Literature DB >> 23971739

Diagnosing heterogeneous dynamics in single-molecule/particle trajectories with multiscale wavelets.

Kejia Chen1, Bo Wang, Juan Guan, Steve Granick.   

Abstract

We describe a simple automated method to extract and quantify transient heterogeneous dynamical changes from large data sets generated in single-molecule/particle tracking experiments. Based on wavelet transform, the method transforms raw data to locally match dynamics of interest. This is accomplished using statistically adaptive universal thresholding, whose advantage is to avoid a single arbitrary threshold that might conceal individual variability across populations. How to implement this multiscale method is described, focusing on local confined diffusion separated by transient transport periods or hopping events, with three specific examples: in cell biology, biotechnology, and glassy colloid dynamics. The discussion is generalized within the framework of continuous time random walk. This computationally efficient method can run routinely on hundreds of millions of data points analyzed within an hour on a desktop personal computer.

Year:  2013        PMID: 23971739     DOI: 10.1021/nn402787a

Source DB:  PubMed          Journal:  ACS Nano        ISSN: 1936-0851            Impact factor:   15.881


  14 in total

1.  Energy landscape investigation by wavelet transform analysis of atomic force spectroscopy data in a biorecognition experiment.

Authors:  Anna Rita Bizzarri
Journal:  J Biol Phys       Date:  2015-08-14       Impact factor: 1.365

2.  Inferring diffusion dynamics from FCS in heterogeneous nuclear environments.

Authors:  Konstantinos Tsekouras; Amanda P Siegel; Richard N Day; Steve Pressé
Journal:  Biophys J       Date:  2015-07-07       Impact factor: 4.033

Review 3.  Seeing the unseen: Imaging rotation in cells with designer anisotropic particles.

Authors:  Yuan Gao; Yanqi Yu; Lucero Sanchez; Yan Yu
Journal:  Micron       Date:  2017-07-08       Impact factor: 2.251

4.  Memoryless self-reinforcing directionality in endosomal active transport within living cells.

Authors:  Kejia Chen; Bo Wang; Steve Granick
Journal:  Nat Mater       Date:  2015-03-30       Impact factor: 43.841

5.  Cargos Rotate at Microtubule Intersections during Intracellular Trafficking.

Authors:  Yuan Gao; Stephen M Anthony; Yanqi Yu; Yi Yi; Yan Yu
Journal:  Biophys J       Date:  2018-06-19       Impact factor: 4.033

6.  Segmentation of 3D Trajectories Acquired by TSUNAMI Microscope: An Application to EGFR Trafficking.

Authors:  Yen-Liang Liu; Evan P Perillo; Cong Liu; Peter Yu; Chao-Kai Chou; Mien-Chie Hung; Andrew K Dunn; Hsin-Chih Yeh
Journal:  Biophys J       Date:  2016-11-15       Impact factor: 4.033

7.  Hitching a Ride: Mechanics of Transport Initiation through Linker-Mediated Hitchhiking.

Authors:  Saurabh S Mogre; Jenna R Christensen; Cassandra S Niman; Samara L Reck-Peterson; Elena F Koslover
Journal:  Biophys J       Date:  2020-01-29       Impact factor: 4.033

8.  Inferring Latent States and Refining Force Estimates via Hierarchical Dirichlet Process Modeling in Single Particle Tracking Experiments.

Authors:  Christopher P Calderon; Kerry Bloom
Journal:  PLoS One       Date:  2015-09-18       Impact factor: 3.240

9.  Bayesian decision tree for the classification of the mode of motion in single-molecule trajectories.

Authors:  Silvan Türkcan; Jean-Baptiste Masson
Journal:  PLoS One       Date:  2013-12-20       Impact factor: 3.240

10.  Disentangling Random Motion and Flow in a Complex Medium.

Authors:  Elena F Koslover; Caleb K Chan; Julie A Theriot
Journal:  Biophys J       Date:  2016-02-02       Impact factor: 4.033

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