Inferring potential landscapes from noisy trajectories of particles within an optical feedback trap.
iScience 2022;
25:104731. [PMID:
36034218 PMCID:
PMC9400092 DOI:
10.1016/j.isci.2022.104731]
[Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/23/2022] [Revised: 06/27/2022] [Accepted: 07/02/2022] [Indexed: 11/22/2022] Open
Abstract
While particle trajectories encode information on their governing potentials, potentials can be challenging to robustly extract from trajectories. Measurement errors may corrupt a particle’s position, and sparse sampling of the potential limits data in higher energy regions such as barriers. We develop a Bayesian method to infer potentials from trajectories corrupted by Markovian measurement noise without assuming prior functional form on the potentials. As an alternative to Gaussian process priors over potentials, we introduce structured kernel interpolation to the Natural Sciences which allows us to extend our analysis to large datasets. Structured-Kernel-Interpolation Priors for Potential Energy Reconstruction (SKIPPER) is validated on 1D and 2D experimental trajectories for particles in a feedback trap.
A feedback trap was used to generate noisy Langevin microbead trajectories
The potential energy surface is recovered using a Bayesian formulation
The formulation uses a structured-kernel-interpolation Gaussian process (SKI-GP) to tractably approximate Gaussian process regression for larger datasets
Thanks to our adaptation of SKI-GP, we have broadened the use of Gaussian processes for natural science applications
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