THE RANDOM WALKER Stochastic Mechano-Chemical Models for Motor Proteins Masters Thesis

[1]  S. Sastry,et al.  Towars a Theory of Stochastic Hybrid Systems , 2000, HSCC.

[2]  Christoph F. Schmidt,et al.  Direct observation of kinesin stepping by optical trapping interferometry , 1993, Nature.

[3]  G. Grimmett,et al.  Probability and random processes , 2002 .

[4]  E. Purcell Life at Low Reynolds Number , 2008 .

[5]  R. Vale,et al.  Kinesin Walks Hand-Over-Hand , 2004, Science.

[6]  Steven M Block,et al.  Kinesin motor mechanics: binding, stepping, tracking, gating, and limping. , 2007, Biophysical journal.

[7]  Sheldon M. Ross,et al.  Stochastic Processes , 2018, Gauge Integral Structures for Stochastic Calculus and Quantum Electrodynamics.

[8]  S. Leibler,et al.  Self-organization of microtubules and motors , 1997, Nature.

[9]  L. Breuer Introduction to Stochastic Processes , 2022, Statistical Methods for Climate Scientists.

[10]  Peter Hänggi,et al.  Introduction to the physics of Brownian motors , 2001 .

[11]  Steven M Block,et al.  Backsteps induced by nucleotide analogs suggest the front head of kinesin is gated by strain. , 2006, Proceedings of the National Academy of Sciences of the United States of America.

[12]  Roger Cooke,et al.  A structural change in the kinesin motor protein that drives motility , 1999, Nature.

[13]  Robert A Cross,et al.  The kinetic mechanism of kinesin. , 2004, Trends in biochemical sciences.

[14]  Polly M. Fordyce,et al.  Stepping and Stretching , 2003, The Journal of Biological Chemistry.

[15]  Bogdan I. Epureanu,et al.  Synchronization of Motor Proteins Coupled Through a Shared Load , 2006 .

[16]  A. Winfree Biological rhythms and the behavior of populations of coupled oscillators. , 1967, Journal of theoretical biology.

[17]  R. Cross,et al.  Mechanics of the kinesin step , 2005, Nature.

[18]  John Lygeros,et al.  Towars a Theory of Stochastic Hybrid Systems , 2000, HSCC.

[19]  Shin'ichi Ishiwata,et al.  Kinesin–microtubule binding depends on both nucleotide state and loading direction , 2002, Proceedings of the National Academy of Sciences of the United States of America.

[20]  L. Fauci,et al.  An integrative model of internal axoneme mechanics and external fluid dynamics in ciliary beating. , 2000, Journal of theoretical biology.

[21]  J. Griffiths The Theory of Stochastic Processes , 1967 .

[22]  F. Jülicher,et al.  Bidirectional cooperative motion of molecular motors , 2002, Proceedings of the National Academy of Sciences of the United States of America.

[23]  Tamás Vicsek,et al.  The Kinesin Walk: A Dynamic Model with Elastically Coupled Heads , 1996, German Conference on Bioinformatics.

[24]  Martin Bier,et al.  Brownian ratchets in physics and biology , 1997 .

[25]  Paul J Atzberger,et al.  A Brownian Dynamics Model of Kinesin in Three Dimensions Incorporating the Force-Extension Profile of the Coiled-Coil Cargo Tether , 2006, Bulletin of mathematical biology.

[26]  S. Strogatz,et al.  Synchronization of pulse-coupled biological oscillators , 1990 .

[27]  S. Strogatz From Kuramoto to Crawford: exploring the onset of synchronization in populations of coupled oscillators , 2000 .

[28]  Toshio Yanagida,et al.  Direct observation of single kinesin molecules moving along microtubules , 1996, Nature.

[29]  Samuel Karlin,et al.  A First Course on Stochastic Processes , 1968 .

[30]  A. Siegert On the First Passage Time Probability Problem , 1951 .

[31]  Joshua W. Shaevitz,et al.  Probing the kinesin reaction cycle with a 2D optical force clamp , 2003, Proceedings of the National Academy of Sciences of the United States of America.

[32]  F. Marchesoni,et al.  Brownian motors , 2004, cond-mat/0410033.

[33]  Susan P. Gilbert,et al.  Pathway of processive ATP hydrolysis by kinesin , 1995, Nature.

[34]  Kiyosi Itô,et al.  On stochastic processes (I) , 1941 .

[35]  Hong Qian,et al.  Single-molecule enzymology: stochastic Michaelis-Menten kinetics. , 2002, Biophysical chemistry.

[36]  J. Hespanha A model for stochastic hybrid systems with application to communication networks , 2005 .

[37]  A. Kolomeisky,et al.  Simple mechanochemistry describes the dynamics of kinesin molecules , 2001, Proceedings of the National Academy of Sciences of the United States of America.

[38]  G. Uhlenbeck,et al.  On the Theory of the Brownian Motion , 1930 .

[39]  C S Peskin,et al.  Coordinated hydrolysis explains the mechanical behavior of kinesin. , 1995, Biophysical journal.

[40]  R J Baskin,et al.  Structural changes in the neck linker of kinesin explain the load dependence of the motor's mechanical cycle. , 2001, Journal of theoretical biology.

[41]  Charles S. Peskin,et al.  Control of ovulation numbers in model of ovarian follicular maturation , 1981 .