of chromosomal features repressing human immunodeficiency virus transcription
-
M.K. Lewinski, D. Bisgrove, P. Shinn, H. Chen, C. Hoffmann, S. Hannenhalli, E. Verdin, C.C. Berry, J.R. Ecker, and F.D. Bushman Genome-wide analysis of chromosomal features repressing human immunodeficiency virus transcription J. Virol. 79 2005 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
Hannenhalli, S.6
Verdin, E.7
Berry, C.C.8
Ecker, J.R.9
Bushman, F.D.10
-
26
-
-
2142653082
-
The sonic hedgehog signaling system as a bistable genetic switch
-
K. Lai, M.J. Robertson, and D.V. Schaffer The sonic hedgehog signaling system as a bistable genetic switch Biophys. J. 86 2004 2748 2757
-
(2004)
Biophys. J.
, vol.86
, pp. 2748-2757
-
-
Lai, K.1
Robertson, M.J.2
Schaffer, D.V.3
-
27
-
-
0038447945
-
Transcriptional profiles of latent human immunodeficiency virus in infected individuals: Effects of Tat on the host and reservoir
-
X. Lin, D. Irwin, S. Kanazawa, L. Huang, J. Romeo, T.S. Yen, and B.M. Peterlin Transcriptional profiles of latent human immunodeficiency virus in infected individuals: effects of Tat on the host and reservoir J. Virol. 77 2003 8227 8236
-
(2003)
J. Virol.
, vol.77
, pp. 8227-8236
-
-
Lin, X.1
Irwin, D.2
Kanazawa, S.3
Huang, L.4
Romeo, J.5
Yen, T.S.6
Peterlin, B.M.7
-
29
-
-
0031666744
-
Development of a self-inactivating lentivirus vector
-
H. Miyoshi, U. Blomer, M. Takahashi, F.H. Gage, and I.M. Verma Development of a self-inactivating lentivirus vector J. Virol. 72 1998 8150 8157
-
(1998)
J. Virol.
, vol.72
, pp. 8150-8157
-
-
Miyoshi, H.1
Blomer, U.2
Takahashi, M.3
Gage, F.H.4
Verma, I.M.5
-
30
-
-
0034170820
-
IRES-dependent second gene expression is significantly lower than cap-dependent first gene expression in a bicistronic vector
-
H. Mizuguchi, Z. Xu, A. Ishii-Watabe, E. Uchida, and T. Hayakawa IRES-dependent second gene expression is significantly lower than cap-dependent first gene expression in a bicistronic vector Mol. Ther. 1 2000 376 382
-
(2000)
Mol. Ther.
, vol.1
, pp. 376-382
-
-
Mizuguchi, H.1
Xu, Z.2
Ishii-Watabe, A.3
Uchida, E.4
Hayakawa, T.5
-
31
-
-
33044507937
-
Transient gene expression by non-integrating lentiviral (NIL) vectors
-
S. Nightingale, R.P. Hollis, C. Yang, I. Bahner, K.A. Pepper, and D.B. Kohn Transient gene expression by non-integrating lentiviral (NIL) vectors Mol. Ther. 9 2004 S159
-
(2004)
Mol. Ther.
, vol.9
, pp. 159
-
-
Nightingale, S.1
Hollis, R.P.2
Yang, C.3
Bahner, I.4
Pepper, K.A.5
Kohn, D.B.6
-
32
-
-
0036021150
-
Role of DNA methylation in transcription of human endogenous retrovirus in the pathogenesis of systemic lupus erythematosus
-
M. Okada, H. Ogasawara, H. Kaneko, T. Hishikawa, I. Sekigawa, H. Hashimoto, N. Maruyama, Y. Kaneko, and N. Yamamoto Role of DNA methylation in transcription of human endogenous retrovirus in the pathogenesis of systemic lupus erythematosus J. Rheumatol. 29 2002 1678 1682
-
(2002)
J. Rheumatol.
, vol.29
, pp. 1678-1682
-
-
Okada, M.1
Ogasawara, H.2
Kaneko, H.3
Hishikawa, T.4
Sekigawa, I.5
Hashimoto, H.6
Maruyama, N.7
Kaneko, Y.8
Yamamoto, N.9
-
33
-
-
2942726545
-
Tat acetylation: A regulatory switch between early and late phases in HIV transcription elongation
-
M. Ott, A. Dorr, C. Hetzer-Egger, K. Kaehlcke, M. Schnolzer, P. Henklein, P. Cole, M.M. Zhou, and E. Verdin Tat acetylation: a regulatory switch between early and late phases in HIV transcription elongation Novartis Found. Symp. 259 2004 182 193 discussion 193-186, 223-185
-
(2004)
Novartis Found. Symp.
, vol.259
, pp. 182-193
-
-
Ott, M.1
Dorr, A.2
Hetzer-Egger, C.3
Kaehlcke, K.4
Schnolzer, M.5
Henklein, P.6
Cole, P.7
Zhou, M.M.8
Verdin, E.9
-
34
-
-
0036578645
-
Regulation of noise in the expression of a single gene
-
E.M. Ozbudak, M. Thattai, I. Kurtser, A.D. Grossman, and A. van Oudenaarden Regulation of noise in the expression of a single gene Nat. Genet. 31 2002 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
-
35
-
-
20144372893
-
SIRT1 regulates HIV transcription via Tat deacetylation
-
10.1371/journal.pbio.0030041
-
S. Pagans, A. Pedal, B.J. North, K. Kaehlcke, B.L. Marshall, A. Dorr, C. Hetzer-Egger, P. Henklein, R. Frye, and M.W. McBurney SIRT1 regulates HIV transcription via Tat deacetylation PLoS Biol. 3 2005 e41 10.1371/journal.pbio. 0030041
-
(2005)
PLoS Biol.
, vol.3
, pp. 41
-
-
Pagans, S.1
Pedal, A.2
North, B.J.3
Kaehlcke, K.4
Marshall, B.L.5
Dorr, A.6
Hetzer-Egger, C.7
Henklein, P.8
Frye, R.9
McBurney, M.W.10
-
36
-
-
0029967721
-
HIV-1 dynamics in vivo: Virion clearance rate, infected cell life-span, and viral generation time
-
A.S. Perelson, A.U. Neumann, M. Markowitz, J.M. Leonard, and D.D. Ho HIV-1 dynamics in vivo: virion clearance rate, infected cell life-span, and viral generation time Science 271 1996 1582 1586
-
(1996)
Science
, vol.271
, pp. 1582-1586
-
-
Perelson, A.S.1
Neumann, A.U.2
Markowitz, M.3
Leonard, J.M.4
Ho, D.D.5
-
37
-
-
0034040118
-
Reservoirs for HIV-1: Mechanisms for viral persistence in the presence of antiviral immune responses and antiretroviral therapy
-
T. Pierson, J. McArthur, and R.F. Siliciano Reservoirs for HIV-1: mechanisms for viral persistence in the presence of antiviral immune responses and antiretroviral therapy Annu. Rev. Immunol. 18 2000 665 708
-
(2000)
Annu. Rev. Immunol.
, vol.18
, pp. 665-708
-
-
Pierson, T.1
McArthur, J.2
Siliciano, R.F.3
-
38
-
-
0037378601
-
Transcriptional suppression of in vitro-integrated human immunodeficiency virus type 1 does not correlate with proviral DNA methylation
-
M. Pion, A. Jordan, A. Biancotto, F. Dequiedt, F. Gondois-Rey, S. Rondeau, R. Vigne, J. Hejnar, E. Verdin, and I. Hirsch Transcriptional suppression of in vitro-integrated human immunodeficiency virus type 1 does not correlate with proviral DNA methylation J. Virol. 77 2003 4025 4032
-
(2003)
J. Virol.
, vol.77
, pp. 4025-4032
-
-
Pion, M.1
Jordan, A.2
Biancotto, A.3
Dequiedt, F.4
Gondois-Rey, F.5
Rondeau, S.6
Vigne, R.7
Hejnar, J.8
Verdin, E.9
Hirsch, I.10
-
39
-
-
2942718723
-
Control of stochasticity in eukaryotic gene expression
-
J.M. Raser, and E.K. O'Shea Control of stochasticity in eukaryotic gene expression Science 304 2004 1811 1814
-
(2004)
Science
, vol.304
, pp. 1811-1814
-
-
Raser, J.M.1
O'Shea, E.K.2
-
40
-
-
0036701958
-
Mouse models of cytomegalovirus latency: Overview
-
M.J. Reddehase, J. Podlech, and N.K. Grzimek Mouse models of cytomegalovirus latency: overview J. Clin. Virol. 25 Suppl. 2 2002 S23 S36
-
(2002)
J. Clin. Virol.
, vol.25
, Issue.2 SUPPL.
-
-
Reddehase, M.J.1
Podlech, J.2
Grzimek, N.K.3
-
41
-
-
0033034676
-
Quantitative intracellular kinetics of HIV type 1
-
B. Reddy, and J. Yin Quantitative intracellular kinetics of HIV type 1 AIDS Res. Hum. Retroviruses 15 1999 273 283
-
(1999)
AIDS Res. Hum. Retroviruses
, vol.15
, pp. 273-283
-
-
Reddy, B.1
Yin, J.2
-
42
-
-
0026928683
-
Position effect variegation and chromatin proteins
-
G. Reuter, and P. Spierer Position effect variegation and chromatin proteins Bioessays 14 1992 605 612
-
(1992)
Bioessays
, vol.14
, pp. 605-612
-
-
Reuter, G.1
Spierer, P.2
-
43
-
-
0037162715
-
HIV-1 integration in the human genome favors active genes and local hotspots
-
A.R. Schroder, P. Shinn, H. Chen, C. Berry, J.R. Ecker, and F. Bushman HIV-1 integration in the human genome favors active genes and local hotspots Cell 110 2002 521 529
-
(2002)
Cell
, vol.110
, pp. 521-529
-
-
Schroder, A.R.1
Shinn, P.2
Chen, H.3
Berry, C.4
Ecker, J.R.5
Bushman, F.6
-
44
-
-
0032784908
-
Interspersed repeats and other mementos of transposable elements in mammalian genomes
-
A.F. Smit Interspersed repeats and other mementos of transposable elements in mammalian genomes Curr. Opin. Genet. Dev. 9 1999 657 663
-
(1999)
Curr. Opin. Genet. Dev.
, vol.9
, pp. 657-663
-
-
Smit, A.F.1
-
45
-
-
0017185026
-
Non-genetic individuality: Chance in the single cell
-
J.L. Spudich, and D.E. Koshland Jr. Non-genetic individuality: chance in the single cell Nature 262 1976 467 471
-
(1976)
Nature
, vol.262
, pp. 467-471
-
-
Spudich, J.L.1
Koshland Jr., D.E.2
-
46
-
-
0036400749
-
Stochastic vs. deterministic modeling of intracellular viral kinetics
-
R. Srivastava, L. You, J. Summers, and J. Yin Stochastic vs. deterministic modeling of intracellular viral kinetics J. Theor. Biol. 218 2002 309 321
-
(2002)
J. Theor. Biol.
, vol.218
, pp. 309-321
-
-
Srivastava, R.1
You, L.2
Summers, J.3
Yin, J.4
-
47
-
-
0028277393
-
Human immunodeficiency virus type 1 may preferentially integrate into chromatin occupied by L1Hs repetitive elements
-
S.W. Stevens, and J.D. Griffith Human immunodeficiency virus type 1 may preferentially integrate into chromatin occupied by L1Hs repetitive elements Proc. Natl. Acad. Sci. USA 91 1994 5557 5561
-
(1994)
Proc. Natl. Acad. Sci. USA
, vol.91
, pp. 5557-5561
-
-
Stevens, S.W.1
Griffith, J.D.2
-
48
-
-
0025238945
-
HIV-1 replication is controlled at the level of T cell activation and proviral integration
-
M. Stevenson, T.L. Stanwick, M.P. Dempsey, and C.A. Lamonica HIV-1 replication is controlled at the level of T cell activation and proviral integration EMBO J. 9 1990 1551 1560
-
(1990)
EMBO J.
, vol.9
, pp. 1551-1560
-
-
Stevenson, M.1
Stanwick, T.L.2
Dempsey, M.P.3
Lamonica, C.A.4
-
49
-
-
0033964662
-
Retroviruses and primate evolution
-
E.D. Sverdlov Retroviruses and primate evolution Bioessays 22 2000 161 171
-
(2000)
Bioessays
, vol.22
, pp. 161-171
-
-
Sverdlov, E.D.1
-
50
-
-
4344634285
-
HIV-1 gene expression: Lessons from provirus and non-integrated DNA
-
Y. Wu HIV-1 gene expression: lessons from provirus and non-integrated DNA Retrovirology 1 2004 13
-
(2004)
Retrovirology
, vol.1
, pp. 13
-
-
Wu, Y.1
-
51
-
-
2942628287
-
A human immunodeficiency virus type 1 Tat-like arginine-rich RNA-binding domain is essential for HEXIM1 to inhibit RNA polymerase II transcription through 7SK snRNA-mediated inactivation of P-TEFb
-
J.H. Yik, R. Chen, A.C. Pezda, C.S. Samford, and Q. Zhou A human immunodeficiency virus type 1 Tat-like arginine-rich RNA-binding domain is essential for HEXIM1 to inhibit RNA polymerase II transcription through 7SK snRNA-mediated inactivation of P-TEFb Mol. Cell. Biol. 24 2004 5094 5105
-
(2004)
Mol. Cell. Biol.
, vol.24
, pp. 5094-5105
-
-
Yik, J.H.1
Chen, R.2
Pezda, A.C.3
Samford, C.S.4
Zhou, Q.5
|