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1

Quantitative Modeling of Bacterial Chemotaxis: Signal Amplification and Accurate Adaptation

Journal:

Annual Review of Biophysics

Year:

2013

Language:

english

File:

PDF, 815 KB

english, 2013

2

Flocks, herds, and schools: A quantitative theory of flocking

Toner, John, Tu, Yuhai

Journal:

Physical Review E

Year:

1998

Language:

english

File:

PDF, 665 KB

english, 1998

3

Microfluidics and its applications in quantitative biology

Journal:

Quantitative Biology

Year:

2013

Language:

english

File:

PDF, 142 KB

english, 2013

4

Information processing in bacteria: memory, computation, and statistical physics: a key issues review

Lan, Ganhui, Tu, Yuhai

Journal:

Reports on Progress in Physics

Year:

2016

Language:

english

File:

PDF, 2.77 MB

english, 2016

5

A framework towards understanding mesoscopic phenomena: Emergent unpredictability, symmetry breaking and dynamics across scales

Qian, Hong, Ao, Ping, Tu, Yuhai, Wang, Jin

Journal:

Chemical Physics Letters

Year:

2016

Language:

english

File:

PDF, 858 KB

english, 2016

6

Heating control strategy in fresh air processor matched with variable refrigerant flow air conditioning system

Qiu Tu, Shoubo Mao, Yuhai Feng, Defang Guo

Journal:

Energy Conversion and Management

Year:

2011

Language:

english

File:

PDF, 5.10 MB

english, 2011

7

Moving and staying together without a leader

Guillaume Grégoire, Hugues Chaté, Yuhai Tu

Journal:

Physica D: Nonlinear Phenomena

Year:

2003

Language:

english

File:

PDF, 335 KB

english, 2003

8

Determination criterion of defrosting condition for variable refrigerant flow air conditioning system

Qiu Tu, Jingqiang Xu, Yuhai Feng, Shoubo Mao, Defang Guo, Jianqi He

Journal:

Energy and Buildings

Year:

2012

Language:

english

File:

PDF, 2.86 MB

english, 2012

9

Theory of diffusion-limited growth

Levine, Herbert, Tu, Yuhai

Journal:

Physical Review E

Year:

1993

Language:

english

File:

PDF, 175 KB

english, 1993

10

Logarithmic Sensing in Escherichia coli Bacterial Chemotaxis

Kalinin, Yevgeniy V., Jiang, Lili, Tu, Yuhai, Wu, Mingming

Journal:

Biophysical Journal

Year:

2009

Language:

english

File:

PDF, 789 KB

english, 2009

11

Excitation-Contraction Coupling Gain and Cooperativity of the Cardiac Ryanodine Receptor: A Modeling Approach

Wang, Kai, Tu, Yuhai, Rappel, Wouter-Jan, Levine, Herbert

Journal:

Biophysical Journal

Year:

2005

Language:

english

File:

PDF, 180 KB

english, 2005

12

Interface

Tu, Yuhai, Tersoff, J.

Journal:

Physical Review Letters

Year:

2000

Language:

english

File:

PDF, 152 KB

english, 2000

13

Survival probability and field theory in systems with absorbing states

Muñoz, M. A., Grinstein, G., Tu, Yuhai

Journal:

Physical Review E

Year:

1997

Language:

english

File:

PDF, 135 KB

english, 1997

14

Morphology transitions in a mean-field model of diffusion-limited growth

Tu, Yuhai, Levine, Herbert, Ridgway, Douglas

Journal:

Physical Review Letters

Year:

1993

Language:

english

File:

PDF, 570 KB

english, 1993

15

Mean-field theory for diffusion-limited aggregation in low dimensions

Brener, Efim, Levine, Herbert, Tu, Yuhai

Journal:

Physical Review Letters

Year:

1991

Language:

english

File:

PDF, 759 KB

english, 1991

16

Front stability in mean-field models of diffusion-limited growth

Ridgway, Douglas, Levine, Herbert, Tu, Yuhai

Journal:

Physical Review E

Year:

1996

File:

PDF, 1.62 MB

1996

17

Mean-field theory of the morphology transition in stochastic diffusion-limited growth

Tu, Yuhai, Levine, Herbert

Journal:

Physical Review E

Year:

1995

File:

PDF, 2.45 MB

1995

18

Mean-field diffusion-limited aggregation and the Saffman-Taylor problem in three dimensions

Levine, Herbert, Tu, Yuhai

Journal:

Physical Review A

Year:

1992

Language:

english

File:

PDF, 335 KB

english, 1992

19

Interface fluctuations in random media

Kessler, David A., Levine, Herbert, Tu, Yuhai

Journal:

Physical Review A

Year:

1991

Language:

english

File:

PDF, 156 KB

english, 1991

20

Mean-field diffusion-limited aggregation in radial geometries

Levine, Herbert, Tu, Yuhai

Journal:

Physical Review A

Year:

1992

Language:

english

File:

PDF, 395 KB

english, 1992

21

How White Noise Generates Power-Law Switching in Bacterial Flagellar Motors

Tu, Yuhai, Grinstein, G.

Journal:

Physical Review Letters

Year:

2005

Language:

english

File:

PDF, 388 KB

english, 2005

22

Chaotic domain structure in rotating convection

Tu, Yuhai, Cross, M. C.

Journal:

Physical Review Letters

Year:

1992

Language:

english

File:

PDF, 688 KB

english, 1992

23

The free-energy cost of accurate biochemical oscillations

Cao, Yuansheng, Wang, Hongli, Ouyang, Qi, Tu, Yuhai

Journal:

Year:

2015

Language:

english

File:

PDF, 596 KB

english, 2015

24

Nonsymmetric Saffman–Taylor fingers

Brener, Efim, Levine, Herbert, Tu, Yuhai

Journal:

Physics of Fluids A Fluid Dynamics

Year:

1991

Language:

english

File:

PDF, 827 KB

english, 1991

25

Investigation on output capacity control strategy of variable refrigerant flow air conditioning system with multi-compressor

Tu, Qiu, Zou, Deqiu, Deng, Chenmian, Zhang, Jie, Hou, Lifeng, Yang, Min, Nong, Guicai, Feng, Yuhai

Journal:

Applied Thermal Engineering

Year:

2016

Language:

english

File:

PDF, 1.35 MB

english, 2016

26

Free Energy Cost of Reducing Noise while Maintaining a High Sensitivity

Sartori, Pablo, Tu, Yuhai

Journal:

Physical Review Letters

Year:

2015

Language:

english

File:

PDF, 325 KB

english, 2015

27

Adaptation in Living Systems

Tu, Yuhai, Rappel, Wouter-Jan

Journal:

Annual Review of Condensed Matter Physics

Year:

2018

Language:

english

File:

PDF, 2.05 MB

english, 2018

28

Swarming in the Dirt: Ordered Flocks with Quenched Disorder

Toner, John, Guttenberg, Nicholas, Tu, Yuhai

Journal:

Physical Review Letters

Year:

2018

Language:

english

File:

PDF, 213 KB

english, 2018

29

Error-Speed Correlations in Biopolymer Synthesis

Chiuchiú, Davide, Tu, Yuhai, Pigolotti, Simone

Journal:

Physical Review Letters

Year:

2019

Language:

english

File:

PDF, 561 KB

english, 2019

30

The energy cost and optimal design for synchronization of coupled molecular oscillators

Zhang, Dongliang, Cao, Yuansheng, Ouyang, Qi, Tu, Yuhai

Journal:

Year:

2019

Language:

english

File:

PDF, 1.75 MB

english, 2019

31

Hydrodynamics and phases of flocks

John Toner, Yuhai Tu, Sriram Ramaswamy

Journal:

Annals of Physics

Year:

2005

Language:

english

File:

PDF, 1.23 MB

english, 2005

32

Structure of the silicon–oxide interface

Yuhai Tu, J Tersoff

Journal:

Thin Solid Films

Year:

2001

Language:

english

File:

PDF, 794 KB

english, 2001

33

Clustering kinetics of granular media in three dimensions

Shiyi Chen, Yuefan Deng, Xiaobo Nie, Yuhai Tu

Journal:

Physics Letters A

Year:

2000

Language:

english

File:

PDF, 287 KB

english, 2000

34

Phases and phase transitions in flocking systems

Journal:

Physica A: Statistical Mechanics and its Applications

Year:

2000

Language:

english

File:

PDF, 249 KB

english, 2000

35

Noise Filtering Strategies in Adaptive Biochemical Signaling Networks

Pablo Sartori, Yuhai Tu

Journal:

Journal of Statistical Physics

Year:

2011

Language:

english

File:

PDF, 612 KB

english, 2011

36

Spatiotemporal patterns of electrocorticographic very fast oscillations (>80 Hz) consistent with a network model based on electrical coupling between principal neurons

Roger D. Traub, Roderick Duncan, Aline J.C. Russell, Torsten Baldeweg, Yuhai Tu, Mark O. Cunningham, Miles A. Whittington

Journal:

Year:

2010

Language:

english

File:

PDF, 495 KB

english, 2010

37

Gene Expression Dynamics during Germinal Center Transit in B Cells

ULF KLEIN, YUHAI TU, GUSTAVO A. STOLOVITZKY, JEFFREY L. KELLER, JOSEPH HADDAD JR., VLADAN MILJKOVIC, GIORGIO CATTORETTI, ANDREA CALIFANO, RICCARDO DALLA-FAVERA

Journal:

Annals of the New York Academy of Sciences

Year:

2003

Language:

english

File:

PDF, 1.36 MB

english, 2003

38

Tracking CD40 Signaling during Normal Germinal Center Development by Gene Expression Profiling

KATIA BASSO, ULF KLEIN, HUIFENG NIU, GUSTAVO A. STOLOVITZKY, YUHAI TU, ANDREA CALIFANO, GIORGIO CATTORETTI, RICCARDO DALLA-FAVERA

Journal:

Annals of the New York Academy of Sciences

Year:

2003

Language:

english

File:

PDF, 162 KB

english, 2003

39

How robust is the Internet?

Journal:

Year:

2000

Language:

english

File:

PDF, 159 KB

english, 2000

40

Lateral density of receptor arrays in the membrane plane influences sensitivity of the E. coli chemotaxis response

Khursigara, Cezar M, Lan, Ganhui, Neumann, Silke, Wu, Xiongwu, Ravindran, Suchie, Borgnia, Mario J, Sourjik, Victor, Milne, Jacqueline, Tu, Yuhai, Subramaniam, Sriram

Journal:

The EMBO Journal

Year:

2011

Language:

english

File:

PDF, 1.73 MB

english, 2011

41

Perfect and Near-Perfect Adaptation in a Model of Bacterial Chemotaxis

Mello, Bernardo A., Tu, Yuhai

Journal:

Biophysical Journal

Year:

2003

Language:

english

File:

PDF, 238 KB

english, 2003

42

Ising Model of Cardiac Thin Filament Activation with Nearest-Neighbor Cooperative Interactions

Rice, John Jeremy, Stolovitzky, Gustavo, Tu, Yuhai, de Tombe, Pieter P.

Journal:

Biophysical Journal

Year:

2003

Language:

english

File:

PDF, 263 KB

english, 2003

43

A Mechanism for Precision-Sensing via a Gradient-Sensing Pathway: A Model of Escherichia coli Thermotaxis

Jiang, Lili, Ouyang, Qi, Tu, Yuhai

Journal:

Biophysical Journal

Year:

2009

Language:

english

File:

PDF, 422 KB

english, 2009

44

Tug of War: Dynamics of Bacterial Flagellar Motor with Multiple Stators

Journal:

Biophysical Journal

Year:

2010

Language:

english

File:

PDF, 85 KB

english, 2010

45

On Noise and Filtering in Adaptive Signaling Networks

Journal:

Biophysical Journal

Year:

2011

Language:

english

File:

PDF, 38 KB

english, 2011

46

Wave Propagation in Excitable Random Networks with Spatially Constrained Connections

Vladimirov, Nikita, Traub, Roger D., Tu, Yuhai

Journal:

Biophysical Journal

Year:

2011

Language:

english

File:

PDF, 54 KB

english, 2011

47

Dynamics of the Bacterial Flagellar Motor: The Effects of Stator Compliance, Back Steps, Temperature, and Rotational Asymmetry

Meacci, Giovanni, Lan, Ganhui, Tu, Yuhai

Journal:

Biophysical Journal

Year:

2011

Language:

english

File:

PDF, 1.33 MB

english, 2011

48

Tandem adaptation with a common design in Escherichia coli chemotaxis

Yuhai Tu, Howard C. Berg

Journal:

Journal of Molecular Biology

Year:

2012

Language:

english

File:

PDF, 427 KB

english, 2012

49

Effects of Adaptation in Maintaining High Sensitivity over a Wide Range of Backgrounds for Escherichia coli Chemotaxis

Mello, Bernardo A., Tu, Yuhai

Journal:

Biophysical Journal

Year:

2007

Language:

english

File:

PDF, 201 KB

english, 2007

50

Effects of Receptor Interaction in Bacterial Chemotaxis

Mello, Bernardo A., Shaw, Leah, Tu, Yuhai

Journal:

Biophysical Journal

Year:

2004

Language:

english

File:

PDF, 295 KB

english, 2004