Wide-field multi-scale areal parcellation of neural circuits in mice (Conference Presentation)

Wide field-of-view (FOV) and high-resolution (HR) imaging are essential to many applications where high-content image acquisition is necessary. However, due to the insufficient spatial sampling of the image detector and the trade-off between pixel size and photosensitivity, the ability of current imaging sensors to obtain high spatial resolution is limited, especially under low-light-level (LLL) imaging conditions. To solve these problems, we propose a multi-scale feature extraction (MSFE) network to realize pixel-super-resolved LLL imaging. In order to perform data fusion and information extraction for low resolution (LR) images, the network extracts high-frequency detail information from different dimensions by combining the channel attention mechanism module and skip connection module. In this way, the calculation of the high-frequency components can receive greater attention. Compared with other networks, the peak signal-to-noise ratio of the reconstructed image was increased by 1.67 dB. Extensions of the MSFE network are investigated for scene-based color mapping of the gray image. Most of the color information could be recovered, and the similarity with the real image reached 0.728. The qualitative and quantitative experimental results show that the proposed method achieved superior performance in image fidelity and detail enhancement over the state-of-the-art.

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Imaging ATUM ultrathin section libraries with WaferMapper: a multi-scale approach to EM reconstruction of neural circuits

Frontiers in Neural Circuits ◽

10.3389/fncir.2014.00068 ◽

2014 ◽

Vol 8 ◽

Cited By ~ 124

Author(s):

Kenneth J. Hayworth ◽

Josh L. Morgan ◽

Richard Schalek ◽

Daniel R. Berger ◽

David G. C. Hildebrand ◽

...

Keyword(s):

Ultrathin Section ◽

Neural Circuits ◽

Multi Scale

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Stray Light Elimination Method Based on Recursion Multi-Scale Gray-Scale Morphology for Wide-Field Surveillance

IEEE Access ◽

10.1109/access.2021.3053564 ◽

2021 ◽

Vol 9 ◽

pp. 16928-16936

Author(s):

Zeming Xu ◽

Dan Liu ◽

Changxiang Yan ◽

Chunhui Hu

Keyword(s):

Stray Light ◽

Wide Field ◽

Scale Morphology ◽

Gray Scale ◽

Elimination Method ◽

Multi Scale

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Multi-scale morphological analysis for retinal vessel detection in wide-field fluorescein angiography

2017 IEEE Western New York Image and Signal Processing Workshop (WNYISPW) ◽

10.1109/wnyipw.2017.8356256 ◽

2017 ◽

Cited By ~ 4

Author(s):

Li Ding ◽

Ajay Kuriyan ◽

Rajeev Ramchandran ◽

Gaurav Sharma

Keyword(s):

Fluorescein Angiography ◽

Morphological Analysis ◽

Retinal Vessel ◽

Wide Field ◽

Multi Scale ◽

Vessel Detection

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Optical system design with wide field of view and high resolution based on monocentric multi-scale construction

Young Scientists Forum 2017 ◽

10.1117/12.2316494 ◽

2018 ◽

Author(s):

Hu Wang ◽

Fang Wang ◽

Nan Xiao ◽

Yang Shen ◽

Yaoke Xue

Keyword(s):

High Resolution ◽

System Design ◽

Optical System ◽

Scale Construction ◽

Field Of View ◽

Wide Field ◽

Optical System Design ◽

Multi Scale ◽

Wide Field Of View

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Opto-E-Dura: a Soft, Stretchable ECoG Array for Multimodal, Multi-scale Neuroscience

10.1101/2020.06.10.139493 ◽

2020 ◽

Author(s):

Aline F. Renz ◽

Jihyun Lee ◽

Klas Tybrandt ◽

Maciej Brzezinski ◽

Dayra A. Lorenzo ◽

...

Keyword(s):

Brain Function ◽

Large Scale ◽

Spatial Scales ◽

Biological Tissues ◽

Great Promise ◽

Wide Field ◽

Electrode Arrays ◽

Spatial And Temporal Scales ◽

Multi Scale ◽

The Brain

AbstractSoft, stretchable materials hold great promise for the fabrication of biomedical devices due to their capacity to integrate gracefully with and conform to biological tissues. Conformal devices are of particular interest in the development of brain interfaces where rigid structures can lead to tissue damage and loss of signal quality over the lifetime of the implant. Interfaces to study brain function and dysfunction increasingly require multimodal access in order to facilitate measurement of diverse physiological signals that span the disparate temporal and spatial scales of brain dynamics. Here we present the Opto-e-Dura, a soft, stretchable, 16-channel electrocorticography array that is optically transparent. We demonstrate its compatibility with diverse optical and electrical readouts enabling multimodal studies that bridge spatial and temporal scales. The device is chronically stable for weeks, compatible with wide-field and 2-photon calcium imaging and permits the repeated insertion of penetrating multi-electrode arrays. As the variety of sensors and effectors realizable on soft, stretchable substrates expands, similar devices that provide large-scale, multimodal access to the brain will continue to improve fundamental understanding of brain function.

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Multi-Scale Light-Sheet Fluorescence Microscopy for Fast Whole Brain Imaging

Frontiers in Neuroanatomy ◽

10.3389/fnana.2021.732464 ◽

2021 ◽

Vol 15 ◽

Author(s):

Zhouzhou Zhang ◽

Xiao Yao ◽

Xinxin Yin ◽

Zhangcan Ding ◽

Tianyi Huang ◽

...

Keyword(s):

Brain Imaging ◽

Light Sheet ◽

Dendritic Morphology ◽

Mammalian Brain ◽

Wide Field ◽

Whole Brain ◽

Multi Scale ◽

Light Sheet Microscopy ◽

Constant Quality

Whole-brain imaging has become an increasingly important approach to investigate neural structures, such as somata distribution, dendritic morphology, and axonal projection patterns. Different structures require whole-brain imaging at different resolutions. Thus, it is highly desirable to perform whole-brain imaging at multiple scales. Imaging a complete mammalian brain at synaptic resolution is especially challenging, as it requires continuous imaging from days to weeks because of the large number of voxels to sample, and it is difficult to acquire a constant quality of imaging because of light scattering during in toto imaging. Here, we reveal that light-sheet microscopy has a unique advantage over wide-field microscopy in multi-scale imaging because of its decoupling of illumination and detection. Based on this observation, we have developed a multi-scale light-sheet microscope that combines tiling of light-sheet, automatic zooming, periodic sectioning, and tissue expansion to achieve a constant quality of brain-wide imaging from cellular (3 μm × 3 μm × 8 μm) to sub-micron (0.3 μm × 0.3 μm × 1 μm) spatial resolution rapidly (all within a few hours). We demonstrated the strength of the system by testing it using mouse brains prepared using different clearing approaches. We were able to track electrode tracks as well as axonal projections at sub-micron resolution to trace the full morphology of single medial prefrontal cortex (mPFC) neurons that have remarkable diversity in long-range projections.

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Title: Multi-Scale LM/EM Neuronal Imaging from Brain to Synapse with a Tissue Clearing Method, ScaleSF

10.1101/2021.04.02.438164 ◽

2021 ◽

Author(s):

Takahiro Furuta ◽

Kenta Yamauchi ◽

Shinichiro Okamoto ◽

Megumu Takahashi ◽

Soichiro Kakuta ◽

...

Keyword(s):

Neural Circuits ◽

Structural Information ◽

Spatial Scales ◽

Mammalian Brain ◽

Seamless Integration ◽

Tissue Clearing ◽

Multi Scale ◽

Neuronal Imaging ◽

Macroscopic Observation ◽

Clearing Method

AbstractThe mammalian brain is organized over sizes that span several orders of magnitude, from synapses to the entire brain. Thus, a technique to visualize neural circuits across multiple spatial scales (multi-scale neuronal imaging) is vital for deciphering brain-wide connectivity. Here, we developed this technique by coupling successive light microscope/electron microscope (LM/EM) imaging with an ultrastructurally-preserved tissue clearing method, ScaleSF. Our multi-scale neuronal imaging incorporates 1) brain-wide macroscopic observation, 2) mesoscopic circuit mapping, 3) microscopic subcellular imaging, and 4) EM imaging of nanoscopic structures, allowing seamless integration of structural information from the brain to synapses. We applied the technique to three neural circuits of two different species, mouse striatofugal, mouse callosal, and marmoset corticostriatal projection systems, and succeeded in the simultaneous interrogation of their circuit structure and synaptic connectivity in a targeted way. Our multi-scale neuronal imaging will significantly advance the understanding of brain-wide connectivity by expanding the scales of objects.

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