1. Tissue clearing PEGASOS tissue clearing technique, developed by the Zhao lab, enables the simultaneous clearing of both soft and hard tissues, making it suitable for 3D fluorescence imaging of whole organs. In our study, we applied the PEGASOS protocol to clear whole-brain samples from double-transgenic mice (Tek-Cre; Ai47) in which endothelial cells were labeled with a fluorescent reporter. This was done in preparation for subsequent 3D whole-organ imaging using light-sheet microscopy.

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1. Cranial window surgery Chronic cranial window implantation was performed following a standard protocol with the following specific steps for two-photon microscopy. Mice were anesthetized with isoflurane (induction 4%, maintenance 2%) and secured in a stereotaxic frame. The scalp was incised and retracted to fully expose the skull, which was then cleaned by removing all overlying periosteum and fascia using a scalpel blade. Shallow, parallel scratches were made on the skull surface to enhance the adhesion of the subsequent adhesive layer.

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In complex biological systems, it is often the structure of the object of study that determines its function. This is also true for neural network systems. In order to understand the complexity of the structure of animal brain networks and their potential functions, brain mapping is one of the important goals in the current brain project.

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R plot 2d density

a 2d density plot using ggplot2 If you have a large number of points, a 2d density plot is helpful for examining the connection between 2 numerical variables. It divides the plot area into several little fragments to prevent overlapping (as in the scatterplot next to it) and shows the number of points in each fragment. Different kinds of 2D density graphs exist. Everyone has the appropriate ggplot2 function. All of them are discussed in this post.

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The primary focus of this meeting is to bring together expert neuroanatomists and computer scientists from different organizations to discuss cutting-edge research and applications on brain-wide reconstructions of neuron morphologies from whole-brain imaging datasets. Specifically, discussions will focus on effective data management, reconstruction workflows and common data quality and format standards for data sharing and reuse of manual, semi-automatic, and fully automatic neuron reconstructions at different organizations and at different resolution scales.

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Author's picture

Jun-Liszt Li

Hello, My name is Jun-Liszt Li (Leo). my science interest is to understand the molecular basis of brain vasculature system and its cellular process.

Postdoc fellow

Prague, Czech Republic