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2020

Integrative Circuit-Host Modeling of a Genetic Switch in Varying Environments

Sickle, J. J., Ni, C., Shen, D., Wang, Z., Jin, M. & Lu, T., Dec 1 2020, In : Scientific reports. 10, 1, 8383.

Research output: Contribution to journalArticle

Open Access

Interaction variability shapes succession of synthetic microbial ecosystems

Liu, F., Mao, J., Kong, W., Hua, Q., Feng, Y., Bashir, R. & Lu, T., Dec 1 2020, In : Nature communications. 11, 1, 309.

Research output: Contribution to journalArticle

Open Access
2019

Identification and characterization of core sludge and biofilm microbiota in anaerobic membrane bioreactors

Cheng, H., Cheng, D., Mao, J., Lu, T. & Hong, P. Y., Dec 2019, In : Environment International. 133, 105165.

Research output: Contribution to journalArticle

Open Access

Nonequilibrium physics in biology

Fang, X., Kruse, K., Lu, T. & Wang, J., Dec 20 2019, In : Reviews of Modern Physics. 91, 4, 045004.

Research output: Contribution to journalArticle

Synthetic, Context-Dependent Microbial Consortium of Predator and Prey

Liu, F., Mao, J., Lu, T. & Hua, Q., Aug 16 2019, In : ACS synthetic biology. 8, 8, p. 1713-1722 10 p.

Research output: Contribution to journalArticle

2018

Bacterial Consortium-Based Sensing System for Detecting Organophosphorus Pesticides

Khatun, M. A., Hoque, M. A., Zhang, Y., Lu, T., Cui, L., Zhou, N. Y. & Feng, Y., Sep 4 2018, In : Analytical chemistry. 90, 17, p. 10577-10584 8 p.

Research output: Contribution to journalArticle

Circuit-Host Coupling Induces Multifaceted Behavioral Modulations of a Gene Switch

Blanchard, A. E., Liao, C. & Lu, T., Feb 6 2018, In : Biophysical journal. 114, 3, p. 737-746 10 p.

Research output: Contribution to journalArticle

Designing microbial consortia with defined social interactions

Kong, W., Meldgin, D. R., Collins, J. J. & Lu, T., Aug 1 2018, In : Nature chemical biology. 14, 8, p. 821-829 9 p.

Research output: Contribution to journalArticle

Developing a Synthetic Biology Toolkit for Comamonas testosteroni, an Emerging Cellular Chassis for Bioremediation

Tang, Q., Lu, T. & Liu, S. J., Jul 20 2018, In : ACS synthetic biology. 7, 7, p. 1753-1762 10 p.

Research output: Contribution to journalArticle

Engineering the bacterium Comamonas testosteroni CNB-1: Plasmid curing and genetic manipulation

Tang, Q., Lu, T. & Liu, S. J., May 15 2018, In : Biochemical Engineering Journal. 133, p. 74-82 9 p.

Research output: Contribution to journalArticle

Spatial interference scale as a determinant of microbial range expansion

Ozgen, V. C., Kong, W., Blanchard, A. E., Liu, F. & Lu, T., Nov 21 2018, In : Science Advances. 4, 11, eaau0695.

Research output: Contribution to journalArticle

Stochastic Turing patterns in a synthetic bacterial population

Karig, D., Michael Martini, K., Lu, T., DeLateur, N. A., Goldenfeld, N. & Weiss, R., Jun 26 2018, In : Proceedings of the National Academy of Sciences of the United States of America. 115, 26, p. 6572-6577 6 p.

Research output: Contribution to journalArticle

2017

An integrative circuit-host modelling framework for predicting synthetic gene network behaviours /631/553/552 /631/553/2695 article

Liao, C., Blanchard, A. E. & Lu, T., Dec 1 2017, In : Nature Microbiology. 2, 12, p. 1658-1666 9 p.

Research output: Contribution to journalArticle

Characterization of a Clostridium beijerinckii spo0A mutant and its application for butyl butyrate production

Seo, S. O., Wang, Y., Lu, T., Jin, Y. S. & Blaschek, H. P., Jan 1 2017, In : Biotechnology and bioengineering. 114, 1, p. 106-112 7 p.

Research output: Contribution to journalArticle

Engineering robust and tunable spatial structures with synthetic gene circuits

Kong, W., Blanchard, A. E., Liao, C. & Lu, T., Jan 1 2017, In : Nucleic acids research. 45, 2, p. 1005-1014 10 p.

Research output: Contribution to journalArticle

Genomic, Transcriptional, and Phenotypic Analysis of the Glucose Derepressed Clostridium beijerinckii Mutant Exhibiting Acid Crash Phenotype

Seo, S. O., Janssen, H., Magis, A., Wang, Y., Lu, T., Price, N. D., Jin, Y. S. & Blaschek, H. P., Nov 2017, In : Biotechnology Journal. 12, 11, 1700182.

Research output: Contribution to journalArticle

2016

An Ecological Understanding of Quorum Sensing-Controlled Bacteriocin Synthesis

Blanchard, A. E., Liao, C. & Lu, T., Sep 1 2016, In : Cellular and Molecular Bioengineering. 9, 3, p. 443-454 12 p.

Research output: Contribution to journalArticle

Gene transcription repression in Clostridium beijerinckii using CRISPR-dCas9

Wang, Y., Zhang, Z. T., Seo, S. O., Lynn, P., Lu, T., Jin, Y-S. & Blaschek, H-P. M., Dec 1 2016, In : Biotechnology and bioengineering. 113, 12, p. 2739-2743 5 p.

Research output: Contribution to journalArticle

Population-Dynamic Modeling of Bacterial Horizontal Gene Transfer by Natural Transformation

Mao, J. & Lu, T., Jan 5 2016, In : Biophysical journal. 110, 1, p. 258-268 11 p.

Research output: Contribution to journalArticle

2015

A gene network engineering platform for lactic acid bacteria

Kong, W., Kapuganti, V. S. & Lu, T., Oct 9 2015, In : Nucleic acids research. 44, 4, e37.

Research output: Contribution to journalArticle

Autonomous production of 1,4-butanediol via a de novo biosynthesis pathway in engineered Escherichia coli

Liu, H. & Lu, T., May 1 2015, In : Metabolic Engineering. 29, p. 135-141 7 p.

Research output: Contribution to journalArticle

Bacterial social interactions drive the emergence of differential spatial colony structures

Blanchard, A. E. & Lu, T., Sep 16 2015, In : BMC Systems Biology. 9, 1, 59.

Research output: Contribution to journalArticle

Integrated, systems metabolic picture of acetone-butanol-ethanol fermentation by Clostridium acetobutylicum

Liao, C., Seo, S. O., Celik, V., Liu, H., Kong, W., Wang, Y., Blaschek, H., Jin, Y. S. & Lu, T., Jul 7 2015, In : Proceedings of the National Academy of Sciences of the United States of America. 112, 27, p. 8505-8510 6 p.

Research output: Contribution to journalArticle

Markerless chromosomal gene deletion in Clostridium beijerinckii using CRISPR/Cas9 system

Wang, Y., Zhang, Z. T., Seo, S. O., Choi, K., Lu, T., Jin, Y. S. & Blaschek, H. P., Apr 1 2015, In : Journal of Biotechnology. 200, p. 1-5 5 p.

Research output: Contribution to journalArticle

Slow and steady wins the race: A bacterial exploitative competition strategy in fluctuating environments

Mao, J., Blanchard, A. E. & Lu, T., Mar 20 2015, In : ACS synthetic biology. 4, 3, p. 240-248 9 p.

Research output: Contribution to journalArticle

2014

Cloning and optimization of a nisin biosynthesis pathway for bacteriocin harvest

Kong, W. & Lu, T., Jul 18 2014, In : ACS synthetic biology. 3, 7, p. 439-445 7 p.

Research output: Contribution to journalArticle

Extinction, coexistence, and localized patterns of a bacterial population with contact-dependent inhibition

Blanchard, A. E., Celik, V. & Lu, T., Feb 27 2014, In : BMC Systems Biology. 8, 1, 23.

Research output: Contribution to journalArticle

MEP pathway-mediated isopentenol production in metabolically engineered Escherichia coli

Liu, H., Wang, Y., Tang, Q., Kong, W., Chung, W. J. & Lu, T., Sep 12 2014, In : Microbial cell factories. 13, 1, 135.

Research output: Contribution to journalArticle

2013

A minimal transcriptional controlling network of regulatory T cell development

Liao, C. & Lu, T., Nov 4 2013, In : Journal of Physical Chemistry B. 117, 42, p. 12995-13004 10 p.

Research output: Contribution to journalArticle

2012

A multiply redundant genetic switch 'locks in' the transcriptional signature of regulatory T cells

Fu, W., Ergun, A., Lu, T., Hill, J. A., Haxhinasto, S., Fassett, M. S., Gazit, R., Adoro, S., Glimcher, L., Chan, S., Kastner, P., Rossi, D., Collins, J. J., Mathis, D. & Benoist, C., Oct 2012, In : Nature Immunology. 13, 10, p. 972-980 9 p.

Research output: Contribution to journalArticle

2011

Automatic compilation from high-level biologically-oriented programming language to genetic regulatory networks

Beal, J., Lu, T. & Weiss, R., Aug 10 2011, In : PloS one. 6, 8, e22490.

Research output: Contribution to journalArticle

Investigating the Impact of Uncertainty About Item Parameters on Ability Estimation

Zhang, J., Xie, M., Song, X. & Lu, T., Jan 1 2011, In : Psychometrika. 76, 1, p. 97-118 22 p.

Research output: Contribution to journalArticle

2008

A molecular noise generator

Lu, T., Ferry, M., Weiss, R. & Hasty, J., Sep 1 2008, In : Physical Biology. 5, 3, 036006.

Research output: Contribution to journalArticle

2007

Phenotypic variability of growing cellular populations

Lu, T., Shen, T., Bennett, M. R., Wolynes, P. G. & Hasty, J., Nov 27 2007, In : Proceedings of the National Academy of Sciences of the United States of America. 104, 48, p. 18982-18987 6 p.

Research output: Contribution to journalArticle

2006

Effective temperature in stochastic kinetics and gene networks

Lu, T., Hasty, J. & Wolynes, P. G., Jan 1 2006, In : Biophysical journal. 91, 1, p. 84-94 11 p.

Research output: Contribution to journalArticle

Nonequilibrium self-assembly of linear fibers: Microscopic treatment of growth, decay, catastrophe and rescue

Zong, C., Lu, T., Shen, T. & Wolynes, P. G., Mar 1 2006, In : Physical Biology. 3, 1, p. 83-92 10 p.

Research output: Contribution to journalArticle

Statistics of cellular signal transduction as a race to the nucleus by multiple random walkers in compartment/phosphorylation space

Lu, T., Shen, T., Zong, C., Hasty, J. & Wolynes, P. G., Nov 7 2006, In : Proceedings of the National Academy of Sciences of the United States of America. 103, 45, p. 16752-16757 6 p.

Research output: Contribution to journalArticle

2004

Cellular growth and division in the Gillespie algorithm.

Lu, T., Volfson, D., Tsimring, L. & Hasty, J., Jun 2004, In : Systems biology. 1, 1, p. 121-128 8 p.

Research output: Contribution to journalArticle