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High-speed optical imaging of dynamic neuronal activity is essential yet challenging in neuroscience. While calcium imaging has been firmly established as a workhorse technique for monitoring neuronal activity, its limited temporal…

Understanding how networks of neurons process information is one of the key challenges in modern neuroscience. A necessary step to achieve this goal is to be able to observe the dynamics of large populations of neurons over a large area of…

Image and Video Processing · Electrical Eng. & Systems 2022-03-09 Pingfan Song , Herman Verinaz Jadan , Carmel L. Howe , Amanda J. Foust , Pier Luigi Dragotti

Optical imaging of the brain has expanded dramatically in the past two decades. New optics, indicators, and experimental paradigms are now enabling in-vivo imaging from the synaptic to the cortex-wide scales. To match the resulting flood of…

Image and Video Processing · Electrical Eng. & Systems 2024-02-15 Gal Mishne , Adam Charles

The intricate nature of the brain necessitates the application of advanced probing techniques to comprehensively study and understand its working mechanisms. Neurophotonics offers minimally invasive methods to probe the brain using optics…

Functional optical imaging in neuroscience is rapidly growing with the development of new optical systems and fluorescence indicators. To realize the potential of these massive spatiotemporal datasets for relating neuronal activity to…

Image and Video Processing · Electrical Eng. & Systems 2022-01-11 Hadas Benisty , Alexander Song , Gal Mishne , Adam S. Charles

The mammalian brain is a densely interconnected network that consists of millions to billions of neurons. Decoding how information is represented and processed by this neural circuitry requires the ability to capture and manipulate the…

Biological Physics · Physics 2018-05-10 Siegfried Weisenburger , Alipasha Vaziri

Reconstructing multiple molecularly defined neurons from individual brains and across multiple brain regions can reveal organizational principles of the nervous system. However, high resolution imaging of the whole brain is a technically…

Computer Vision and Pattern Recognition · Computer Science 2019-03-19 James Gornet , Kannan Umadevi Venkataraju , Arun Narasimhan , Nicholas Turner , Kisuk Lee , H. Sebastian Seung , Pavel Osten , Uygar Sümbül

3D functional imaging of neuronal activity in entire organisms at single cell level and physiologically relevant time scales faces major obstacles due to trade-offs between the size of the imaged volumes, and spatial and temporal…

Recently developed methods for rapid continuous volumetric two-photon microscopy facilitate the observation of neuronal activity in hundreds of individual neurons and changes in blood flow in adjacent blood vessels across a large volume of…

Image and Video Processing · Electrical Eng. & Systems 2020-01-16 Shir Gur , Lior Wolf , Lior Golgher , Pablo Blinder

The proliferation of microscopy methods for live-cell imaging offers many new possibilities for users but can also be challenging to navigate. We focus here on computational methods that promise to boost live-cell fluorescence microscopy,…

Quantitative Methods · Quantitative Biology 2024-01-04 Hari Shroff , Ilaria Testa , Florian Jug , Suliana Manley

Neuromorphic Computing implemented in photonic hardware is one of the most promising routes towards achieving machine learning processing at the picosecond scale, with minimum power consumption. In this work, we present a new concept for…

Emerging Technologies · Computer Science 2022-11-01 K. Sozos , A. Bogris , P. Bienstman , G. Sarantoglou , S. Deligiannidis , C. Mesaritakis

Using optical speckle scanning microscopy [1], we demonstrate that clear images of multiple cells can be obtained through biological scattering tissue, with subcellular resolution and good image quality, as long as the size of the imaging…

Optics · Physics 2023-07-19 Xin Yang , Ye Pu , Demetri Psaltis

Optical microscopy is an indispensable tool in life sciences research, but conventional techniques require compromises between imaging parameters like speed, resolution, field-of-view, and phototoxicity. To overcome these limitations,…

Quantitative Methods · Quantitative Biology 2024-04-01 Leonor Morgado , Estibaliz Gómez-de-Mariscal , Hannah S. Heil , Ricardo Henriques

Versatile, sterically accessible imaging systems capable of in vivo rapid volumetric functional and structural imaging deep in the brain continue to be a limiting factor in neuroscience research. Towards overcoming this obstacle, we present…

Neurons and Cognition · Quantitative Biology 2018-05-10 Manish Kumar , Sandeep Kishore , Jordan Nasenbeny , David McLean , Yevgenia Kozorovitskiy

Microscopy image enhancement plays a pivotal role in understanding the details of biological cells and materials at microscopic scales. In recent years, there has been a significant rise in the advancement of microscopy image enhancement,…

Image and Video Processing · Electrical Eng. & Systems 2025-09-29 Debasish Dutta , Neeharika Sonowal , Risheraj Barauh , Deepjyoti Chetia , Sanjib Kr Kalita

Software-implementation, via neural networks, of brain-inspired computing approaches underlie many important modern-day computational tasks, from image processing to speech recognition, artificial intelligence and deep learning…

Optics · Physics 2021-02-19 J. Feldmann , N. Youngblood , C. D. Wright , H. Bhaskaran , W. H. P. Pernice

High-speed image acquisition in light microscopy is essential for a wide range of applications, including observing dynamic biological processes and enabling high-throughput sample analysis. However, traditional imaging speeds are often…

The automated analysis of microscopy images is a challenge in the context of single-cell tracking and quantification. This work has as goals the study of the performance of deep learning for segmenting microscopy images and the improvement…

Quantitative Methods · Quantitative Biology 2022-10-05 André O. Françani

Vascular networks play a crucial role in understanding brain functionalities. Brain integrity and function, neuronal activity and plasticity, which are crucial for learning, are actively modulated by their local environments, specifically…

Neurons and Cognition · Quantitative Biology 2024-02-28 Jiachen Yao , Nina Hagemann , Qiaojie Xiong , Jianxu Chen , Dirk M. Hermann , Chao Chen

The emerging field of connectomics aims to unlock the mysteries of the brain by understanding the connectivity between neurons. To map this connectivity, we acquire thousands of electron microscopy (EM) images with nanometer-scale…

Quantitative Methods · Quantitative Biology 2016-04-04 Stephen M. Plaza , Stuart E. Berg
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