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Research Output 2006 2018

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Article
2018

A Post-Transcriptional Feedback Mechanism for Noise Suppression and Fate Stabilization

Hansen, M. M. K., Wen, W. Y., Ingerman, E., Razooky, B. S., Thompson, C. E., Dar, R. D., Chin, C. W., Simpson, M. L. & Weinberger, L. S., Jun 14 2018, In : Cell. 173, 7, p. 1609-1621.e15

Research output: Contribution to journalArticle

Noise
Stabilization
Feedback
Molecules
Networks (circuits)

Cell Size-Based Decision-Making of a Viral Gene Circuit

Bohn-Wippert, K., Tevonian, E. N., Lu, Y., Huang, M. Y., Megaridis, M. R. & Dar, R. D., Dec 26 2018, In : Cell Reports. 25, 13, p. 3844-3857.e5

Research output: Contribution to journalArticle

T-cells
Viral Genes
Gene Regulatory Networks
Cell Size
Decision Making
2017

Similarity in viral and host promoters couples viral reactivation with host cell migration

Bohn-Wippert, K., Tevonian, E. N., Megaridis, M. R. & Dar, R. D., Jan 1 2017, In : Nature communications. 8, 15006.

Research output: Contribution to journalArticle

Viruses
Cell Movement
human immunodeficiency virus
HIV
cells
2016
Noise
Messenger RNA
HIV Long Terminal Repeat
terminal repeat sequences
Terminal Repeat Sequences

Transcriptional bursting explains the noise-versus-mean relationship in mRNA and protein levels

Dar, R. D., Shaffer, S. M., Singh, A., Razooky, B. S., Simpson, M. L., Raj, A. & Weinberger, L. S., Jul 1 2016, In : PloS one. 11, 7, e0158298.

Research output: Contribution to journalArticle

Noise
Messenger RNA
HIV Long Terminal Repeat
terminal repeat sequences
Terminal Repeat Sequences
2015

The low noise limit in gene expression

Dar, R. D., Razooky, B. S., Weinberger, L. S., Cox, C. D. & Simpson, M. L., Oct 21 2015, In : PloS one. 10, 10, e0140969.

Research output: Contribution to journalArticle

Gene expression
Noise
Genes
Gene Expression
gene expression
2014

Screening for noise in gene expression identifies drug synergies

Dar, R. D., Hosmane, N. N., Arkin, M. R., Siliciano, R. F. & Weinberger, L. S., Jan 1 2014, In : Science. 344, 6190, p. 1392-1396 5 p.

Research output: Contribution to journalArticle

Noise
Gene Expression
Pharmaceutical Preparations
HIV
Small Molecule Libraries
2013

BET bromodomain-targeting compounds reactivate HIV from latency via a Tat-independent mechanism

Boehm, D., Calvanese, V., Dar, R. D., Xing, S., Schroeder, S., Martins, L., Aull, K., Li, P. C., Planelles, V., Bradner, J. E., Zhou, M. M., Siliciano, R. F., Weinberger, L., Verdin, E. & Ott, M., Feb 1 2013, In : Cell Cycle. 12, 3, p. 452-462 11 p.

Research output: Contribution to journalArticle

HIV
tat Gene Products
Virus Integration
Peptide Elongation Factors
Proteins
2012

An endogenous accelerator for viral gene expression confers a fitness advantage

Teng, M. W., Bolovan-Fritts, C., Dar, R. D., Womack, A., Simpson, M. L., Shenk, T. & Weinberger, L. S., Dec 21 2012, In : Cell. 151, 7, p. 1569-1580 12 p.

Research output: Contribution to journalArticle

Trans-Activators
Viral Genes
Viral Genome
Cytomegalovirus
Gene expression

Dynamics of protein noise can distinguish between alternate sources of gene-expression variability

Singh, A., Razooky, B. S., Dar, R. D. & Weinberger, L. S., Sep 17 2012, In : Molecular Systems Biology. 8, 201238.

Research output: Contribution to journalArticle

Gene expression
Messenger RNA
Alternate
Gene Expression
Noise

Transcriptional burst frequency and burst size are equally modulated across the human genome

Dar, R. D., Razooky, B. S., Singh, A., Trimeloni, T. V., McCollum, J. M., Cox, C. D., Simpson, M. L. & Weinberger, L. S., Oct 23 2012, In : Proceedings of the National Academy of Sciences of the United States of America. 109, 43, p. 17454-17459 6 p.

Research output: Contribution to journalArticle

Human Genome
trichostatin A
Gene Expression
Fluorescence Microscopy
Tumor Necrosis Factor-alpha
2011

Model for biological communication in a nanofabricated cell-mimic driven by stochastic resonance

Karig, D. K., Siuti, P., Dar, R. D., Retterer, S. T., Doktycz, M. J. & Simpson, M. L., Mar 1 2011, In : Nano Communication Networks. 2, 1, p. 39-49 11 p.

Research output: Contribution to journalArticle

Stochastic Resonance
Communication
Cell
Testbeds
Nanotechnology
2010

Distribution and regulation of stochasticity and plasticity in Saccharomyces cerevisiae

Dar, R. D., Karig, D. K., Cooke, J. F., Cox, C. D. & Simpson, M. L., Jul 13 2010, In : Chaos. 20, 3, 037106.

Research output: Contribution to journalArticle

saccharomyces
Stochasticity
gene expression
Saccharomyces Cerevisiae
Gene expression
2008

Transient-mediated fate determination in a transcriptional circuit of HIV

Weinberger, L. S., Dar, R. D. & Simpson, M. L., Apr 1 2008, In : Nature Genetics. 40, 4, p. 466-470 5 p.

Research output: Contribution to journalArticle

HIV
HIV-1
Gene Expression
Gene Regulatory Networks
Half-Life

Using noise to probe and characterize gene circuits

Cox, C. D., McCollum, J. M., Allen, M. S., Dar, R. D. & Simpson, M. L., Aug 5 2008, In : Proceedings of the National Academy of Sciences of the United States of America. 105, 31, p. 10809-10814 6 p.

Research output: Contribution to journalArticle

Gene Regulatory Networks
Noise
Population
2006

Frequency domain analysis of noise in simple gene circuits

Cox, C. D., McCollum, J. M., Austin, D. W., Allen, M. S., Dar, R. D. & Simpson, M. L., Jan 1 2006, In : Chaos. 16, 2, 026102.

Research output: Contribution to journalArticle

frequency domain analysis
Frequency Domain Analysis
Frequency domain analysis
genes
Genes

Gene network shaping of inherent noise spectra

Austin, D. W., Allen, M. S., McCollum, J. M., Dar, R. D., Wilgus, J. R., Sayler, G. S., Samatova, N. F., Cox, C. D. & Simpson, M. L., Feb 2 2006, In : Nature. 439, 7076, p. 608-611 4 p.

Research output: Contribution to journalArticle

Gene Regulatory Networks
Noise
Homeostasis
Genes
Escherichia coli