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We introduce software for reading, writing and processing fluorescence single-molecule and image spectroscopy data and developing analysis pipelines that unifies various spectroscopic analysis tools. Our software can be used for processing…

Fluorescence lifetime imaging microscopy (FLIM) is a well-established technique with numerous imaging applications. Yet, one of the limitations of FLIM is that it provides information about the emitting state only. Here, we present an…

Biological Physics · Physics 2023-10-27 Pavel Malý , Dita Strachotová , Aleš Holoubek , Petr Heřman

Simultaneous identification and metabolic analysis of microbes with single-cell resolution and high throughput is necessary to answer the question of "who eats what, when, and where" in complex microbial communities. Here, we present a…

Biological Physics · Physics 2022-09-13 Yeran Bai , Zhongyue Guo , Fátima C. Pereira , Michael Wagner , Ji-Xin Cheng

Dynamic full-field optical coherence tomography (D-FFOCT) has recently emerged as a label-free imaging tool, capable of resolving cell types and organelles within 3D live samples, whilst monitoring their activity at tens of milliseconds…

Fluorescence Lifetime Imaging Microscopy (FLIM) using multiphoton excitation techniques is now finding an important place in quantitative imaging of protein-protein interactions and intracellular physiology. We review here the recent…

Quantitative Methods · Quantitative Biology 2009-11-10 R. V. Krishnan , A. Masuda , V. E. Centoze , B. Herman

Endoscopic optical imaging using a single multimode fiber (MMF) has emerged as a promising approach for highly compact, minimally invasive, and high-resolution imaging. Unlike conventional fiber bundles, MMF-based endomicroscopes exploit…

Raman microscopy is a powerful method combining non-invasiveness with no special sample preparation. Because of this remarkable simplicity, it has been widely exploited in many fields, ranging from life and materials sciences, to…

We study the interpolation capabilities of implicit neural representations (INRs) of images. In principle, INRs promise a number of advantages, such as continuous derivatives and arbitrary sampling, being freed from the restrictions of a…

Image and Video Processing · Electrical Eng. & Systems 2024-05-02 Lorenzo Luzi , Daniel LeJeune , Ali Siahkoohi , Sina Alemohammad , Vishwanath Saragadam , Hossein Babaei , Naiming Liu , Zichao Wang , Richard G. Baraniuk

4D live fluorescence microscopy is often compromised by prolonged high intensity illumination which induces photobleaching and phototoxic effects that generate photo-induced artifacts and severely impair image continuity and detail…

Image and Video Processing · Electrical Eng. & Systems 2026-02-17 Cunmin Zhao , Ziyuan Luo , Guoye Guan , Zelin Li , Yiming Ma , Zhongying Zhao , Renjie Wan

Synchrotron infrared hyperspectral microscopy is a label-free and non-invasive technique well suited for imaging of chemical events in situ. It can track the spatial and temporal distributions of molecules of interests in a specimen in its…

Biological Physics · Physics 2021-07-20 Hoi-Ying N. Holman , Wujun Zhao , Jennifer D. Nill , Liang Chen , Sankar Raju Narayanasamy , Tina Jeoh

Mid-infrared (MIR) imaging offers powerful capabilities for label-free chemical analysis, yet its practical deployment remains hindered by the high cost and cryogenic complexity of conventional cameras. Two-photon absorption (TPA) provides…

Optics · Physics 2026-05-25 Huijie Ma , Kun Huang , Jianan Fang , Ziyu He , Yan Liang , Heping Zeng

Correlative microscopy is a powerful technique that combines the advantages of multiple imaging modalities to achieve a comprehensive understanding of investigated samples. For example, fluorescence microscopy provides unique functional…

This paper introduces the combination of Laser-induced breakdown spectroscopy (LIBS), Raman spectroscopy (RS) and diffuse reflectance spectroscopy (DRS) in the field of biomedical research. Thereby, the results from RS and LIBS are combined…

Fluorescence spectroscopy is an image correlation technique to analyze and characterize the molecular dynamics from a sequence of fluorescence images. Many image correlation techniques have been developed for different applications [1]. But…

Quantitative Methods · Quantitative Biology 2017-10-24 C. Chen , P. Paul-Gilloteaux , T. Vignaud , J. Salamero , F. Waharte

Fluorescence lifetime imaging microscopy (FLIM) is a powerful quantitative technique that provides metabolic and molecular contrast, offering strong translational potential for label-free, real-time diagnostics. However, its clinical…

Computer Vision and Pattern Recognition · Computer Science 2025-12-19 Paloma Casteleiro Costa , Parnian Ghapandar Kashani , Xuhui Liu , Alexander Chen , Ary Portes , Julien Bec , Laura Marcu , Aydogan Ozcan

Depth cameras are emerging as a cornerstone modality with diverse applications that directly or indirectly rely on measured depth, including personal devices, robotics, and self-driving vehicles. Although time-of-flight (ToF) methods have…

Computer Vision and Pattern Recognition · Computer Science 2021-05-26 Seung-Hwan Baek , Noah Walsh , Ilya Chugunov , Zheng Shi , Felix Heide

Label-free metabolic dynamics contrast is highly appealing but difficult to achieve in biomedical imaging. Interference offers a highly sensitive mechanism for capturing the metabolic dynamics of the subcellular scatterers. However,…

High-throughput biological imaging is often constrained by a trade-off between acquisition speed and image quality. Fast imaging modalities, such as wide-field fluorescence microscopy, enable large-scale data acquisition but suffer from…

Image and Video Processing · Electrical Eng. & Systems 2026-04-20 Dominik Panek , Carina Rząca , Maksymilian Szczypior , Joanna Sorysz , Krzysztof Misztal , Zbigniew Baster , Zenon Rajfur

Simultaneous imaging of fluorescence-labeled and label-free phase objects in the same sample provides distinct and complementary information. Most multimodal fluorescence-phase imaging operates in transmission mode, capturing fluorescence…

Optics · Physics 2024-08-20 Renzhi He , Yucheng Li , Junjie Chen , Yi Xue

Fourier-transform infrared spectroscopy (FTIR) is a powerful analytical method for not only the chemical identification of solid, liquid, and gas species, but also the quantification of their concentration. However, the chemical…