A survey on applications of deep learning in microscopy image analysis

Z Liu, L **, J Chen, Q Fang, S Ablameyko, Z Yin… - Computers in biology …, 2021 - Elsevier
Advanced microscopy enables us to acquire quantities of time-lapse images to visualize the
dynamic characteristics of tissues, cells or molecules. Microscopy images typically vary in …

[HTML][HTML] A bird's-eye view of deep learning in bioimage analysis

E Meijering - Computational and structural biotechnology journal, 2020 - Elsevier
Deep learning of artificial neural networks has become the de facto standard approach to
solving data analysis problems in virtually all fields of science and engineering. Also in …

Deep learning enables fast and dense single-molecule localization with high accuracy

A Speiser, LR Müller, P Hoess, U Matti, CJ Obara… - Nature …, 2021 - nature.com
Single-molecule localization microscopy (SMLM) has had remarkable success in imaging
cellular structures with nanometer resolution, but standard analysis algorithms require …

DeepSTORM3D: dense 3D localization microscopy and PSF design by deep learning

E Nehme, D Freedman, R Gordon, B Ferdman… - Nature …, 2020 - nature.com
An outstanding challenge in single-molecule localization microscopy is the accurate and
precise localization of individual point emitters in three dimensions in densely labeled …

Quantitative digital microscopy with deep learning

B Midtvedt, S Helgadottir, A Argun, J Pineda… - Applied Physics …, 2021 - pubs.aip.org
Video microscopy has a long history of providing insight and breakthroughs for a broad
range of disciplines, from physics to biology. Image analysis to extract quantitative …

Six-dimensional single-molecule imaging with isotropic resolution using a multi-view reflector microscope

O Zhang, Z Guo, Y He, T Wu, MD Vahey, MD Lew - Nature photonics, 2023 - nature.com
Imaging of both the positions and orientations of single fluorophores, termed single-
molecule orientation-localization microscopy, is a powerful tool for the study of biochemical …

Deep learning in single-molecule microscopy: fundamentals, caveats, and recent developments

L Möckl, AR Roy, WE Moerner - Biomedical optics express, 2020 - opg.optica.org
Deep learning-based data analysis methods have gained considerable attention in all fields
of science over the last decade. In recent years, this trend has reached the single-molecule …

Optofluidic imaging meets deep learning: from merging to emerging

DMD Siu, KCM Lee, BMF Chung, JSJ Wong, G Zheng… - Lab on a Chip, 2023 - pubs.rsc.org
Propelled by the striking advances in optical microscopy and deep learning (DL), the role of
imaging in lab-on-a-chip has dramatically been transformed from a silo inspection tool to a …

Machine-learning-powered extraction of molecular diffusivity from single-molecule images for super-resolution map**

HH Park, B Wang, S Moon, T Jepson, K Xu - Communications Biology, 2023 - nature.com
While critical to biological processes, molecular diffusion is difficult to quantify, and spatial
map** of local diffusivity is even more challenging. Here we report a machine-learning …

CycleGAN with a blur kernel for deconvolution microscopy: Optimal transport geometry

S Lim, H Park, SE Lee, S Chang… - IEEE Transactions on …, 2020 - ieeexplore.ieee.org
Deconvolution microscopy has been extensively used to improve the resolution of the wide-
field fluorescent microscopy, but the performance of classical approaches critically depends …