Force spectroscopy of single cells using atomic force microscopy

Nature Reviews Methods Primers, Journal Year: 2021, Volume and Issue: 1(1)

Published: Sept. 23, 2021

Language: Английский

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Real-time denoising enables high-sensitivity fluorescence time-lapse imaging beyond the shot-noise limit

Nature Biotechnology, Journal Year: 2022, Volume and Issue: 41(2), P. 282 - 292

Published: Sept. 26, 2022

Abstract A fundamental challenge in fluorescence microscopy is the photon shot noise arising from inevitable stochasticity of detection. Noise increases measurement uncertainty and limits imaging resolution, speed sensitivity. To achieve high-sensitivity beyond shot-noise limit, we present DeepCAD-RT, a self-supervised deep learning method for real-time suppression. Based on our previous framework DeepCAD, reduced number network parameters by 94%, memory consumption 27-fold processing time factor 20, allowing two-photon microscope. high signal-to-noise ratio can be acquired with tenfold fewer photons than standard approaches. We demonstrate utility DeepCAD-RT series photon-limited experiments, including vivo calcium mice, zebrafish larva fruit flies, recording three-dimensional (3D) migration neutrophils after acute brain injury 3D dynamics cortical ATP release. will facilitate morphological functional interrogation biological minimal budget.

Language: Английский

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The Cell Tracking Challenge: 10 years of objective benchmarking

Nature Methods, Journal Year: 2023, Volume and Issue: 20(7), P. 1010 - 1020

Published: May 18, 2023

Abstract The Cell Tracking Challenge is an ongoing benchmarking initiative that has become a reference in cell segmentation and tracking algorithm development. Here, we present significant number of improvements introduced the challenge since our 2017 report. These include creation new segmentation-only benchmark, enrichment dataset repository with datasets increase its diversity complexity, silver standard corpus based on most competitive results, which will be particular interest for data-hungry deep learning-based strategies. Furthermore, up-to-date leaderboards, in-depth analysis relationship between performance state-of-the-art methods properties annotations, two novel, insightful studies about generalizability reusability top-performing methods. provide critical practical conclusions both developers users traditional machine algorithms.

Language: Английский

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Paleoproteomics

Chemical Reviews, Journal Year: 2022, Volume and Issue: 122(16), P. 13401 - 13446

Published: July 15, 2022

Paleoproteomics, the study of ancient proteins, is a rapidly growing field at intersection molecular biology, paleontology, archaeology, paleoecology, and history. Paleoproteomics research leverages longevity diversity proteins to explore fundamental questions about past. While its origins predate characterization DNA, it was only with advent soft ionization mass spectrometry that became truly feasible. Technological gains over past 20 years have allowed increasing opportunities better understand preservation, degradation, recovery rich bioarchive found in archaeological paleontological records. Growing from handful studies 1990s on individual highly abundant paleoproteomics today an expanding diverse applications ranging taxonomic identification fragmented bones shells phylogenetic resolution extinct species exploration cuisines dental calculus pottery food crusts diseases. More broadly, these opened new doors understanding human–animal interactions, reconstruction environments environmental changes, expansion hominin fossil record through large scale screening nondiagnostic bone fragments, vertebrate record. Even advances, much proteomic still remains unexplored. Here we provide overview history field, summary major methods currently use, critical evaluation current challenges. We conclude by looking future, for which innovative solutions emerging technology will play important role enabling us access unexplored “dark” proteome, allowing fuller can interpretation

Language: Английский

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Isotropic super-resolution light-sheet microscopy of dynamic intracellular structures at subsecond timescales

Nature Methods, Journal Year: 2022, Volume and Issue: 19(3), P. 359 - 369

Published: March 1, 2022

Language: Английский

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