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1

Homogeneous nucleation and the Ostwald step rule

Rein ten Wolde, Pieter, Frenkel, Daan

Journal:

Physical Chemistry Chemical Physics

Year:

1999

Language:

english

File:

PDF, 205 KB

english, 1999

2

The intrinsic rate constants in diffusion-influenced reactions

Vijaykumar, Adithya, Bolhuis, Peter G, ten Wolde, Pieter Rein

Journal:

Faraday Discussions

Year:

2016

Language:

english

File:

PDF, 1.51 MB

english, 2016

3

Enhanced protein crystallization around the metastable critical point

Pieter Rein ten Wolde, Daan Frenkel

Journal:

Theoretical Chemistry Accounts: Theory, Computation, and Modeling (Theoretica Chimica Acta)

Year:

1999

Language:

english

File:

PDF, 188 KB

english, 1999

4

Biophysics: Pass on the message

Rein ten Wolde, Pieter, Tănase-Nicola, Sorin

Journal:

Year:

2006

Language:

english

File:

PDF, 171 KB

english, 2006

5

Numerical calculation of the rate of crystal nucleation in a Lennard-Jones system at moderate undercooling

Rein ten Wolde, Pieter, Ruiz-Montero, Maria J., Frenkel, Daan

Journal:

The Journal of Chemical Physics

Year:

1996

Language:

english

File:

PDF, 576 KB

english, 1996

6

Chance and necessity in chromosomal gene distributions

Rutger Hermsen, Pieter Rein ten Wolde, Sarah Teichmann

Journal:

Trends in Genetics

Year:

2008

Language:

english

File:

PDF, 463 KB

english, 2008

7

Signaling Noise Enhances Chemotactic Drift of E. coli

Flores, Marlo, Shimizu, Thomas S., ten Wolde, Pieter Rein, Tostevin, Filipe

Journal:

Physical Review Letters

Year:

2012

Language:

english

File:

PDF, 376 KB

english, 2012

8

Exact results for noise power spectra in linear biochemical reaction networks

Warren, Patrick B., Tănase-Nicola, Sorin, ten Wolde, Pieter Rein

Journal:

The Journal of Chemical Physics

Year:

2006

Language:

english

File:

PDF, 405 KB

english, 2006

9

Shaping a Morphogen Gradient for Positional Precision

He, Feng, Saunders, Timothy E., Wen, Ying, Cheung, David, Jiao, Renjie, Rein ten Wolde, Pieter, Howard, Martin, Ma, Jun

Journal:

Biophysical Journal

Year:

2010

Language:

english

File:

PDF, 543 KB

english, 2010

10

Providing Positional Information with Active Transport on Dynamic Microtubules

Tischer, Christian, ten Wolde, Pieter Rein, Dogterom, Marileen

Journal:

Biophysical Journal

Year:

2010

Language:

english

File:

PDF, 495 KB

english, 2010

11

Effects of Macromolecular Crowding on Genetic Networks

Morelli, Marco J., Allen, Rosalind J., Rein ten Wolde, Pieter

Journal:

Biophysical Journal

Year:

2011

Language:

english

File:

PDF, 255 KB

english, 2011

12

Membrane Clustering and the Role of Rebinding in Biochemical Signaling

Mugler, Andrew, Bailey, Aimee Gotway, Takahashi, Koichi, Rein ten Wolde, Pieter

Journal:

Biophysical Journal

Year:

2012

Language:

english

File:

PDF, 578 KB

english, 2012

13

Protein Logic: A Statistical Mechanical Study of Signal Integration at the Single-Molecule Level

de Ronde, Wiet, Rein ten Wolde, Pieter, Mugler, Andrew

Journal:

Biophysical Journal

Year:

2012

Language:

english

File:

PDF, 2.24 MB

english, 2012

14

Diffusion of Transcription Factors Can Drastically Enhance the Noise in Gene Expression

van Zon, Jeroen S., Morelli, Marco J., Tǎnase-Nicola, Sorin, ten Wolde, Pieter Rein

Journal:

Biophysical Journal

Year:

2006

Language:

english

File:

PDF, 656 KB

english, 2006

15

Reaction Coordinates for the Flipping of Genetic Switches

Morelli, Marco J., Tănase-Nicola, Sorin, Allen, Rosalind J., ten Wolde, Pieter Rein

Journal:

Biophysical Journal

Year:

2008

Language:

english

File:

PDF, 569 KB

english, 2008

16

Computer simulation study of gas–liquid nucleation in a Lennard-Jones system

ten Wolde, Pieter Rein, Frenkel, Daan

Journal:

The Journal of Chemical Physics

Year:

1998

Language:

english

File:

PDF, 591 KB

english, 1998

17

Green’s-function reaction dynamics: A particle-based approach for simulating biochemical networks in time and space

van Zon, Jeroen S., ten Wolde, Pieter Rein

Journal:

The Journal of Chemical Physics

Year:

2005

Language:

english

File:

PDF, 563 KB

english, 2005

18

Homogeneous nucleation under shear in a two-dimensional Ising model: Cluster growth, coalescence, and breakup

Allen, Rosalind J., Valeriani, Chantal, Tănase-Nicola, Sorin, ten Wolde, Pieter Rein, Frenkel, Daan

Journal:

The Journal of Chemical Physics

Year:

2008

Language:

english

File:

PDF, 978 KB

english, 2008

19

Interplay between Structure and Size in a Critical Crystal Nucleus

Moroni, Daniele, ten Wolde, Pieter Rein, Bolhuis, Peter G.

Journal:

Physical Review Letters

Year:

2005

Language:

english

File:

PDF, 442 KB

english, 2005

20

Coil-Globule Transition in Gas-Liquid Nucleation of Polar Fluids

Rein ten Wolde, Pieter, Oxtoby, David W., Frenkel, Daan

Journal:

Physical Review Letters

Year:

1998

Language:

english

File:

PDF, 827 KB

english, 1998

21

Chain formation in homogeneous gas–liquid nucleation of polar fluids

Rein ten Wolde, Pieter, Oxtoby, David W., Frenkel, Daan

Journal:

The Journal of Chemical Physics

Year:

1999

Language:

english

File:

PDF, 424 KB

english, 1999

22

The Berg-Purcell Limit Revisited

Kaizu, Kazunari, de Ronde, Wiet, Paijmans, Joris, Takahashi, Koichi, Tostevin, Filipe, ten Wolde, Pieter Rein

Journal:

Biophysical Journal

Year:

2014

Language:

english

File:

PDF, 402 KB

english, 2014

23

The Robust Ticking of a Circadian Clock

ten Wolde, Pieter Rein

Journal:

Biophysical Journal

Year:

2011

Language:

english

File:

PDF, 32 KB

english, 2011

24

Direct Measurement of the Pressure Generated by a 1D Protein Gas Confined within Microtubule Overlaps

Lüdecke, Annemarie, Lansky, Zdenek, Braun, Marcus, Schlierf, Michael, Rein ten Wolde, Pieter, Jansen, Marcel E., Diez, Stefan

Journal:

Biophysical Journal

Year:

2014

Language:

english

File:

PDF, 47 KB

english, 2014

25

Multiplexing oscillatory biochemical signals

de Ronde, Wiet, Wolde, Pieter Rein ten

Journal:

Physical Biology

Year:

2014

Language:

english

File:

PDF, 832 KB

english, 2014

26

Simulating Biochemical Networks at the Particle Level and in Time and Space: Green’s Function Reaction Dynamics

van Zon, Jeroen S., ten Wolde, Pieter Rein

Journal:

Physical Review Letters

Year:

2005

Language:

english

File:

PDF, 144 KB

english, 2005

27

Chemical Models of Genetic Toggle Switches †

Warren, Patrick B., ten Wolde, Pieter Rein

Journal:

Journal of Physical Chemistry B

Year:

2005

Language:

english

File:

PDF, 255 KB

english, 2005

28

Lower bound on the precision of transcriptional regulation and why facilitated diffusion can reduce noise in gene expression

Paijmans, Joris, ten Wolde, Pieter Rein

Journal:

Physical Review E

Year:

2014

Language:

english

File:

PDF, 507 KB

english, 2014

29

Effect of feedback on the fidelity of information transmission of time-varying signals

de Ronde, Wiet Hendrik, Tostevin, Filipe, ten Wolde, Pieter Rein

Journal:

Physical Review E

Year:

2010

Language:

english

File:

PDF, 746 KB

english, 2010

30

Numerical study of gas–liquid nucleation in partially miscible binary mixtures

ten Wolde, Pieter Rein, Frenkel, Daan

Journal:

The Journal of Chemical Physics

Year:

1998

Language:

english

File:

PDF, 321 KB

english, 1998

31

Simulation of homogeneous crystal nucleation close to coexistence

ten Wolde, Pieter-Rein, Ruiz-Montero, Maria J., Frenkel, Daan

Journal:

Faraday Discussions

Year:

1996

Language:

english

File:

PDF, 1.29 MB

english, 1996

32

The Robustness of Proofreading to Crowding-Induced Pseudo-Processivity in the MAPK Pathway

Ouldridge, Thomas E., Rein ten Wolde, Pieter

Journal:

Biophysical Journal

Year:

2014

Language:

english

File:

PDF, 760 KB

english, 2014

33

Model of a fluid at small and large length scales and the hydrophobic effect

Rein ten Wolde, Pieter, Sun, Sean X., Chandler, David

Journal:

Physical Review E

Year:

2001

Language:

english

File:

PDF, 200 KB

english, 2001

34

Signal Detection, Modularity, and the Correlation between Extrinsic and Intrinsic Noise in Biochemical Networks

Tănase-Nicola, Sorin, Warren, Patrick B., ten Wolde, Pieter Rein

Journal:

Physical Review Letters

Year:

2006

Language:

english

File:

PDF, 152 KB

english, 2006

35

Forward flux sampling-type schemes for simulating rare events: Efficiency analysis

Allen, Rosalind J., Frenkel, Daan, ten Wolde, Pieter Rein

Journal:

The Journal of Chemical Physics

Year:

2006

Language:

english

File:

PDF, 530 KB

english, 2006

36

Rare switching events in non-stationary systems

Becker, Nils B., Rein ten Wolde, Pieter

Journal:

The Journal of Chemical Physics

Year:

2012

Language:

english

File:

PDF, 916 KB

english, 2012

37

Reliability of Frequency and Amplitude Decoding in Gene Regulation

Tostevin, Filipe, de Ronde, Wiet, ten Wolde, Pieter Rein

Journal:

Physical Review Letters

Year:

2012

Language:

english

File:

PDF, 431 KB

english, 2012

38

Numerical Evidence for bcc Ordering at the Surface of a Critical fcc Nucleus

ten Wolde, Pieter Rein, Ruiz-Montero, Maria J., Frenkel, Daan

Journal:

Physical Review Letters

Year:

1995

Language:

english

File:

PDF, 225 KB

english, 1995

39

Multiplexing Biochemical Signals

de Ronde, Wiet, Tostevin, Filipe, ten Wolde, Pieter Rein

Journal:

Physical Review Letters

Year:

2011

Language:

english

File:

PDF, 417 KB

english, 2011

40

Role of Spatial Averaging in the Precision of Gene Expression Patterns

Erdmann, Thorsten, Howard, Martin, ten Wolde, Pieter Rein

Journal:

Physical Review Letters

Year:

2009

Language:

english

File:

PDF, 383 KB

english, 2009

41

Non-stationary forward flux sampling

Becker, Nils B., Allen, Rosalind J., ten Wolde, Pieter Rein

Journal:

The Journal of Chemical Physics

Year:

2012

Language:

english

File:

PDF, 1.61 MB

english, 2012

42

Fundamental Limits on Sensing Chemical Concentrations with Linear Biochemical Networks

Govern, Christopher C., ten Wolde, Pieter Rein

Journal:

Physical Review Letters

Year:

2012

Language:

english

File:

PDF, 188 KB

english, 2012

43

Numerical calculation of the rate of homogeneous gas–liquid nucleation in a Lennard-Jones system

ten Wolde, Pieter Rein, Ruiz-Montero, Maria J., Frenkel, Daan

Journal:

The Journal of Chemical Physics

Year:

1999

Language:

english

File:

PDF, 427 KB

english, 1999

44

Mutual Information between Input and Output Trajectories of Biochemical Networks

Tostevin, Filipe, ten Wolde, Pieter Rein

Journal:

Physical Review Letters

Year:

2009

Language:

english

File:

PDF, 161 KB

english, 2009

45

Optimal resource allocation in cellular sensing systems

Govern, Christopher C., ten Wolde, Pieter Rein

Journal:

Proceedings of the National Academy of Sciences

Year:

2014

Language:

english

File:

PDF, 873 KB

english, 2014

46

Simulating rare events in equilibrium or nonequilibrium stochastic systems

Allen, Rosalind J., Frenkel, Daan, ten Wolde, Pieter Rein

Journal:

The Journal of Chemical Physics

Year:

2006

Language:

english

File:

PDF, 527 KB

english, 2006

47

Finding the Center Reliably: Robust Patterns of Developmental Gene Expression

Howard, Martin, Rein ten Wolde, Pieter

Journal:

Physical Review Letters

Year:

2005

Language:

english

File:

PDF, 572 KB

english, 2005

48

Mutual information in time-varying biochemical systems

Tostevin, Filipe, ten Wolde, Pieter Rein

Journal:

Physical Review E

Year:

2010

Language:

english

File:

PDF, 234 KB

english, 2010

49

Enhancement of the Stability of Genetic Switches by Overlapping Upstream Regulatory Domains

Warren, Patrick B., ten Wolde, Pieter Rein

Journal:

Physical Review Letters

Year:

2004

Language:

english

File:

PDF, 177 KB

english, 2004

50

Sampling Rare Switching Events in Biochemical Networks

Allen, Rosalind J., Warren, Patrick B., ten Wolde, Pieter Rein

Journal:

Physical Review Letters

Year:

2005

Language:

english

File:

PDF, 137 KB

english, 2005