scholarly journals Comparison of Different Tissue Clearing Methods for Three-Dimensional Reconstruction of Human Brain Cellular Anatomy Using Advanced Imaging Techniques

2021 ◽  
Vol 15 ◽  
Author(s):  
Marina Scardigli ◽  
Luca Pesce ◽  
Niamh Brady ◽  
Giacomo Mazzamuto ◽  
Vladislav Gavryusev ◽  
...  
Keyword(s):  
High Resolution ◽  
3D Reconstruction ◽  
Imaging Techniques ◽  
Three Dimensional ◽  
Light Sheet ◽  
Nuclear Antigen ◽  
Tissue Clearing ◽  
Dimensional Reconstruction ◽  
Human Nervous System

The combination of tissue clearing techniques with advanced optical microscopy facilitates the achievement of three-dimensional (3D) reconstruction of macroscopic specimens at high resolution. Whole mouse organs or even bodies have been analyzed, while the reconstruction of the human nervous system remains a challenge. Although several tissue protocols have been proposed, the high autofluorescence and variable post-mortem conditions of human specimens negatively affect the quality of the images in terms of achievable transparency and staining contrast. Moreover, homogeneous staining of high-density epitopes, such as neuronal nuclear antigen (NeuN), creates an additional challenge. Here, we evaluated different tissue transformation approaches to find the best solution to uniformly clear and label all neurons in the human cerebral cortex using anti-NeuN antibodies in combination with confocal and light-sheet fluorescence microscopy (LSFM). Finally, we performed mesoscopic high-resolution 3D reconstruction of the successfully clarified and stained samples with LSFM.

A Fast and Smooth Carving Algorithm for Online 3D Reconstruction

2013 ◽  
Vol 311 ◽  
pp. 153-157
Author(s):  
Xing Gao ◽  
Ning Yu ◽  
Ming Hong Liao
Keyword(s):  
3D Reconstruction ◽  
Three Dimensional ◽  
Three Dimensional Reconstruction ◽  
Heritage Preservation ◽  
Reconstruction Methods ◽  
Space Carving ◽  
Dimensional Reconstruction ◽  
Bio Engineering ◽  
Current Reconstruction

Online rapid three-dimensional reconstruction is widely applied in virtual reality, heritage preservation, bio-engineering and architectural fields. The error caused by image quality or manual import is the main reason for the low quality of model details when applying current reconstruction methods while meeting the time premise. To solve this problem, the paper proposes a fast and smooth carving algorithm for online 3d reconstruction by joining the filter. By applying the method, you can get a more realistic and smooth three-dimensional reconstruction results. First, we convert the input point cloud to meshes through Delaunay tetrahedralisation. Then we reconstruct the model with the space carving algorithm with the filter to obtain the result. The experiment result shows our method exceeds existing methods while meeting the time constraints under the premise at the same time.

scholarly journals Semantic 3D Reconstruction for Robotic Manipulators with an Eye-In-Hand Vision System

2020 ◽  
Vol 10 (3) ◽  
pp. 1183 ◽  
Author(s):  
Fusheng Zha ◽  
Yu Fu ◽  
Pengfei Wang ◽  
Wei Guo ◽  
Mantian Li ◽  
...  
Keyword(s):  
3D Reconstruction ◽  
Large Scale ◽  
Vision System ◽  
Three Dimensional ◽  
Small Scale ◽  
Intelligent Control System ◽  
Segmented Images ◽  
Dimensional Reconstruction ◽  
Self Driving Cars

Three-dimensional reconstruction and semantic understandings have attracted extensive attention in recent years. However, current reconstruction techniques mainly target large-scale scenes, such as an indoor environment or automatic self-driving cars. There are few studies on small-scale and high-precision scene reconstruction for manipulator operation, which plays an essential role in the decision-making and intelligent control system. In this paper, a group of images captured from an eye-in-hand vision system carried on a robotic manipulator are segmented by deep learning and geometric features and create a semantic 3D reconstruction using a map stitching method. The results demonstrate that the quality of segmented images and the precision of semantic 3D reconstruction are effectively improved by our method.

Semi-automated methods for 3-D reconstruction of macromolecular complexes

1995 ◽  
Vol 53 ◽  
pp. 42-43
Author(s):  
B. Carragher ◽  
M. Whittaker
Keyword(s):  
Three Dimensional ◽  
Time Saving ◽  
Macromolecular Complexes ◽  
Symmetry Properties ◽  
Dimensional Reconstruction ◽  
Experienced Operator ◽  
Projection Images ◽  
The Individual ◽  
Natural Symmetry

Techniques for three-dimensional reconstruction of macromolecular complexes from electron micrographs have been successfully used for many years. These include methods which take advantage of the natural symmetry properties of the structure (for example helical or icosahedral) as well as those that use single axis or other tilting geometries to reconstruct from a set of projection images. These techniques have traditionally relied on a very experienced operator to manually perform the often numerous and time consuming steps required to obtain the final reconstruction. While the guidance and oversight of an experienced and critical operator will always be an essential component of these techniques, recent advances in computer technology, microprocessor controlled microscopes and the availability of high quality CCD cameras have provided the means to automate many of the individual steps.During the acquisition of data automation provides benefits not only in terms of convenience and time saving but also in circumstances where manual procedures limit the quality of the final reconstruction.

Three-dimensional Reconstruction of Microscopic Image Based on Multi-ST Algorithm

2020 ◽  
Vol 64 (2) ◽  
pp. 20506-1-20506-7
Author(s):  
Min Zhu ◽  
Rongfu Zhang ◽  
Pei Ma ◽  
Xuedian Zhang ◽  
Qi Guo
Keyword(s):  
3D Reconstruction ◽  
Three Dimensional ◽  
Scale Model ◽  
Microscopic Image ◽  
Multi Scale ◽  
Gaussian Pyramid ◽  
Cost Aggregation ◽  
Dimensional Reconstruction ◽  
Image Pairs ◽  
Accurate Matching

Abstract Three-dimensional (3D) reconstruction is extensively used in microscopic applications. Reducing excessive error points and achieving accurate matching of weak texture regions have been the classical challenges for 3D microscopic vision. A Multi-ST algorithm was proposed to improve matching accuracy. The process is performed in two main stages: scaled microscopic images and regularized cost aggregation. First, microscopic image pairs with different scales were extracted according to the Gaussian pyramid criterion. Second, a novel cost aggregation approach based on the regularized multi-scale model was implemented into all scales to obtain the final cost. To evaluate the performances of the proposed Multi-ST algorithm and compare different algorithms, seven groups of images from the Middlebury dataset and four groups of experimental images obtained by a binocular microscopic system were analyzed. Disparity maps and reconstruction maps generated by the proposed approach contained more information and fewer outliers or artifacts. Furthermore, 3D reconstruction of the plug gauges using the Multi-ST algorithm showed that the error was less than 0.025 mm.

scholarly journals Online Measurement of Deposit Surface in Electron Beam Freeform Fabrication

Sensors ◽  
2019 ◽  
Vol 19 (18) ◽  
pp. 4001 ◽  
Author(s):  
Shuhe Chang ◽  
Haoyu Zhang ◽  
Haiying Xu ◽  
Xinghua Sang ◽  
Li Wang ◽  
...  
Keyword(s):  
Electron Beam ◽  
3D Reconstruction ◽  
Three Dimensional ◽  
Thermal Conditions ◽  
Online Measurement ◽  
Three Dimensional Reconstruction ◽  
Continuous Change ◽  
Position Information ◽  
Freeform Fabrication ◽  
Dimensional Reconstruction

In the process of electron beam freeform fabrication (EBF3), due to the continuous change of thermal conditions and variability in wire feeding in the deposition process, geometric deviations are generated in the deposition of each layer. In order to prevent the layer-by-layer accumulation of the deviation, it is necessary to perform online geometry measurement for each deposition layer, based on which the error compensation can be done for the previous deposition layer in the next deposition layer. However, the traditional three-dimensional reconstruction method that employs structured laser cannot meet the requirements of long-term stable operation in the manufacturing process of EBF3. Therefore, this paper proposes a method to measure the deposit surfaces based on the position information of electron beam speckle, in which an electron beam is used to bombard the surface of the deposit to generate the speckle. Based on the structured information of the electron beam in the vacuum chamber, the three-dimensional reconstruction of the surface of the deposited parts is realized without need of additional structured laser sensor. In order to improve the detection accuracy, the detection error is theoretically analyzed and compensated. The absolute error after compensation is smaller than 0.1 mm, and the precision can reach 0.1%, which satisfies the requirements of 3D reconstruction of the deposited parts. An online measurement system is built for the surface of deposited parts in the process of electron beam freeform fabrication, which realizes the online 3D reconstruction of the surface of the deposited layer. In addition, in order to improve the detection stability of the whole system, the image processing algorithm suitable for this scene is designed. The reliability and speed of the algorithm are improved by ROI extraction, threshold segmentation, and expansion corrosion. In addition, the speckle size information can also reflect the thermal conditions of the surface of the deposited parts. Hence, it can be used for online detection of defects such as infusion and voids.

Rapid high resolution three dimensional reconstruction of embryos with episcopic fluorescence image capture

2004 ◽  
Vol 72 (3) ◽  
pp. 213-223 ◽  
Author(s):  
Julie Rosenthal ◽  
Vipul Mangal ◽  
Diana Walker ◽  
Michael Bennett ◽  
Tim J. Mohun ◽  
...  
Keyword(s):  
High Resolution ◽  
Three Dimensional ◽  
Three Dimensional Reconstruction ◽  
Image Capture ◽  
Fluorescence Image ◽  
Dimensional Reconstruction
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