Peer reviewed articles
H. Song and L. You. Evolving Sensitivity
(Point of View). ACS Chemical Biology.
In press (2006).
D. Tu, J. Lee, T. Ozdere, T. Lee, and L. You. Engineering
gene circuits: foundations and applications. In “Nanotechnology
in Biology and Medicine Methods, Devices and Applications,” Ed. T. Vo-Dinh. CRC Press. In press
(2006)
T. Lee, C. M. Tan, D.
Tu, and L. You. Modeling
cellular networks. In “Bioinformatics: An Engineering Case-Based
Approach,” Eds. G. Alterovitz
& M. Ramoni. In press (2006).
L. You and J. Yin. (2006). Evolutionary design
on a budget: robustness and optimality of bacteriophage T7. IEE. Systems
Biology. 153:46-52.
F. K. Balagadde *, L. You*, C. Hanson, F. H. Arnold and S. Quake. (2005). Long-term
monitoring of bacteria undergoing programmed population control in a
microchemostat, Science. In press(*
contributed equally).
L. You, R. S. Cox III, R. Weiss, and F. H. Arnold. (2004).
Programmed population control
by cell-cell communication and regulated killing. Nature. Published online April 4th
2004. Featured in ScienceNow (405:3).
L. You, (2004) Towards computational systems biology. Cell Biochemistry and Biophysics.
40: 167-184
L. You, A. Hoonlor, and J. Yin. (2003) Modeling biological systems using Dynetica
– a simulator of dynamic networks. Bioinformatics. 19: 435-436.
R. Srivastava, L. You, J. Summers, and J. Yin.
(2002) Stochastic versus deterministic modeling
of intracellular viral kinetics.
J. Theor. Biol. 218: 309-321.
L. You and J. Yin (2002).
Dependence of epistasis on environment and mutation severity as revealed
by in silico mutagenesis of phage T7. Genetics. 160:
1273-1281
L. You, P. F. Suthers, and J. Yin (2002). Effects of E. coli physiology on growth of phage
T7 in vivo and in silico. J.
Bacteriology. 184:
1888-1894. (Highlighted in Editors’ Choice of Science (2002), 296: 219)
L. You and J. Yin (2001). Simulating
the growth of viruses. Proceedings
of the Pacific Symposium on Biocomputing: 532-543.
L. You and J. Yin
(2000). Patterns
of regulation from mRNA and protein time-series Metabolic
Engineering. 2:
210-217.
D. Endy, L. You, J. Yin, and
L. You and J. Yin (1999). Amplification and spread of viruses in a growing plaque. J. Theor. Biol.
200(4): 365-373.
L. You, Q. Liu, Y. Shi, C. X. Wang, M. Lahaye,
and V. Tran (1997). The
conformational study of b-D-GlcA-(1,4)-L-Rha
in solution by NMR and molecular dynamics simulations. Chemical Physics. 224:
81-94.
Lingchong You (May 2002) The extension, application, and generalization of a phage
T7 intracellular growth model. Department of Chemical Engineering.
Recent Invited Talks
1.
Programming
bacterial dynamics by synthetic killer circuits. The First Duke Systems Biology Symposium,
2.
Modeling
complex dynamic cellular networks. SAMSI workshop on “Development, Assessment, and
Utilization of Complex Computer Models”,
3.
Control of
the mammalian cell cycle entry by a bistable switch. Workshop on "Exploring the Mechanisms and Landscapes
of Cellular Networks".
4.
Control of
the mammalian cell cycle entry by a bistable switch.
5.
Programming
bacterial dynamics by synthetic killer circuits. American Physical Society Annual Meeting.
6.
Synthetic
Biology: Rewiring a bug’s life. Center for Nonlinear and Complex Systems seminar series.
7.
Designer
cells: “what I cannot create, I do not understand”. IGSP Computation Biology
and Bioinformatics seminar series.
8. Biology by design: reduction and synthesis of cellular networks. IGSP Genomes@4 seminar
series,
9. Synthetic gene circuits for decoding life. UPGG/IGSP seminar series.
10. Homeostasis, oscillations, and ecological interactions in reprogrammed bacterial
populations.
Workshop on Regulatory Networks. Mathematical Biosciences Institute, The
11. Synthetic gene circuits for decoding and controlling cellular behavior. Duke Bioengineering
Initiative Forum.
12.
Beyond single cells: programming population dynamics
by cell-cell communication. Computational Bioengineering -- Synthetic Cell
Communication Systems. BMES
Annual Meeting..
13. Homeostasis, oscillations, and ecological interactions in reprogrammed
bacterial populations. Center for Biological Circuit Design. California Institute of
Technology, CA. October, 2004.
14. Integrated understanding of biological networks by modeling. Integrating Disparate Data to Simulate Lymphocyte
Function. The
15. Beyond single
cells: Programming population dynamics
by engineered cell-cell communication.
16.
Beyond single cells: Programming population dynamics
by engineered cell-cell communication.
UCSD, CA. June 2004.
17.
Beyond single cells: Programming population dynamics
by engineered cell-cell communication.
18.
Beyond single cells: Programming population dynamics
by engineered cell-cell communication.
UCSF, CA. April 2004.
19.
Beyond single cells: Programming population dynamics
by engineered cell-cell communication.
20.
Beyond single cells: Programming population dynamics
by engineered cell-cell communication.
Past Invited Talks
L. You. From bacteriophage T7 to “PhenoBank”: Mathematical modeling for integrated understanding
of biological systems, Texas
A&M University, University of Houston, Eli Lilly & Company, University
of Massachusetts at Amherst, University of Norte Dame, Johns Hopkins
University, Purdue University, University of Pennsylvania, Lehigh University,
UCSD, and Duke University (Jan-Apr 2002).
Conference Presentations
8. J. Ozaki (speaker), M.
Barnet, C. Collins, F. H. Arnold, and L. You (2005). A Synthetic E. coli predator-prey system.
Synthetic Systems Biology. AIChE Annual Meeting
(November),
9. F.K. Balagadde, L. You, C. Hansen, F.H. Arnold
and S.R. Quake (2005). Programmed
Population Control by Cell-Cell Communication in a Microfluidic
Chemostat. NSTI Nanotechnology conference and trade show.
10. L. You, R. S. Cox III, R. Weiss
and F. H. Arnold (2004). Programmed
population control by engineered cell-cell communication (poster). The 1st
International Conference of Synthetic Biology (June).
11. L. You and F. H. Arnold (2003). Design and construction of a synthetic population control circuit. Advances in
12.
L. You,
R. S. Cox III, and F. H. Arnold (2003). Computational
design of a synthetic E. coli predator-prey ecosystem. Advances in
Metabolic Engineering and
13.
L. You
and J. Yin (2002). Environmental constraints on genomic design: insights from in silico mutagenesis of virus-host interactions (oral
presentation). Advances in
Bioinformatics: Networks and Pathways. AIChE
Annual Meeting (November),
14. L. You and
J. Yin (2001). Quantifying genetic interactions using in silico mutagenesis (oral
presentation). Food, Pharmaceutical, Bioengineering &
Fundamentals in Life Science. AIChE
Annual Meeting (November),
15.
L. You, A. Hoonlor, Y.-F. Chen, and J. Yin (2001). Modeling biological systems using Dynetica – a simulator of dynamic
networks. Bioinformatics and Genomics, AIChE Annual Meeting (November),
16. L. You and
J. Yin (2001). From Genome to Organism: Computing the Dynamics of Phage T7 Growth and
Exploring the Interactions Among Deleterious Mutations
(poster). Pacific Symposium
on Biocomputing (January). The Big
17.
L. You, P. Suthers, and J. Yin
(2000). Effects of E. coli physiology on
bacteriophage T7 growth (oral presentation). Advances in Bioinformatics. AIChE
Annual Meeting (November),
18.
R.
Srivastava, L. You, J. Summers and J. Yin (2000). Stochastic versus
deterministic modeling of hepatitis B virus intracellular kinetics (poster).
Food,
Pharmaceutical and Bioengineering, AIChE
Annual Meeting (November),
19.
L. You, D. Endy, and J. Yin (2000). Functional genomics of bacteriophage T7 (poster). Quantitative
Challenges in the Post-Genomic Sequence Era: A Workshop and Symposium
(January).
20.
L. You and J. Yin (1999). Discovering patterns of biochemical function from mRNA and protein
time-series (poster). AIChE Annual Meeting
(November),
21.
D. Endy,
L. You,
*** Go back to Lingchong’s homepage
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