3D Reconstruction of Proteasomes Using Random Conical Tilting

1990 ◽  
Vol 48 (1) ◽  
pp. 272-273
Author(s):  
R. Hegerl ◽  
G. Pfeifer ◽  
B. Dahlmann ◽  
W. Baumeister
Keyword(s):  
3D Reconstruction ◽  
Tilt Angle ◽  
Three Dimensional ◽  
Ammonium Molybdate ◽  
Two Dimensional ◽  
Single Particles ◽  
Three Dimensional Model ◽  
Cylinder Axis ◽  
Electron Dose ◽  
Image Pairs

Proteasomes isolated from the archaebacterium Thermoplasma acidophilum and negatively stained with ammonium molybdate appear in two preferred orientations on electron micrographs. Describing the particle roughly as cylinder-shaped, the orientations "end-on" and "side-on" are defined by the cylinder axis being normal and parallel to the specimen support, respectively. Two-dimensional averages are available from both views. The complexity of the particle, however, prevents an intuitive deduction of a three-dimensional model from these two views. Due to the occurence of two preferred orientations, the object is, in principle, well suited for a 3D reconstruction based on random conical tilting. The side-on view was used for 3D reconstruction for two reasons: First, two-dimensional averages led us to suppose that the particles do not suffer from rotations around their cylinder axis, and second, parallelism of the long cylinder axis and the specimen support promises to give a stable object inclination.The proteasomes were isolated and prepared for electron microscopy as described previously. Many pairs of micrographs were taken in a Philips EM 420 at a magnification of 36000 and an electron dose of about 2000 e/nm2. The first exposure of each pair shows the specimen with a tilt angle of about 60 deg, the second one is untilted (Fig. 1). Several image pairs were selected for computer processing using a favourable distribution of particles and acceptable focus conditions as selection criteria. After digitizing corresponding areas (2048 by 2048 pixels, pixel size 15 μm = 0.42 nm at object level) in each pair using an Eikonix 1412 camera, small images of single particles were extracted from the untilted image and aligned with respect to translation and rotation. Knowing the tilt angle and tilt axis azimuth, position and rotation parameters of the particles could be transferred to the tilted image thus enabling the extraction of a set 227 of projections ready for a three-dimensional back projection (Fig. 2). All computation was done with the EM-system.

Computer Assisted Image Reconstruction of Oligomer Structure

1976 ◽  
Vol 34 ◽  
pp. 472-473
Author(s):  
A.M. Jones ◽  
A. Max Fiskin
Keyword(s):  
Three Dimensional ◽  
Depth Of Field ◽  
Computer Assisted ◽  
Projection Data ◽  
Two Dimensional ◽  
Single Particles ◽  
Dimensional Reconstruction ◽  
Computer Assisted Image ◽  
The Fourier Transform ◽  
Space Approach

If the tilt of a specimen can be varied either by the strategy of observing identical particles orientated randomly or by use of a eucentric goniometer stage, three dimensional reconstruction procedures are available (l). If the specimens, such as small protein aggregates, lack periodicity, direct space methods compete favorably in ease of implementation with reconstruction by the Fourier (transform) space approach (2). Regardless of method, reconstruction is possible because useful specimen thicknesses are always much less than the depth of field in an electron microscope. Thus electron images record the amount of stain in columns of the object normal to the recording plates. For single particles, practical considerations dictate that the specimen be tilted precisely about a single axis. In so doing a reconstructed image is achieved serially from two-dimensional sections which in turn are generated by a series of back-to-front lines of projection data.

3D reconstruction and calculation of surface area and volume of bell pepper

2007 ◽  
Vol 3 (1) ◽  
pp. 89-113
Author(s):  
Zoltán Gillay ◽  
László Fenyvesi
Keyword(s):  
3D Reconstruction ◽  
Surface Area ◽  
Three Dimensional ◽  
Reference Method ◽  
Bell Pepper ◽  
Three Dimensional Model ◽  
Acceptable Error ◽  
Volume Calculation ◽  
Bell Peppers ◽  
Area And Volume

There was a method developed that generates the three-dimensional model of not axisymmetric produce, based on an arbitrary number of photos. The model can serve as a basis for calculating the surface area and the volume of produce. The efficiency of the reconstruction was tested on bell peppers and artificial shapes. In case of bell peppers 3-dimensional reconstruction was created from 4 images rotated in 45° angle intervals. The surface area and the volume were estimated on the basis of the reconstructed area. Furthermore, a new and simple reference method was devised to give precise results for the surface area of bell pepper. The results show that this 3D reconstruction-based surface area and volume calculation method is suitable to determine the surface area and volume of definite bell peppers with an acceptable error.

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.

Clinical experience of using virtual 3D modelling for pre and intraoperative guidance during robotic-assisted partial nephrectomy

2021 ◽  
pp. 205141582110002
Author(s):  
Lorenz Berger ◽  
Aziz Gulamhusein ◽  
Eoin Hyde ◽  
Matt Gibb ◽  
Teele Kuusk ◽  
...  
Keyword(s):  
Computed Tomography ◽  
Partial Nephrectomy ◽  
Surgical Outcome ◽  
Prospective Cohort ◽  
Three Dimensional ◽  
Two Dimensional ◽  
Dimensional Model ◽  
Three Dimensional Model ◽  
Robotic Assisted ◽  
Robotic Assisted Partial Nephrectomy

Objective: Surgical planning for robotic-assisted partial nephrectomy is widely performed using two-dimensional computed tomography images. It is unclear to what extent two-dimensional images fully simulate surgical anatomy and case complexity. To overcome these limitations, software has been developed to reconstruct three-dimensional models from computed tomography data. We present the results of a feasibility study, to explore the role and practicality of virtual three-dimensional modelling (by Innersight Labs) in the context of surgical utility for preoperative and intraoperative use, as well as improving patient involvement. Methods: A prospective study was conducted on patients undergoing robotic-assisted partial nephrectomy at our high volume kidney cancer centre. Approval from a research ethics committee was obtained. Patient demographics and tumour characteristics were collected. Surgical outcome measures were recorded. The value of the three-dimensional model to the surgeon and patient was assessed using a survey. The prospective cohort was compared against a retrospective cohort and cases were individually matched using RENAL (radius, exophytic/endophytic, nearness to collecting system or sinus, anterior/posterior, location relative to polar lines) scores. Results: This study included 22 patients. Three-dimensional modelling was found to be safe for this prospective cohort and resulted in good surgical outcome measures. The mean (standard deviation) console time was 158.6 (35) min and warm ischaemia time was 17.3 (6.3) min. The median (interquartile range) estimated blood loss was 125 (50–237.5) ml. Two procedures were converted to radical nephrectomy due to the risk of positive margins during resection. The median (interquartile range) length of stay was 2 (2–3) days. No postoperative complications were noted and all patients had negative surgical margins. Patients reported improved understanding of their procedure using the three-dimensional model. Conclusion: This study shows the potential benefit of three-dimensional modelling technology with positive uptake from surgeons and patients. Benefits are improved perception of vascular anatomy and resection approach, and procedure understanding by patients. A randomised controlled trial is needed to evaluate the technology further. Level of evidence: 2b

scholarly journals Numerical simulation of the dimensional transformation of atomization in a supersonic aerodynamic atomization dust-removing nozzle based on transonic speed compressible flow

2020 ◽  
Vol 7 (3) ◽  
pp. 597-610 ◽  
Author(s):  
Tian Zhang ◽  
Deji Jing ◽  
Shaocheng Ge ◽  
Jiren Wang ◽  
Xiangxi Meng ◽  
...  
Keyword(s):  
Flow Field ◽  
Axisymmetric Flow ◽  
Three Dimensional ◽  
Two Dimensional ◽  
The Finite Element Method ◽  
Three Dimensional Model ◽  
Speed Flow ◽  
Complex Process ◽  
Study Results ◽  
Laval Nozzles

Abstract To simulate the transonic atomization jet process in Laval nozzles, to test the law of droplet atomization and distribution, to find a method of supersonic atomization for dust-removing nozzles, and to improve nozzle efficiency, the finite element method has been used in this study based on the COMSOL computational fluid dynamics module. The study results showed that the process cannot be realized alone under the two-dimensional axisymmetric, three-dimensional and three-dimensional symmetric models, but it can be calculated with the transformation dimension method, which uses the parameter equations generated from the two-dimensional axisymmetric flow field data of the three-dimensional model. The visualization of this complex process, which is difficult to measure and analyze experimentally, was realized in this study. The physical process, macro phenomena and particle distribution of supersonic atomization are analyzed in combination with this simulation. The rationality of the simulation was verified by experiments. A new method for the study of the atomization process and the exploration of its mechanism in a compressible transonic speed flow field based on the Laval nozzle has been provided, and a numerical platform for the study of supersonic atomization dust removal has been established.

Blast load simulation using conical shock tube systems

2019 ◽  
Vol 11 (2) ◽  
pp. 135-158 ◽  
Author(s):  
Ahmed Ismail ◽  
Mohamed Ezzeldin ◽  
Wael El-Dakhakhni ◽  
Michael Tait
Keyword(s):  
Shock Tube ◽  
Three Dimensional ◽  
Design Parameters ◽  
Civil Infrastructure ◽  
Two Dimensional ◽  
Blast Loads ◽  
Dimensional Model ◽  
Tube System ◽  
Three Dimensional Model ◽  
Conical Shock

With the increased frequency of accidental and deliberate explosions, evaluating the response of civil infrastructure systems to blast loading has been attracting the interests of the research and regulatory communities. However, with the high cost and complex safety and logistical issues associated with field explosives testing, North American blast-resistant construction standards (e.g. ASCE 59-11 and CSA S850-12) recommend the use of shock tubes to simulate blast loads and evaluate relevant structural response. This study first aims at developing a simplified two-dimensional axisymmetric shock tube model, implemented in ANSYS Fluent, a computational fluid dynamics software, and then validating the model using the classical Sod’s shock tube problem solution, as well as available shock tube experimental test results. Subsequently, the developed model is compared to a more complex three-dimensional model and the results show that there is negligible difference between the two models for axisymmetric shock tube performance simulation; however, the three-dimensional model is necessary to simulate non-axisymmetric shock tubes. Following the model validation, extensive analyses are performed to evaluate the influences of shock tube design parameters (e.g. the driver section pressure and length and the expansion section length) on blast wave characteristics to facilitate a shock tube design that would generate shock waves similar to those experienced by civil infrastructure components under blast loads. The results show that the peak reflected pressure increases as the driver pressure increases, while a decrease in the expansion length increases the peak reflected pressure. In addition, the positive phase duration increases as both the driver length and expansion length are increased. Finally, the developed two-dimensional axisymmetric model is used to optimize the dimensions of a physical large-scale conical shock tube system constructed for civil infrastructure component blast response evaluation applications. The capabilities of such shock tube system are further investigated by correlating its design parameters to a range of explosion threats identified by different hemispherical TNT charge weight and distance scenarios.

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