Literature DB >> 25009825

Statistics and Related Topics in Single-Molecule Biophysics.

Hong Qian1, S C Kou2.   

Abstract

Since the universal acceptance of atoms and molecules as the fundamental constituents of matter in the early twentieth century, molecular physics, chemistry and molecular biology have all experienced major theoretical breakthroughs. To be able to actually "see" biological macromolecules, one at a time in action, one has to wait until the 1970s. Since then the field of single-molecule biophysics has witnessed extensive growth both in experiments and theory. A distinct feature of single-molecule biophysics is that the motions and interactions of molecules and the transformation of molecular species are necessarily described in the language of stochastic processes, whether one investigates equilibrium or nonequilibrium living behavior. For laboratory measurements following a biological process, if it is sampled over time on individual participating molecules, then the analysis of experimental data naturally calls for the inference of stochastic processes. The theoretical and experimental developments of single-molecule biophysics thus present interesting questions and unique opportunity for applied statisticians and probabilists. In this article, we review some important statistical developments in connection to single-molecule biophysics, emphasizing the application of stochastic-process theory and the statistical questions arising from modeling and analyzing experimental data.

Entities:  

Year:  2014        PMID: 25009825      PMCID: PMC4084599          DOI: 10.1146/annurev-statistics-022513-115535

Source DB:  PubMed          Journal:  Annu Rev Stat Appl        ISSN: 2326-8298            Impact factor:   5.810


  52 in total

1.  A mathematical analysis for the Brownian dynamics of a DNA tether.

Authors:  H Qian
Journal:  J Math Biol       Date:  2000-10       Impact factor: 2.259

2.  Single-molecule enzymology: stochastic Michaelis-Menten kinetics.

Authors:  Hong Qian; Elliot L Elson
Journal:  Biophys Chem       Date:  2002-12-10       Impact factor: 2.352

3.  Fluorescence correlation spectroscopy with high-order and dual-color correlation to probe nonequilibrium steady states.

Authors:  Hong Qian; Elliot L Elson
Journal:  Proc Natl Acad Sci U S A       Date:  2004-02-17       Impact factor: 11.205

4.  Analytical tools to distinguish the effects of localization error, confinement, and medium elasticity on the velocity autocorrelation function.

Authors:  Stephanie C Weber; Michael A Thompson; W E Moerner; Andrew J Spakowitz; Julie A Theriot
Journal:  Biophys J       Date:  2012-06-05       Impact factor: 4.033

5.  On the statistics of fluorescence correlation spectroscopy.

Authors:  H Qian
Journal:  Biophys Chem       Date:  1990-10       Impact factor: 2.352

6.  Three detailed fluctuation theorems.

Authors:  Massimiliano Esposito; Christian Van den Broeck
Journal:  Phys Rev Lett       Date:  2010-03-01       Impact factor: 9.161

7.  Ever-fluctuating single enzyme molecules: Michaelis-Menten equation revisited.

Authors:  Brian P English; Wei Min; Antoine M van Oijen; Kang Taek Lee; Guobin Luo; Hongye Sun; Binny J Cherayil; S C Kou; X Sunney Xie
Journal:  Nat Chem Biol       Date:  2005-12-25       Impact factor: 15.040

8.  The nonequilibrium mechanism for ultrasensitivity in a biological switch: sensing by Maxwell's demons.

Authors:  Yuhai Tu
Journal:  Proc Natl Acad Sci U S A       Date:  2008-08-07       Impact factor: 11.205

9.  Idealizing ion channel recordings by a jump segmentation multiresolution filter.

Authors:  Thomas Hotz; Ole M Schütte; Hannes Sieling; Tatjana Polupanow; Ulf Diederichsen; Claudia Steinem; Axel Munk
Journal:  IEEE Trans Nanobioscience       Date:  2013-12       Impact factor: 2.935

10.  The one-dimensional diffusion coefficient of proteins absorbed on DNA. Hydrodynamic considerations.

Authors:  J M Schurr
Journal:  Biophys Chem       Date:  1979-05       Impact factor: 2.352

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  8 in total

1.  Analyzing Single-Molecule Protein Transportation Experiments via Hierarchical Hidden Markov Models.

Authors:  Yang Chen; Kuang Shen; Shu-Ou Shan; S C Kou
Journal:  J Am Stat Assoc       Date:  2016-10-18       Impact factor: 5.033

2.  Cascading MutS and MutL sliding clamps control DNA diffusion to activate mismatch repair.

Authors:  Jiaquan Liu; Jeungphill Hanne; Brooke M Britton; Jared Bennett; Daehyung Kim; Jong-Bong Lee; Richard Fishel
Journal:  Nature       Date:  2016-11-16       Impact factor: 49.962

3.  Quantifying the flux as the driving force for nonequilibrium dynamics and thermodynamics in non-Michaelis-Menten enzyme kinetics.

Authors:  Qiong Liu; Jin Wang
Journal:  Proc Natl Acad Sci U S A       Date:  2019-12-26       Impact factor: 11.205

4.  Stochastic dynamic study of optical transition properties of single GFP-like molecules.

Authors:  Hanbing Lin; Jian-Min Yuan
Journal:  J Biol Phys       Date:  2016-02-03       Impact factor: 1.365

5.  Stepwise Signal Extraction via Marginal Likelihood.

Authors:  Chao Du; Chu-Lan Michael Kao; S C Kou
Journal:  J Am Stat Assoc       Date:  2015-02-06       Impact factor: 5.033

6.  Stochasticity in Single-Entity Electrochemistry.

Authors:  Hang Ren; Martin A Edwards
Journal:  Curr Opin Electrochem       Date:  2020-09-06

7.  Quantum Modeling: A Bridge between the Pumping and Signaling Functions of Na/K-ATPase.

Authors:  Weiguang Wang; Joseph I Shapiro
Journal:  Int J Mol Sci       Date:  2018-08-09       Impact factor: 5.923

8.  Statistical analysis of ENDOR spectra.

Authors:  Yvo Pokern; Benjamin Eltzner; Stephan F Huckemann; Clemens Beeken; JoAnne Stubbe; Igor Tkach; Marina Bennati; Markus Hiller
Journal:  Proc Natl Acad Sci U S A       Date:  2021-07-06       Impact factor: 11.205

  8 in total

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