Semiparametric point process modeling of blinking artifacts in PALM

DOI10.1214/21-AOAS1553zbMATH Open1498.62226arXiv2101.12285OpenAlexW4286484512MaRDI QIDQ2170406FDOQ2170406

Authors: Louis G. Jensen, David J. Williamson, Ute Hahn 

Publication date: 5 September 2022

Published in: The Annals of Applied Statistics (Search for Journal in Brave)

Abstract: Photoactivated localization microscopy (PALM) is a powerful imaging technique for characterization of protein organization in biological cells. Due to the stochastic blinking of fluorescent probes, and camera discretization effects, each protein gives rise to a cluster of artificial observations. These blinking artifacts are an obstacle for quantitative analysis of PALM data, and tools for their correction are in high demand. We develop the Independent Blinking Cluster point process (IBCpp) family of models, which is suited for modeling of data from single-molecule localization microscopy modalities, and we present results on the mark correlation function. We then construct the PALM-IBCpp - a semiparametric IBCpp tailored for PALM data, and we describe a procedure for estimation of parameters, which can be used without parametric assumptions on the spatial organization of proteins. Our model is validated on nuclear pore complex reference data, where the ground truth was accurately recovered, and we demonstrate how the estimated blinking parameters can be used to perform a blinking corrected test for protein clustering in a cell expressing the adaptor protein LAT. Finally, we consider simulations with varying degrees of blinking and protein clustering to shed light on the expected performance in a range of realistic settings.

Full work available at URL: https://arxiv.org/abs/2101.12285

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zbMATH Keywords

moment-based estimationmark correlation functionmultiple blinkingphotoactivated localization microscopysecond-order characteristicsspatiotemporal point patterns

Mathematics Subject Classification ID

Inference from spatial processes (62M30) Applications of statistics to biology and medical sciences; meta analysis (62P10) Point processes (e.g., Poisson, Cox, Hawkes processes) (60G55)

Cites Work

• The second-order analysis of stationary point processes
• Global envelope tests for spatial processes
• An Introduction to the Theory of Point Processes
• On Correlations of Marked Point Processes
• Statistical molecule counting in super-resolution fluorescence microscopy: towards quantitative nanoscopy
• A hidden Markov model approach to characterizing the photo-switching behavior of fluorophores

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