Dividing organelle tracks into Brownian and motor-driven intervals by variational maximization of the Bayesian evidence

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• 作者：Matthew J. Martin ; Amanda M. Smelser ; George Holzwarth
• 关键词：Particle tracking ; Mean ; squared ; displacement ; Variational Bayes ; Hidden Markov model ; Gaussian mixture model
• 刊名：European Biophysics Journal
• 出版年：2016
• 出版时间：April 2016
• 年：2016
• 卷：45
• 期：3
• 页码：269-277
• 全文大小：2,204 KB
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• 作者单位：Matthew J. Martin (1)
  Amanda M. Smelser (1) (2)
  George Holzwarth (1)
  
  1. Department of Physics, Wake Forest University, Winston-Salem, NC, USA
  2. Department of Biochemistry, School of Medicine, Wake Forest University, Winston-Salem, NC, USA
  
• 刊物类别：Physics and Astronomy
• 刊物主题：Physics
  Biophysics and Biomedical Physics
  Cell Biology
  Biochemistry
  Plant Physiology
  Animal Physiology
  Neurobiology
  
• 出版者：Springer Berlin / Heidelberg
• ISSN：1432-1017

文摘

Many organelles and vesicles in live cells move in a start–stop manner when observed for ~10 s by optical microscopy. Changes in velocity and directional persistence of such particles are a potentially rich source of insight into the mechanisms leading to the start and stop states. Unbiased assessment of the most probable number of states, the properties of each state, and the most probable state for the particle at each moment can be accomplished by variational Bayesian methods combined with a hidden Markov model and a Gaussian mixture model. Our track analysis method, “vbTRACK”, applied this combination of methods to particle velocity v or changes in the direction of travel evaluated from simulated tracks and from tracks of peroxisomes in live cells. When tested with numerical data, vbTRACK reliably determined the number of states, the mean and variance of the velocity or the direction of travel for each state, and the most probable state during each frame. When applied to the tracks of peroxisomes in live cells, some tracks separated into two states, one with high velocity and directionality, the other approximately Brownian. Other tracks of particles in live cells separated into several diffusive states with distinct diffusion constants.