A Primer on the Bayesian Approach to High-Density Single-Molecule Trajectories Analysis

被引:21
作者
El Beheiry, Mohamed [1 ,2 ,6 ]
Tuerkcan, Silvan [3 ]
Richly, Maximilian U. [4 ]
Triller, Antoine [5 ]
Alexandrou, Antigone [4 ]
Dahan, Maxime [1 ,2 ,7 ]
Masson, Jean-Baptiste [6 ,7 ]
机构
[1] PSL Res Univ, Inst Curie, Lab Physicochim, Paris, France
[2] Univ Paris 04, Dept Radiat Oncol, Paris, France
[3] Stanford Univ, Sch Med, Div Med Phys, Palo Alto, CA 94304 USA
[4] Univ Paris Saclay, Ecole Polytech, Lab Opt & Biosci, Palaiseau, France
[5] PSL Res Univ, Ecole Normale Super, Biol Cellulaire Synapse, Paris, France
[6] Inst Pasteur, Phys Biol Syst, Paris, France
[7] Howard Hughes Med Inst, Janelia Res Campus, Ashburn, VA USA
关键词
STOCHASTIC-PROCESSES; LIVING CELLS; INFERENCE; DIFFUSION; DYNAMICS; RECEPTORS; MEMBRANE; GEPHYRIN; PROTEINS; SYSTEMS;
D O I
10.1016/j.bpj.2016.01.018
中图分类号
Q6 [生物物理学];
学科分类号
071011 ;
摘要
Tracking single molecules in living cells provides invaluable information on their environment and on the interactions that underlie their motion. New experimental techniques now permit the recording of large amounts of individual trajectories, enabling the implementation of advanced statistical tools for data analysis. In this primer, we present a Bayesian approach toward treating these data, and we discuss how it can be fruitfully employed to infer physical and biochemical parameters from single-molecule trajectories.
引用
收藏
页码:1209 / 1215
页数:7
相关论文
共 36 条
[1]  
[Anonymous], 2002, Numerical Recipes in C++: The Art of Scientific Computing
[2]  
[Anonymous], 2003, HDB STOCHASTIC METHO
[3]  
[Anonymous], 2011, Bayesian time series models
[4]  
Bishop C.M., 2006, J ELECTRON IMAGING, V16, P049901, DOI DOI 10.1117/1.2819119
[5]   Objective comparison of particle tracking methods [J].
Chenouard, Nicolas ;
Smal, Ihor ;
de Chaumont, Fabrice ;
Maska, Martin ;
Sbalzarini, Ivo F. ;
Gong, Yuanhao ;
Cardinale, Janick ;
Carthel, Craig ;
Coraluppi, Stefano ;
Winter, Mark ;
Cohen, Andrew R. ;
Godinez, William J. ;
Rohr, Karl ;
Kalaidzidis, Yannis ;
Liang, Liang ;
Duncan, James ;
Shen, Hongying ;
Xu, Yingke ;
Magnusson, Klas E. G. ;
Jalden, Joakim ;
Blau, Helen M. ;
Paul-Gilloteaux, Perrine ;
Roudot, Philippe ;
Kervrann, Charles ;
Waharte, Francois ;
Tinevez, Jean-Yves ;
Shorte, Spencer L. ;
Willemse, Joost ;
Celler, Katherine ;
van Wezel, Gilles P. ;
Dan, Han-Wei ;
Tsai, Yuh-Show ;
Ortiz de Solorzano, Carlos ;
Olivo-Marin, Jean-Christophe ;
Meijering, Erik .
NATURE METHODS, 2014, 11 (03) :281-U247
[6]   The role of receptor diffusion in the organization of the postsynaptic membrane [J].
Choquet, D ;
Triller, A .
NATURE REVIEWS NEUROSCIENCE, 2003, 4 (04) :251-265
[7]   InferenceMAP: mapping of single-molecule dynamics with Bayesian inference [J].
El Beheiry, Mohamed ;
Dahan, Maxime ;
Masson, Jean-Baptiste .
NATURE METHODS, 2015, 12 (07) :594-595
[8]   Fluctuation-Dissipation Relation for Systems with Spatially Varying Friction [J].
Farago, Oded ;
Gronbech-Jensen, Niels .
JOURNAL OF STATISTICAL PHYSICS, 2014, 156 (06) :1093-1110
[9]   Langevin dynamics in inhomogeneous media: Re- examining the Ito-Stratonovich dilemma [J].
Farago, Oded ;
Gronbech-Jensen, Niels .
PHYSICAL REVIEW E, 2014, 89 (01)
[10]   STOCHASTIC CALCULUS IN PHYSICS [J].
FOX, RF .
JOURNAL OF STATISTICAL PHYSICS, 1987, 46 (5-6) :1145-1157