A global sampler of single particle tracking solutions for single molecule microscopy


Autoři: Michael Hirsch aff001;  Richard Wareham aff002;  Ji W. Yoon aff003;  Daniel J. Rolfe aff001;  Laura C. Zanetti-Domingues aff001;  Michael P. Hobson aff004;  Peter J. Parker aff005;  Marisa L. Martin-Fernandez aff001;  Sumeetpal S. Singh aff002
Působiště autorů: Central Laser Facility, Science and Technologies Facilities Council, UK Research and Innovation, Didcot, Oxfordshire, United Kingdom aff001;  Department of Engineering, University of Cambridge, Cambridge, United Kingdom aff002;  Center for Information Security Technology, Korea University, Seoul, South Korea aff003;  Department of Physics, University of Cambridge, Cambridge, United Kingdom aff004;  School of Cancer and Pharmaceutical Sciences, King’s College London, London, United Kingdom aff005;  Protein Phosphorylation Laboratory, The Francis Crick Institute, London, United Kingdom aff006
Vyšlo v časopise: PLoS ONE 14(10)
Kategorie: Research Article
doi: 10.1371/journal.pone.0221865

Souhrn

The dependence on model-fitting to evaluate particle trajectories makes it difficult for single particle tracking (SPT) to resolve the heterogeneous molecular motions typical of cells. We present here a global spatiotemporal sampler for SPT solutions using a Metropolis-Hastings algorithm. The sampler does not find just the most likely solution but also assesses its likelihood and presents alternative solutions. This enables the estimation of the tracking error. Furthermore the algorithm samples the parameters that govern the tracking process and therefore does not require any tweaking by the user. We demonstrate the algorithm on synthetic and single molecule data sets. Metrics for the comparison of SPT are generalised to be applied to a SPT sampler. We illustrate using the example of the diffusion coefficient how the distribution of the tracking solutions can be propagated into a distribution of derived quantities. We also discuss the major challenges that are posed by the realisation of a SPT sampler.

Klíčová slova:

Algorithms – Kalman filter – Mass diffusivity – Motion – Probability density – Probability distribution – Random walk – Birth rates


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Článek vyšel v časopise

PLOS One


2019 Číslo 10