Knowledge about the neuronal dynamics and the projectome are both essential for understanding how the neuronal network functions in concert.However,it remains challenging to obtain the neural activity and the brain-wi...Knowledge about the neuronal dynamics and the projectome are both essential for understanding how the neuronal network functions in concert.However,it remains challenging to obtain the neural activity and the brain-wide projectome for the same neurons,especially for neurons in subcortical brain regions.Here,by combining in vivo microscopy and high-definition fluorescence microoptical sectioning tomography,we have developed strategies for mapping the brain-wide projectome of functionally relevant neurons in the somatosensory cortex,the dorsal hippocampus,and the substantia nigra pars compacta.More importantly,we also developed a strategy to achieve acquiring the neural dynamic and brain-wide projectome of the molecularly defined neuronal subtype.The strategies developed in this study solved the essential problem of linking brain-wide projectome to neuronal dynamics for neurons in subcortical structures and provided valuable approaches for understanding how the brain is functionally organized via intricate connectivity patterns.展开更多
Vascular segmentation is a crucial task in biomedical image processing,which is significant for analyzing and modeling vascular networks under physiological and pathological states.With advances in fluorescent labelin...Vascular segmentation is a crucial task in biomedical image processing,which is significant for analyzing and modeling vascular networks under physiological and pathological states.With advances in fluorescent labeling and mesoscopic optical techniques,it has become possible to map the whole-mouse-brain vascular networks at capillary resolution.However,segmenting vessels from mesoscopic optical images is a challenging task.The problems,such as vascular signal discontinuities,vessel lumens,and background fluorescence signals in mesoscopic optical images,belong to global semantic information during vascular segmentation.Traditional vascular segmentation methods based on convolutional neural networks(CNNs)have been limited by their insufficient receptive fields,making it challenging to capture global semantic information of vessels and resulting in inaccurate segmentation results.Here,we propose SegVesseler,a vascular segmentation method based on Swin Transformer.SegVesseler adopts 3D Swin Transformer blocks to extract global contextual information in 3D images.This approach is able to maintain the connectivity and topology of blood vessels during segmentation.We evaluated the performance of our method on mouse cerebrovascular datasets generated from three different labeling and imaging modalities.The experimental results demonstrate that the segmentation effect of our method is significantly better than traditional CNNs and achieves state-of-the-art performance.展开更多
基金supported by the National Natural Science Foundation of China(61890952,61890953,61890954,and 32221003)the National Science and Technology Innovation 2030 Major Program(2021ZD0204404)the New Cornerstone Science Foundation through the XPLORER PRIZE.
文摘Knowledge about the neuronal dynamics and the projectome are both essential for understanding how the neuronal network functions in concert.However,it remains challenging to obtain the neural activity and the brain-wide projectome for the same neurons,especially for neurons in subcortical brain regions.Here,by combining in vivo microscopy and high-definition fluorescence microoptical sectioning tomography,we have developed strategies for mapping the brain-wide projectome of functionally relevant neurons in the somatosensory cortex,the dorsal hippocampus,and the substantia nigra pars compacta.More importantly,we also developed a strategy to achieve acquiring the neural dynamic and brain-wide projectome of the molecularly defined neuronal subtype.The strategies developed in this study solved the essential problem of linking brain-wide projectome to neuronal dynamics for neurons in subcortical structures and provided valuable approaches for understanding how the brain is functionally organized via intricate connectivity patterns.
基金supported by the STI2030-Major Projects (2021ZD0201002)the National Natural Science Foundation of China (82102137,T2122015)+2 种基金Natural Science Foundation of Shaanxi Provincial Department of Education (21JK0796)the Open Project Program of Wuhan National Laboratory for Optoelectronics (2021WNL OKF006)the Natural Science Foundation of Sichuan Province (2022NSFSC0964).
文摘Vascular segmentation is a crucial task in biomedical image processing,which is significant for analyzing and modeling vascular networks under physiological and pathological states.With advances in fluorescent labeling and mesoscopic optical techniques,it has become possible to map the whole-mouse-brain vascular networks at capillary resolution.However,segmenting vessels from mesoscopic optical images is a challenging task.The problems,such as vascular signal discontinuities,vessel lumens,and background fluorescence signals in mesoscopic optical images,belong to global semantic information during vascular segmentation.Traditional vascular segmentation methods based on convolutional neural networks(CNNs)have been limited by their insufficient receptive fields,making it challenging to capture global semantic information of vessels and resulting in inaccurate segmentation results.Here,we propose SegVesseler,a vascular segmentation method based on Swin Transformer.SegVesseler adopts 3D Swin Transformer blocks to extract global contextual information in 3D images.This approach is able to maintain the connectivity and topology of blood vessels during segmentation.We evaluated the performance of our method on mouse cerebrovascular datasets generated from three different labeling and imaging modalities.The experimental results demonstrate that the segmentation effect of our method is significantly better than traditional CNNs and achieves state-of-the-art performance.
