-
1
-
-
27744561661
-
Expansion and contraction of HIV-specific CD4 T cells with short bursts of viremia, but physical loss of the majority of these cells with sustained viral replication
-
N. Seth, D. Kaufmann, T. Lahey, E. S. Rosenberg, and K. W. Wucherpfennig, “Expansion and contraction of HIV-specific CD4 T cells with short bursts of viremia, but physical loss of the majority of these cells with sustained viral replication,” Journal of Immunology, vol. 175, pp. 6948-6958, 2005.
-
(2005)
Journal of Immunology
, vol.175
, pp. 6948-6958
-
-
Seth, N.1
Kaufmann, D.2
Lahey, T.3
Rosenberg, E.S.4
Wucherpfennig, K.W.5
-
2
-
-
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, vol. 271, pp. 1582-1586, 1996.
-
(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
-
3
-
-
0030659177
-
Presence of an inducible HIV-1 latent reservoir during highly active antiretroviral therapy
-
T.-W. Chun, L. Stuyver, S. B. Mizell, L. A. Ehler, J. A. M. Mican, M. Baseler, A. L. Lloyd, M. A. Nowak, and A. S. Fauci, “Presence of an inducible HIV-1 latent reservoir during highly active antiretroviral therapy,” Proceedings of the National Academy of Sciences, vol. 24, pp. 13 193-13 197, 1997.
-
(1997)
Proceedings of the National Academy of Sciences
, vol.24
, pp. 13193-13197
-
-
Chun, T.-W.1
Stuyver, L.2
Mizell, S.B.3
Ehler, L.A.4
Mican, J.A.M.5
Baseler, M.6
Lloyd, A.L.7
Nowak, M.A.8
Fauci, A.S.9
-
4
-
-
0032953920
-
+ T cells provides a mechanism for lifelong persistence of HIV-1, even in patients on effective combination therapy
-
+ T cells provides a mechanism for lifelong persistence of HIV-1, even in patients on effective combination therapy,” Nature Medicine, vol. 5, pp. 512-517, 1999.
-
(1999)
Nature Medicine
, vol.5
, pp. 512-517
-
-
Finzi, D.1
Blankson, J.2
Siliciano, J.D.3
-
5
-
-
33846541321
-
Experimental approaches to the study of HIV-1 latency
-
Y. Han, M. Wind-Rotolo, H.-C. Yang, J. D. Siliciano, and R. F. Siliciano, “Experimental approaches to the study of HIV-1 latency,” Nature Reviews Microbiology, vol. 5, pp. 95-106, 2007.
-
(2007)
Nature Reviews Microbiology
, vol.5
, pp. 95-106
-
-
Han, Y.1
Wind-Rotolo, M.2
Yang, H.-C.3
Siliciano, J.D.4
Siliciano, R.F.5
-
6
-
-
62249095476
-
The challenge of finding a cure for HIV infection
-
D. D. Richman, D. M. Margolis, M. Delaney, W. C. Greene, D. Hazuda, and R. J. Pomerantz, “The challenge of finding a cure for HIV infection,” Science, vol. 323, pp. 1304-1307, 2009.
-
(2009)
Science
, vol.323
, pp. 1304-1307
-
-
Richman, D.D.1
Margolis, D.M.2
Delaney, M.3
Greene, W.C.4
Hazuda, D.5
Pomerantz, R.J.6
-
7
-
-
22744441386
-
Stochastic gene expression in a lentiviral positive-feedback loop: HIV-1 tat fluctuations drive phenotypic diversity
-
L. S. Weinberger, J. Burnett, J. Toettcher, A. Arkin, and D. Schaffer, “Stochastic gene expression in a lentiviral positive-feedback loop: HIV-1 tat fluctuations drive phenotypic diversity,” Cell, vol. 122, pp. 169-182, 2005.
-
(2005)
Cell
, vol.122
, pp. 169-182
-
-
Weinberger, L.S.1
Burnett, J.2
Toettcher, J.3
Arkin, A.4
Schaffer, D.5
-
8
-
-
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,” The EMBO Journal, vol. 22, pp. 1868-1877, 2003.
-
(2003)
The EMBO Journal
, vol.22
, pp. 1868-1877
-
-
Jordan, A.1
Bisgrove, D.2
Verdin, E.3
-
9
-
-
57349090221
-
Epigenetic silencing of human immunodeficiency virus (HIV) transcription by formation of restrictive chromatin structures at the viral long terminal repeat drives the progressive entry of HIV into latency
-
R. Pearson, Y. K. Kim, J. Hokello, K. Lassen, J. Friedman, M. Tyagi, and J. Karn, “Epigenetic silencing of human immunodeficiency virus (HIV) transcription by formation of restrictive chromatin structures at the viral long terminal repeat drives the progressive entry of HIV into latency,” Journal of Virology, vol. 82, pp. 12 291-12 303, 2008.
-
(2008)
Journal of Virology
, vol.82
, pp. 12291-12303
-
-
Pearson, R.1
Kim, Y.K.2
Hokello, J.3
Lassen, K.4
Friedman, J.5
Tyagi, M.6
Karn, J.7
-
10
-
-
33846360341
-
An HIV feedback resistor: Auto-regulatory circuit deactivator and noise buffer
-
L. S. Weinberger and T. Shenk, “An HIV feedback resistor: Auto-regulatory circuit deactivator and noise buffer,” PLoS Biology, vol. 5, 2007.
-
(2007)
PLoS Biology
, vol.5
-
-
Weinberger, L.S.1
Shenk, T.2
-
11
-
-
41349095731
-
Transient-mediated fate determination in a transcriptional circuit of HIV
-
L. S. Weinberger, R. D. Dar, and M. L. Simpson, “Transient-mediated fate determination in a transcriptional circuit of HIV,” Nature Genetics, vol. 40, pp. 466-470, 2008.
-
(2008)
Nature Genetics
, vol.40
, pp. 466-470
-
-
Weinberger, L.S.1
Dar, R.D.2
Simpson, M.L.3
-
12
-
-
0023513563
-
Anti-termination of transcription within the long terminal repeat of HIV-1 by Tat gene product
-
S.-Y. Kao, A. F. Calman, P. A. Luciw, and B. M. Peterlin, “Anti-termination of transcription within the long terminal repeat of HIV-1 by Tat gene product,” Nature, vol. 330, pp. 489-493, 1987.
-
(1987)
Nature
, vol.330
, pp. 489-493
-
-
Kao, S.-Y.1
Calman, A.F.2
Luciw, P.A.3
Peterlin, B.M.4
-
14
-
-
33747162419
-
The regulation of HIV-1 transcription: Molecular targets for chemotherapeutic intervention
-
M. Stevens, E. D. Clercq, and J. Balzarini, “The regulation of HIV-1 transcription: Molecular targets for chemotherapeutic intervention,” Medicinal Research Reviews, vol. 26, pp. 595-625, 2006.
-
(2006)
Medicinal Research Reviews
, vol.26
, pp. 595-625
-
-
Stevens, M.1
Clercq, E.D.2
Balzarini, J.3
-
15
-
-
53849146767
-
Bistability, epigenetics, and bet-hedging in bacteria
-
J.-W. Veening, W. K. Smits, and O. P. Kuipers, “Bistability, epigenetics, and bet-hedging in bacteria,” Annual Review of Microbiology, vol. 62, pp. 193-210, 2008.
-
(2008)
Annual Review of Microbiology
, vol.62
, pp. 193-210
-
-
Veening, J.-W.1
Smits, W.K.2
Kuipers, O.P.3
-
16
-
-
0031879114
-
Stochastic kinetic analysis of developmental pathway bifurcation in phage λ-infected Escherichia coli cells
-
A. Arkin, J. Ross, and H. H. McAdams, “Stochastic kinetic analysis of developmental pathway bifurcation in phage λ-infected Escherichia coli cells,” Genetics, vol. 149, pp. 1633-1648, 1998.
-
(1998)
Genetics
, vol.149
, pp. 1633-1648
-
-
Arkin, A.1
Ross, J.2
McAdams, H.H.3
-
17
-
-
66149145491
-
Bistable switches control memory and plasticity in cellular differentiation
-
L. Wang, B. L. Walker, S. Iannaccone, D. Bhatt, P. J. Kennedy, and W. T. Tse, “Bistable switches control memory and plasticity in cellular differentiation,” Proceedings of the National Academy of Sciences, vol. 106, pp. 6638-6643, 2009.
-
(2009)
Proceedings of the National Academy of Sciences
, vol.106
, pp. 6638-6643
-
-
Wang, L.1
Walker, B.L.2
Iannaccone, S.3
Bhatt, D.4
Kennedy, P.J.5
Tse, W.T.6
-
18
-
-
41749107942
-
Stochasticity and cell fate
-
R. Losick and C. Desplan, “Stochasticity and cell fate,” Science, vol. 320, pp. 65-68, 2008.
-
(2008)
Science
, vol.320
, pp. 65-68
-
-
Losick, R.1
Desplan, C.2
-
19
-
-
77955502318
-
Modeling reveals bistability and low-pass filtering in the network module determining blood stem cell fate
-
J. Narula, A. M. Smith, B. Gottgens, and O. A. Igoshin, “Modeling reveals bistability and low-pass filtering in the network module determining blood stem cell fate,” PLoS Comput Biol, vol. 6, p. e1000771, 2007.
-
(2007)
PLoS Comput Biol
, vol.6
-
-
Narula, J.1
Smith, A.M.2
Gottgens, B.3
Igoshin, O.A.4
-
20
-
-
68049129695
-
Stochastic gene expression as a molecular switch for viral latency
-
A. Singh and L. S. Weinberger, “Stochastic gene expression as a molecular switch for viral latency,” Current Opinion in Microbiology, vol. 12, pp. 460-466, 2009.
-
(2009)
Current Opinion in Microbiology
, vol.12
, pp. 460-466
-
-
Singh, A.1
Weinberger, L.S.2
-
21
-
-
0242416539
-
Noise in eukaryotic gene expression
-
W. J. Blake, M. Kaern, C. R. Cantor, and J. J. Collins, “Noise in eukaryotic gene expression,” Nature, vol. 422, pp. 633-637, 2003.
-
(2003)
Nature
, vol.422
, pp. 633-637
-
-
Blake, W.J.1
Kaern, M.2
Cantor, C.R.3
Collins, J.J.4
-
22
-
-
56649100782
-
Stochastic dynamics of genetic networks: Modelling and parameter identification
-
E. Cinquemani, A. Milias-Argeitis, S. Summers, and J. Lygeros, “Stochastic dynamics of genetic networks: modelling and parameter identification,” Bioinformatics, vol. 24, pp. 2748-2754, 2008.
-
(2008)
Bioinformatics
, vol.24
, pp. 2748-2754
-
-
Cinquemani, E.1
Milias-Argeitis, A.2
Summers, S.3
Lygeros, J.4
-
23
-
-
33646175490
-
Regulated degradation is a mechanism for suppressing stochastic fluctuations in gene regulatory networks
-
H. El-Samad and M. Khammash, “Regulated degradation is a mechanism for suppressing stochastic fluctuations in gene regulatory networks,” Biophysical Journal, vol. 90, pp. 3749-3761, 2006.
-
(2006)
Biophysical Journal
, vol.90
, pp. 3749-3761
-
-
El-Samad, H.1
Khammash, M.2
-
24
-
-
70349538868
-
Evolution of autoregulation in the presence of noise
-
A. Singh and J. P. Hespanha, “Evolution of autoregulation in the presence of noise,” IET Systems Biology, vol. 3, pp. 368-378, 2009.
-
(2009)
IET Systems Biology
, vol.3
, pp. 368-378
-
-
Singh, A.1
Hespanha, J.P.2
-
25
-
-
46449090683
-
Stochastic analysis of gene regulatory networks using moment closure
-
New York, NY
-
A. Singh and J. P. Hespanha, “Stochastic analysis of gene regulatory networks using moment closure,” in Proc. of the 2007 Amer. Control Conference, New York, NY, 2006.
-
(2006)
Proc. Of the 2007 Amer. Control Conference
-
-
Singh, A.1
Hespanha, J.P.2
-
26
-
-
80054884922
-
Negative feedback through mRNA provides the best control of gene-expression noise
-
A. Singh, “Negative feedback through mrna provides the best control of gene-expression noise,” IEEE Transactions on NanoBioscience, vol. 10, pp. 194-200, 2011.
-
(2011)
IEEE Transactions on NanoBioscience
, vol.10
, pp. 194-200
-
-
Singh, A.1
-
27
-
-
20344389483
-
Model of stochastic gene expression
-
J. Paulsson, “Model of stochastic gene expression,” Physics of Life Reviews, vol. 2, pp. 157-175, 2005.
-
(2005)
Physics of Life Reviews
, vol.2
, pp. 157-175
-
-
Paulsson, J.1
-
28
-
-
26844581913
-
Delay-induced stochastic oscillations in gene regulation
-
D. Bratsun, D. Volfson, L. S. Tsimring, and J. Hasty, “Delay-induced stochastic oscillations in gene regulation,” Proceedings of the National Academy of Sciences, vol. 102, pp. 14 593-14 598, 2005.
-
(2005)
Proceedings of the National Academy of Sciences
, vol.102
, pp. 14593-14598
-
-
Bratsun, D.1
Volfson, D.2
Tsimring, L.S.3
Hasty, J.4
-
29
-
-
0034691214
-
Stochastic focusing: Fluctuation-enhanced sensitivity of intracellular regulation
-
J. Paulsson, O. G. Berg, and M. Ehrenberg, “Stochastic focusing: Fluctuation-enhanced sensitivity of intracellular regulation,” Proceedings of the National Academy of Sciences, vol. 97, no. 13, pp. 7148-7153, 2000.
-
(2000)
Proceedings of the National Academy of Sciences
, vol.97
, Issue.13
, pp. 7148-7153
-
-
Paulsson, J.1
Berg, O.G.2
Ehrenberg, M.3
-
30
-
-
33846412940
-
Engineered internal noise stochastic resonator in gene network: A model study
-
Z. Wanga, Z. Houb, H. Xinb, and Z. Zhanga, “Engineered internal noise stochastic resonator in gene network: A model study,” Biophysical Chemistry, vol. 125, pp. 281-285, 2007.
-
(2007)
Biophysical Chemistry
, vol.125
, pp. 281-285
-
-
Wanga, Z.1
Houb, Z.2
Xinb, H.3
Zhanga, Z.4
-
31
-
-
0035933994
-
Approximate accelerated stochastic simulation of chemically reacting systems
-
D. T. Gillespie, “Approximate accelerated stochastic simulation of chemically reacting systems,” J. of Chemical Physics, vol. 115, no. 4, pp. 1716-1733, 2001.
-
(2001)
J. Of Chemical Physics
, vol.115
, Issue.4
, pp. 1716-1733
-
-
Gillespie, D.T.1
-
32
-
-
78649342422
-
Stochastic hybrid systems for studying biochemical processes
-
A. Singh and J. P. Hespanha, “Stochastic hybrid systems for studying biochemical processes,” Phil. Trans. R. Soc. A, vol. 368, pp. 4995-5011, 2010.
-
(2010)
Phil. Trans. R. Soc. A
, vol.368
, pp. 4995-5011
-
-
Singh, A.1
Hespanha, J.P.2
-
33
-
-
79951586485
-
Approximate moment dynamics for chemically reacting systems
-
A. Singh and J. P. Hespanha, “Approximate moment dynamics for chemically reacting systems,” IEEE Trans. on Automatic Control, vol. 56, pp. 414-418, 2011.
-
(2011)
IEEE Trans. On Automatic Control
, vol.56
, pp. 414-418
-
-
Singh, A.1
Hespanha, J.P.2
-
35
-
-
68049139445
-
Optimal feedback strength for noise suppression in autoregulatory gene networks
-
A. Singh and J. P. Hespanha, “Optimal feedback strength for noise suppression in autoregulatory gene networks,” Biophysical Journal, vol. 96, pp. 4013-4023, 2009.
-
(2009)
Biophysical Journal
, vol.96
, pp. 4013-4023
-
-
Singh, A.1
Hespanha, J.P.2
-
36
-
-
0001601301
-
Stochastic approach to chemical kinetics
-
D. A. McQuarrie, “Stochastic approach to chemical kinetics,” J. of Applied Probability, vol. 4, pp. 413-478, 1967.
-
(1967)
J. Of Applied Probability
, vol.4
, pp. 413-478
-
-
McQuarrie, D.A.1
-
37
-
-
67650550767
-
Synergistic activation of HIV-1 expression by deacetylase inhibitors and prostratin: Implications for treatment of latent infection
-
S. Reuse, M. Calao, K. Kabeya, and A. G. et al., “Synergistic activation of HIV-1 expression by deacetylase inhibitors and prostratin: Implications for treatment of latent infection,” PLoS ONE, vol. 4, p. e6093, 2009.
-
(2009)
PLoS ONE
, vol.4
-
-
Reuse, S.1
Calao, M.2
Kabeya, K.3
-
38
-
-
4744359117
-
Prostratin antagonizes HIV latency by activating NF − κB
-
S. A. Williams, L.-F. Chen, H. Kwon, D. Fenard, D. Bisgrove, E. Verdin, and W. C. Greene, “Prostratin antagonizes HIV latency by activating NF − κB,” Journal of Biological Chemistry, vol. 279, pp. 42 008-42 017, 2004.
-
(2004)
Journal of Biological Chemistry
, vol.279
, pp. 42008-42017
-
-
Williams, S.A.1
Chen, L.-F.2
Kwon, H.3
Fenard, D.4
Bisgrove, D.5
Verdin, E.6
Greene, W.C.7
-
39
-
-
0025289880
-
Feedback regulation of human immunodeficiency virus type 1 expression by the Rev protein
-
B. K. Felber, C. M. Drysdale, and G. N. Pavlakis, “Feedback regulation of human immunodeficiency virus type 1 expression by the Rev protein,” Journal of Virology, vol. 64, p. 3734, 1990.
-
(1990)
Journal of Virology
, vol.64
, pp. 3734
-
-
Felber, B.K.1
Drysdale, C.M.2
Pavlakis, G.N.3
-
40
-
-
25844449407
-
Effects of RNA splicing and post-transcriptional regulation on HIV-1 growth: A quantitative and integrated perspective
-
K. Hwijin and J. Yin, “Effects of RNA splicing and post-transcriptional regulation on HIV-1 growth: a quantitative and integrated perspective,” IEE Proceedings Systems Biology, vol. 152, pp. 138-152, 2005.
-
(2005)
IEE Proceedings Systems Biology
, vol.152
, pp. 138-152
-
-
Hwijin, K.1
Yin, J.2
-
41
-
-
0042658190
-
Nuclear mRNA export: Insights from virology
-
B. R. Cullen, “Nuclear mRNA export: insights from virology,” Trends in Biochemical Sciences, vol. 28, pp. 419-424, 2003.
-
(2003)
Trends in Biochemical Sciences
, vol.28
, pp. 419-424
-
-
Cullen, B.R.1
|