Literature DB >> 3362853

Interrelations between random walks on diagrams (graphs) with and without cycles.

T L Hill1.   

Abstract

Three topics are discussed. A discrete-state, continuous-time random walk with one or more absorption states can be studied by a presumably new method: some mean properties, including the mean time to absorption, can be found from a modified diagram (graph) in which each absorption state is replaced by a one-way cycle back to the starting state. The second problem is a random walk on a diagram (graph) with cycles. The walk terminates on completion of the first cycle. This walk can be replaced by an equivalent walk on a modified diagram with absorption. This absorption diagram can in turn be replaced by another modified diagram with one-way cycles back to the starting state, just as in the first problem. The third problem, important in biophysics, relates to a long-time continuous walk on a diagram with cycles. This diagram can be transformed (in two steps) to a modified, more-detailed, diagram with one-way cycles only. Thus, the one-way cycle fluxes of the original diagram can be found from the state probabilities of the modified diagram. These probabilities can themselves be obtained by simple matrix inversion (the probabilities are determined by linear algebraic steady-state equations). Thus, a simple method is now available to find one-way cycle fluxes exactly (previously Monte Carlo simulation was required to find these fluxes, with attendant fluctuations, for diagrams of any complexity). An incidental benefit of the above procedure is that it provides a simple proof of the one-way cycle flux relation Jn +/- = IIn +/- sigma n/sigma, where n is any cycle of the original diagram.

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Year:  1988        PMID: 3362853      PMCID: PMC280106          DOI: 10.1073/pnas.85.9.2879

Source DB:  PubMed          Journal:  Proc Natl Acad Sci U S A        ISSN: 0027-8424            Impact factor:   11.205


  3 in total

1.  Stochastics of cycle completions (fluxes) in biochemical kinetic diagrams.

Authors:  T L Hill; Y D Chen
Journal:  Proc Natl Acad Sci U S A       Date:  1975-04       Impact factor: 11.205

2.  Markov chain as a model of Hill's theory on circulation.

Authors:  C Qian; M Qian; M P Qian
Journal:  Sci Sin       Date:  1981-10

3.  The frequency of cyclic processes in biological multistate systems.

Authors:  H H Kohler; E Vollmerhaus
Journal:  J Math Biol       Date:  1980-05       Impact factor: 2.259

  3 in total
  8 in total

Review 1.  Discrete-time random walks on diagrams (graphs) with cycles.

Authors:  T L Hill
Journal:  Proc Natl Acad Sci U S A       Date:  1988-08       Impact factor: 11.205

2.  Further properties of random walks on diagrams (graphs) with and without cycles.

Authors:  T L Hill
Journal:  Proc Natl Acad Sci U S A       Date:  1988-05       Impact factor: 11.205

3.  Number of visits to a state in a random walk, before absorption, and related topics.

Authors:  T L Hill
Journal:  Proc Natl Acad Sci U S A       Date:  1988-07       Impact factor: 11.205

4.  Processivity and Velocity for Motors Stepping on Periodic Tracks.

Authors:  Mauro L Mugnai; Matthew A Caporizzo; Yale E Goldman; D Thirumalai
Journal:  Biophys J       Date:  2020-02-25       Impact factor: 4.033

5.  How kinesin waits for ATP affects the nucleotide and load dependence of the stepping kinetics.

Authors:  Ryota Takaki; Mauro L Mugnai; Yonathan Goldtzvik; D Thirumalai
Journal:  Proc Natl Acad Sci U S A       Date:  2019-10-28       Impact factor: 11.205

6.  Cycle flux algebra for ion and water flux through the KcsA channel single-file pore links microscopic trajectories and macroscopic observables.

Authors:  Shigetoshi Oiki; Masayuki Iwamoto; Takashi Sumikama
Journal:  PLoS One       Date:  2011-01-31       Impact factor: 3.240

7.  Protein Synthesis in E. coli: Dependence of Codon-Specific Elongation on tRNA Concentration and Codon Usage.

Authors:  Sophia Rudorf; Reinhard Lipowsky
Journal:  PLoS One       Date:  2015-08-13       Impact factor: 3.240

8.  Chemomechanical regulation of myosin Ic cross-bridges: Deducing the elastic properties of an ensemble from single-molecule mechanisms.

Authors:  Florian Berger; A J Hudspeth
Journal:  PLoS Comput Biol       Date:  2017-05-26       Impact factor: 4.475

  8 in total

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