2012

Making gene circuits sing Arthur Prindle and Jeff Hasty Proceedings of the National Academy of Sciences , (2012)

In vivo gene expression dynamics of tumor-targeted bacteria Tal Danino, Justin Lo, Arthur Prindle, Jeff Hasty, and Sangeeta N. Bhatia ACS Synthetic Biology , (2012)

Recent advances in single-cell studies of gene regulation Jangir Selimkhanov, Jeff Hasty, and Lev Tsimring Current Opinion in Biotechnology , 23:34-40 (2012)

Vacuum-assisted cell loading enables shear-free mammalian microfluidic culture Martin Kolnik, Lev Tsimring, and Jeff Hasty Lab on a Chip , (2012)

Genetic circuits in Salmonella typhimurium Arthur Prindle, Jangir Selimkhanov, Tal Danino, Phillip Samayoa, Anna Goldberg, Sangeeta N. Bhatia, and Jeff Hasty ACS Synthetic Biology , (2012)

Fast stochastic algorithm for simulating evolutionary population dynamics William H. Mather, Jeff Hasty, and Lev S. Tsimring Bioinformatics , Vol. 28, No. 9 (2012)

Synthetic biology approaches to biofuel production Michael S. Ferry, Jeff Hasty, Natalie A. Cookson Biofuels , Vol. 3, No. 1 (2012)

A sensing array of radically coupled genetic 'biopixels' Arthur Prindle, Phillip Samayoa, Ivan Razinkov, Tal Danino, Lev Tsimring, and Jeff Hasty Nature , 481, 39–44 (2012)

2011

Queueing up for enzymatic processing: correlated signaling through coupled degradation Natalie A. Cookson, William H. Mather, Tal Danino, Octavio Mondragón-Palomino, Ruth J. Williams, Lev S. Tsimring and Jeff Hasty Molecular Systems Biology , 16:21:00 (2011)

Antagonistic gene transcripts regulate adaptation to new growth environments Bridget L. Baumgartner, Matthew R. Bennett, Michael Ferry, Tracy L. Johnson, Lev S. Tsimring, and Jeff Hasty Proceedings of the National Academy of Sciences , 1111408109 (2011)

Yeast Dynamically Modify Their Environment to Achieve Better Mating Efficiency Meng Jin, Beverly Errede, Marcelo Behar, Will Mather, Sujata Nayak, Jeff Hasty, Henrik G. Dohlman, and Timothy C. Elston Science Signaling , 4(186): ra54 (2011)

Entrainment of a population of synthetic genetic oscillators Octavio Mondragón-Palomino, Tal Danino, Jangir Selimkhanov, Lev Tsimring, and Jeff Hasty Science , 333: 1315-1319 (2011)

In-Silico Patterning of Vascular Mesenchymal Cells in Three Dimensions Tal Danino, Dmitri Volfson, Sangeeta N. Bhatia, Lev Tsimring, Jeff Hasty PLoS One , 6(5): e20182 (2011)

Microfluidics for synthetic biology: From design to execution Michael Ferry, Ivan Razinkov, and Jeff Hasty Methods in Enzymology , 497: 295-372 (2011)

Buckling instability in ordered bacterial colonies Denis Boyer, William Mather, Octavio Mondragon-Palomino, Sirio Orozco-Fuente, Tal Danino, Jeff Hasty, and Lev Tsimring Physical Biology , 441:28:00 (2011)

Factorized time-dependent distributions for certain multiclass queueing networks and an application to enzymatic processing network William H. Mather, Jeff Hasty, Lev S. Tsimring, and Ruth J. Williams Queueing Systems , 1/16/2011 (2011)

2010

Circadian rhythms in Neurospora crassa: Dynamics of the clock component frequency visualized using a fluorescent reporter Ernestina Castro-Longoria, Michael Ferry, Salomon Bartnicki-Garcia, Jeff Hasty, Stuart Brody Fungal Genetics and Biology , 47: 332-341 (2010)

A synchronized quorum of genetic clocks Tal Danino, Octavio Mondragon-Palomino, Lev Tsimring, Jeff Hasty Nature , 426: 326-330 (2010)

Streaming Instability in Growing Cell Populations William Mather, Octavio Mondragon-Palomino, Tal Danino, Jeff Hasty, and Lev S. Tsimring Physical Review Letters , 104208101 (2010)

Correlation Resonance Generated by Coupled Enzymatic Processing William H. Mather, Natalie A. Cookson, Jeff Hasty, Lev S. Tsimring, and Ruth J. Wiliams Biophysical Journal , 99(10) (2010)

Stochastic Emergence of Groupthink Arthur Prindle and Jeff Hasty Science , 328 (2010)

Phenotypic impact of regulatory noise in cellular stress-response pathways Daniil Zhuravel, Dawn Fraser, Simon St-Pierre, Lioudmila Tepliakova, Wyming L. Pang, Jeff Hasty, Mads Kaern Systems and Synthetic Biology , 4(2): 105–116 (2010)

2009

Microfluidic devices for measuring gene network dynamics in single cells Matthew Bennett, Jeff Hasty Nature Reviews Genetics , 10(9): 628-38 (2009)

Overpowering the component problem Matthew Bennett, Jeff Hasty Nature Biotechnology , 27(5): 450-1 (2009)

Cell cycle-dependent variations in protein concentration Natalie Cookson, Scott Cookson, Lev Tsimring, Jeff Hasty Nucleic Acids Research , 38(8) (2009)

The pedestrian watchmaker: Genetic clocks from engineered oscillators Natalie Cookson, Lev Tsimring, Jeff Hasty FEBS Letters , 583 3931_3937 (2009)

Coherent activation of a synthetic mammalian gene network Diane Longo, Alexander Hoffman, Lev Tsimring, Jeff Hasty Systems and Synthetic Biology , DOI 10.1007/s11693-009-9044-5 (2009)

Delay-Induced Degrade-and-Fire Oscillations in Small Genetic Circuits William Mather, Matthew Bennett, Jeff Hasty, Lev Tsimring Physical Review Letters , 102(6):068105(4) (2009)

2008

Metabolic gene regulation in a dynamically changing environment Matthew Bennett, Wyming Lee Pang, Natalie Ostroff, Bridget Baumgartner, Sujata Nayak, Lev Tsimring, Jeff Hasty Nature , 454(7208):1119-22 (2008)

Systems Biology: Genome rewired Matthew Bennett, Jeff Hasty Nature , 452(7189):824-5 (2008)

Athermal Dynamics of Strongly Coupled Stochastic Three-State Oscillators Bastien Fernandez, Lev Tsimring Physical Review Letters , 100(16):165705 (2008)

Regulation of Cell Signaling Dynamics by the Protein Kinase-Scaffold Ste5 Nan Hao, Sujata Nayak, Marcelo Behar, Ryan Shanks, Michal Nagiec, Beverly Errede, Jeff Hasty, Timothy Elston, Henrik Dohlman Molecular Cell , 30(5):539-656 (2008)

A molecular noise generator Ting Lu, Michael Ferry, Ron Weiss, Jeff Hasty Physical Biology , 5(3):36006 (2008)

A fast, robust and tunable synthetic gene oscillator Jesse Stricker, Scott Cookson, Matthew Bennett, William Mather, Lev Tsimring, Jeff Hasty Nature , 456(7221):516-9 (2008)

Biomechanical ordering of dense cell populations Dmitri Volfson, Scott Cookson, Jeff Hasty, Lev Tsimring Proceedings of the National Academy of Sciences , 105(40):15346-51 (2008)

2007

Transient dynamics of genetic regulatory networks Matthew Bennett, Dmitri Volfson, Lev Tsimring, Jeff Hasty Biophysical Journal , 92: 3501-3512 (2007)

A DNA methylation-based switch generates bistable gene expression Matthew Bennett, Jeff Hasty Nature Genetics , 39: 146-147 (2007)

A synthetic gene network for tuning protein degradation in Saccharomyces cerevisiae Chris Grilly, Jesse Stricker, Wyming Lee Pang, Matthew Bennett, Jeff Hasty Molecular Systems Biology , msb4100168 (2007)

Phenotypic variability of growing cellular populations Ting Lu, Tongye Shen, Matthew Bennett, Peter Wolynes, Jeff Hasty Proceedings of the National Academy of Sciences , 104:18982_18987 (2007)

2006

A bottom-up approach to gene regulation Nicholas Guido, Xiao Wang, David Adalsteinsson, David McMillen, Jeff Hasty, Charles Cantor, Timothy Elston, J.J. Collins Nature , 439: 856-860 (2006)

Dynamics of single-cell gene expression Diane Longo, Jeff Hasty Molecular Systems Biology , msb4100110 (2006)

Imaging gene expression: Tiny signals make a big noise Diane Longo, Jeff Hasty Nature Chemical Biology , 2: 181-182 (2006)

Statistics of cellular signal transduction as a race to the nucleus by multiple random walkers in compartment/phosphorylation space Ting Lu, Tongye Shen, Chenghang Zong, Jeff Hasty, Peter Wolynes Proceedings of the National Academy of Sciences , 103:16752-16757 (2006)

Effective temperature in stochastic kinetics and gene networks Ting Lu, Jeff Hasty, Peter Wolynes Biophysical Journal , 91: 84-94 (2006)

Stochastically driven genetic circuits Lev Tsimring, Dmitri Volfson, Jeff Hasty Chaos , 16: 026103 (2006)

Origins of extrinsic variability in eukaryotic gene expression Dmitri Volfson, Jennifer Marciniak, Natalie Ostroff, William Blake, Lev Tsimring, Jeff Hasty Nature , 439: 861-864 (2006)

2005

Delay-induced stochastic oscillations in gene regulation Dmitri Bratsun, Dmitri Volfson, Lev Tsimring, Jeff Hasty Proceedings of the National Academy of Sciences , 102: 14593-14598 (2005)

Monitoring dynamics of single-cell gene expression over multiple cell cycles Scott Cookson, Natalie Ostroff, Wyming Lee Pang, Dmitri Volfson, Jeff Hasty Molecular Systems Biology , msb4100032 (2005)

2004

Cellular growth and division in the Gillespie algorithm Ting Lu, Dmitri Volfson, Lev Tsimring, Jeff Hasty IEE Systems Biology , 1:121-127 (2004)

2003

Prediction and measurement of an autoregulatory genetic module Farren Isaacs, Jeff Hasty, Charles Cantor, J.J. Collins Proceedings of the National Academy of Sciences , 100 (13) 7714-7719 (2003)

Reverse engineering gene networks: Integrating genetic perturbations with dynamical modeling Jesper Tegner, Stephen Yeung, Jeff Hasty, J.J. Collins Proceedings of the National Academy of Sciences , 100 (10): 5944-5949 (2003)

2002

A synthetic gene network for entraining and amplifying cellular oscillations Jeff Hasty, Milos Dolnik, Vivi Rottschafer, J.J. Collins Physical Review Letters , 88 (14): art. no. 148101 (2002)

Design then mutate Jeff Hasty Proceedings of the National Academy of Sciences , 99 (26): 16516-16518 (2002)

Engineered gene circuits Jeff Hasty, David McMillen, J.J. Collins Nature , 420 (6912): 224-230 (2002)

Translating the noise Jeff Hasty, J.J. Collins Nature Genetics , 31 (1): 13-4 (2002)

Synchronizing genetic relaxation oscillators by intercell signalling David McMillen, Nancy Kopell, Jeff Hasty, J.J. Collins Proceedings of the National Academy of Sciences , 99 (2): 679-684 (2002)

2001

Designer gene networks: Towards fundamental cellular control Jeff Hasty, Farren Isaacs, Milos Dolnik, David McMillen, J.J. Collins Chaos , 11 (1): 207-220 (2001)

Computational studies of gene regulatory networks: in numero molecular biology Jeff Hasty, David McMillen, Farren Isaacs, J.J. Collins Nature Reviews Genetics , 2 (4): 268-279 (2001)

Protein interactions- Unspinning the web Jeff Hasty, J.J. Collins Nature , 411 (6833): 30-31 (2001)

Wavelets of excitibility in sensory neurons Jeff Hasty, J.J. Collins, Kurt Wiesenfeld, Peter Grigg Journal of Neurophysiology , 86 (4): 2097-2101 (2001)

Complex ligand-protein systems: a globally convergent iterative method for the n x m case J Pradines, Jeff Hasty, K Pakdaman Journal of Mathematical Biology , 43 (4): 313-324 (2001)

2000

Noise-based switches and amplifiers for gene expression Jeff Hasty, Joel Pradines, Milos Dolnik, J.J. Collins Proceedings of the National Academy of Sciences , 97 (5): 2075-2080 (2000)

1998

Renormalization group for directed sandpile models Jeff Hasty, Kurt Wiesenfeld Physical Review Letters , 81 (8): 1722-1725 (1998)

1997

Renormalization of one-dimensional avalanche models Jeff Hasty, Kurt Wiesenfeld Journal of Statistical Physics , 86 (5-6): 11/79-1201 (1997)