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Single-cell RNA sequencing (scRNA-seq), especially temporally resolved datasets, enables genome-wide profiling of gene expression dynamics at single-cell resolution across discrete time points. However, current technologies provide only…

Genomics · Quantitative Biology 2025-11-19 Yue Ling , Peiqi Zhang , Zhenyi Zhang , Peijie Zhou

Super-resolution light microscopy overcomes the physical barriers due to light diffraction, allowing for the observation of otherwise indistinguishable subcellular entities. However, the specific acquisition conditions required by…

Combining optical tweezers with fluorescence microscopy is a powerful tool for single-cell analysis, playing a pivotal role in disease diagnosis, cell sorting, and the investigation of cellular dynamics. However, fluorescence detection…

Optics · Physics 2026-04-07 Jun Yin , Sanyou Chen , Yihao Yan , Mengqi Wang , Ya Wang , Yiheng Lin , Qi Zhang , Fazhan Shi

Fluorescence lifetime imaging microscopy (FLIM) systems are limited by their slow processing speed, low signal-to-noise ratio (SNR), and expensive and challenging hardware setups. In this work, we demonstrate applying a denoising…

Image and Video Processing · Electrical Eng. & Systems 2021-06-09 Varun Mannam , Yide Zhang , Xiaotong Yuan , Takashi Hato , Pierre C. Dagher , Evan L. Nichols , Cody J. Smith , Kenneth W. Dunn , Scott Howard

Scalable atom-based quantum platforms for simulation, computing, and metrology require fast high-fidelity, low-loss imaging of individual atoms. Standard fluorescence detection methods rely on continuous cooling, limiting the detection…

Single molecule detection has revolutionised the fields of chemistry and biology by offering powerful ways to study individual molecules under different scenarios. Nanophotonic structures, including plasmonic antennas, significantly…

Biological Physics · Physics 2022-01-31 Pamina M. Winkler , Thomas S. van Zanten , Satyajit Mayor , Maria F. Garcia-Parajo

Advanced photonic tools may enable researchers and clinicians to visualize, track, control and manipulate biological processes at the single-cell level in space and time. Biological systems are complex and highly organized on both spatial…

Optics · Physics 2021-11-30 Alina Karabchevsky , Tal Elbaz , Aviad Katiyi , Ofer Prager , Alon Friedman

Counting cells in fluorescent microscopy is a tedious, time-consuming task that researchers have to accomplish to assess the effects of different experimental conditions on biological structures of interest. Although such objects are…

Computer Vision and Pattern Recognition · Computer Science 2021-03-02 R. Morelli , L. Clissa , M. Dalla , M. Luppi , L. Rinaldi , A. Zoccoli

Nanophotonics offers a promising range of applications spanning from the development of efficient solar cells to quantum communications and biosensing. However, the ability to efficiently couple fluorescent emitters with nanostructured…

Photoacoustic imaging has emerged in the past decades. Compared with the traditional medical imaging mode, it has better imaging performance and has great development potential in the field of biological imaging. In traditional…

Medical Physics · Physics 2020-09-03 Xianlin Song , Jianshuang Wei , Jianmin Xiong , Lingfang Song

With ongoing developments and innovations in single-cell RNA sequencing methods, advancements in sequencing performance could empower significant discoveries as well as new emerging possibilities to address biological and medical…

Applications · Statistics 2019-12-19 Jiawei Long , Yu Xia

Recent experimental results have shown that active enzymes can diffuse faster when they are in the presence of their substrates. Fluorescence correlation spectroscopy (FCS), which relies on analyzing the fluctuations in fluorescence…

Subcellular Processes · Quantitative Biology 2019-09-25 Mengqi Xu , Lyanne Valdez , Aysuman Sen , Jennifer L. Ross

Fluorescence lifetime imaging microscopy (FLIM) provides detailed information about molecular interactions and biological processes. A major bottleneck for FLIM is image resolution at high acquisition speeds, due to the engineering and…

Image and Video Processing · Electrical Eng. & Systems 2024-04-23 Valentin Kapitány , Areeba Fatima , Vytautas Zickus , Jamie Whitelaw , Ewan McGhee , Robert Insall , Laura Machesky , Daniele Faccio

Confocal microscopy has long been a cornerstone technique for visualizing complex interactions and processes within cellular structures. However, achieving super-resolution imaging of multiple organelles and their interactions…

Optics · Physics 2025-08-19 Qinglin Chen , Luwei Wang , Jia Li , Dan Shao , Xiaoyu Weng , Liwei Liu , Dayong Jin , Junle Qu

Existing super-resolution microscopy is often constrained by inherent trade-offs between resolution, acquisition speed, phototoxicity, and hardware complexity. Computational post-processing approaches offer a promising alternative, but they…

Accurate segmentation and precise morphological analysis of neuronal cells in fluorescence microscopy images are crucial steps in neuroscience and biomedical imaging applications. However, this process is labor-intensive and time-consuming,…

Image and Video Processing · Electrical Eng. & Systems 2025-10-23 Banan Alnemri , Arwa Basbrain

Single-molecule experiments are a unique tool to characterize the structural dynamics of biomolecules. However, reconstructing molecular details from noisy single-molecule data is challenging. Simulation-based inference (SBI) integrates…

Chemical Physics · Physics 2024-10-22 Lars Dingeldein , Pilar Cossio , Roberto Covino

We explore theoretically the electroluminescence of single molecules. We adopt a local-electrode framework that is appropriate for scanning tunneling microscopy (STM) experiments where electroluminescence originates from individual…

Mesoscale and Nanoscale Physics · Physics 2009-11-13 John Buker , George Kirczenow

Optical fluorescence imaging is capable of measuring both the spatial and rotational dynamics of single molecules. However, unavoidable measurement noise will result in inaccurate estimates of rotational dynamics, causing a molecule to…

Optics · Physics 2019-05-22 Oumeng Zhang , Matthew D. Lew