Literature DB >> 27028631

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

Mohamed El Beheiry1, Silvan Türkcan2, Maximilian U Richly3, Antoine Triller4, Antigone Alexandrou3, Maxime Dahan5, Jean-Baptiste Masson6.   

Abstract

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.
Copyright © 2016 Biophysical Society. Published by Elsevier Inc. All rights reserved.

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Year:  2016        PMID: 27028631      PMCID: PMC4816684          DOI: 10.1016/j.bpj.2016.01.018

Source DB:  PubMed          Journal:  Biophys J        ISSN: 0006-3495            Impact factor:   4.033


  22 in total

1.  A Bayesian inference scheme to extract diffusivity and potential fields from confined single-molecule trajectories.

Authors:  Silvan Türkcan; Antigoni Alexandrou; Jean-Baptiste Masson
Journal:  Biophys J       Date:  2012-05-15       Impact factor: 4.033

2.  Observing the confinement potential of bacterial pore-forming toxin receptors inside rafts with nonblinking Eu(3+)-doped oxide nanoparticles.

Authors:  Silvan Türkcan; Jean-Baptiste Masson; Didier Casanova; Geneviève Mialon; Thierry Gacoin; Jean-Pierre Boilot; Michel R Popoff; Antigoni Alexandrou
Journal:  Biophys J       Date:  2012-05-15       Impact factor: 4.033

Review 3.  Probing cellular events, one quantum dot at a time.

Authors:  Fabien Pinaud; Samuel Clarke; Assa Sittner; Maxime Dahan
Journal:  Nat Methods       Date:  2010-03-30       Impact factor: 28.547

4.  High-density mapping of single-molecule trajectories with photoactivated localization microscopy.

Authors:  Suliana Manley; Jennifer M Gillette; George H Patterson; Hari Shroff; Harald F Hess; Eric Betzig; Jennifer Lippincott-Schwartz
Journal:  Nat Methods       Date:  2008-01-13       Impact factor: 28.547

5.  Langevin dynamics in inhomogeneous media: re-examining the Itô-Stratonovich dilemma.

Authors:  Oded Farago; Niels Grønbech-Jensen
Journal:  Phys Rev E Stat Nonlin Soft Matter Phys       Date:  2014-01-06

6.  Mapping the energy and diffusion landscapes of membrane proteins at the cell surface using high-density single-molecule imaging and Bayesian inference: application to the multiscale dynamics of glycine receptors in the neuronal membrane.

Authors:  Jean-Baptiste Masson; Patrice Dionne; Charlotte Salvatico; Marianne Renner; Christian G Specht; Antoine Triller; Maxime Dahan
Journal:  Biophys J       Date:  2014-01-07       Impact factor: 4.033

Review 7.  Tracking single molecules at work in living cells.

Authors:  Akihiro Kusumi; Taka A Tsunoyama; Kohichiro M Hirosawa; Rinshi S Kasai; Takahiro K Fujiwara
Journal:  Nat Chem Biol       Date:  2014-07       Impact factor: 15.040

Review 8.  Gephyrin: a master regulator of neuronal function?

Authors:  Shiva K Tyagarajan; Jean-Marc Fritschy
Journal:  Nat Rev Neurosci       Date:  2014-03       Impact factor: 34.870

9.  Objective comparison of particle tracking methods.

Authors:  Nicolas Chenouard; Ihor Smal; Fabrice de Chaumont; Martin Maška; Ivo F Sbalzarini; Yuanhao Gong; Janick Cardinale; Craig Carthel; Stefano Coraluppi; Mark Winter; Andrew R Cohen; William J Godinez; Karl Rohr; Yannis Kalaidzidis; Liang Liang; James Duncan; Hongying Shen; Yingke Xu; Klas E G Magnusson; Joakim Jaldén; Helen M Blau; Perrine Paul-Gilloteaux; Philippe Roudot; Charles Kervrann; François Waharte; Jean-Yves Tinevez; Spencer L Shorte; Joost Willemse; Katherine Celler; Gilles P van Wezel; Han-Wei Dan; Yuh-Show Tsai; Carlos Ortiz de Solórzano; Jean-Christophe Olivo-Marin; Erik Meijering
Journal:  Nat Methods       Date:  2014-01-19       Impact factor: 28.547

10.  Probing membrane protein interactions with their lipid raft environment using single-molecule tracking and Bayesian inference analysis.

Authors:  Silvan Türkcan; Maximilian U Richly; Antigoni Alexandrou; Jean-Baptiste Masson
Journal:  PLoS One       Date:  2013-01-03       Impact factor: 3.240

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  6 in total

1.  Variational Algorithms for Analyzing Noisy Multistate Diffusion Trajectories.

Authors:  Martin Lindén; Johan Elf
Journal:  Biophys J       Date:  2018-06-21       Impact factor: 4.033

2.  Errors in Energy Landscapes Measured with Particle Tracking.

Authors:  Michał J Bogdan; Thierry Savin
Journal:  Biophys J       Date:  2018-07-03       Impact factor: 4.033

Review 3.  Bayesian Inference: The Comprehensive Approach to Analyzing Single-Molecule Experiments.

Authors:  Colin D Kinz-Thompson; Korak Kumar Ray; Ruben L Gonzalez
Journal:  Annu Rev Biophys       Date:  2021-02-03       Impact factor: 12.981

4.  SMAUG: Analyzing single-molecule tracks with nonparametric Bayesian statistics.

Authors:  Joshua D Karslake; Eric D Donarski; Sarah A Shelby; Lucas M Demey; Victor J DiRita; Sarah L Veatch; Julie S Biteen
Journal:  Methods       Date:  2020-04-02       Impact factor: 4.647

Review 5.  Monitoring HIV-1 Assembly in Living Cells: Insights from Dynamic and Single Molecule Microscopy.

Authors:  Kaushik Inamdar; Charlotte Floderer; Cyril Favard; Delphine Muriaux
Journal:  Viruses       Date:  2019-01-16       Impact factor: 5.048

6.  Single molecule localisation microscopy reveals how HIV-1 Gag proteins sense membrane virus assembly sites in living host CD4 T cells.

Authors:  Charlotte Floderer; Jean-Baptiste Masson; Elise Boilley; Sonia Georgeault; Peggy Merida; Mohamed El Beheiry; Maxime Dahan; Philippe Roingeard; Jean-Baptiste Sibarita; Cyril Favard; Delphine Muriaux
Journal:  Sci Rep       Date:  2018-11-02       Impact factor: 4.379

  6 in total

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