Author(s):  
H.A. Cohen ◽  
T.W. Jeng ◽  
W. Chiu

This tutorial will discuss the methodology of low dose electron diffraction and imaging of crystalline biological objects, the problems of data interpretation for two-dimensional projected density maps of glucose embedded protein crystals, the factors to be considered in combining tilt data from three-dimensional crystals, and finally, the prospects of achieving a high resolution three-dimensional density map of a biological crystal. This methodology will be illustrated using two proteins under investigation in our laboratory, the T4 DNA helix destabilizing protein gp32*I and the crotoxin complex crystal.


2020 ◽  
Vol 2020 (10) ◽  
pp. 64-1-64-5
Author(s):  
Mustafa I. Jaber ◽  
Christopher W. Szeto ◽  
Bing Song ◽  
Liudmila Beziaeva ◽  
Stephen C. Benz ◽  
...  

In this paper, we propose a patch-based system to classify non-small cell lung cancer (NSCLC) diagnostic whole slide images (WSIs) into two major histopathological subtypes: adenocarcinoma (LUAD) and squamous cell carcinoma (LUSC). Classifying patients accurately is important for prognosis and therapy decisions. The proposed system was trained and tested on 876 subtyped NSCLC gigapixel-resolution diagnostic WSIs from 805 patients – 664 in the training set and 141 in the test set. The algorithm has modules for: 1) auto-generated tumor/non-tumor masking using a trained residual neural network (ResNet34), 2) cell-density map generation (based on color deconvolution, local drain segmentation, and watershed transformation), 3) patch-level feature extraction using a pre-trained ResNet34, 4) a tower of linear SVMs for different cell ranges, and 5) a majority voting module for aggregating subtype predictions in unseen testing WSIs. The proposed system was trained and tested on several WSI magnifications ranging from x4 to x40 with a best ROC AUC of 0.95 and an accuracy of 0.86 in test samples. This fully-automated histopathology subtyping method outperforms similar published state-of-the-art methods for diagnostic WSIs.


2010 ◽  
Vol 11 (6) ◽  
pp. 833-838 ◽  
Author(s):  
Jiafu HAN ◽  
Hongsheng LI ◽  
Zhong ZHANG

1983 ◽  
Vol 218 (1210) ◽  
pp. 119-126 ◽  

The number of iron atoms in the dimeric iron-containing superoxide dismutase from Pseudomonas ovalis and their atomic positions have been determined directly from anomalous scattering measurements on crystals of the native enzyme. To resolve the long-standing question of the total amount of iron per molecule for this class of dismutase, the occupancy of each site was refined against the measured Bijvoet differences. The enzyme is a symmetrical dimer with one iron site in each subunit. The iron position is 9 ņ from the intersubunit interface. The total iron content of the dimer is 1.2±0.2 moles per mole of protein. This is divided between the subunits in the ratio 0.65:0.55; the difference between them is probably not significant. Since each subunit contains, on average, slightly more than half an iron atom we conclude that the normal state of this enzyme is two iron atoms per dimer but that some of the metal is lost during purification of the protein. Although the crystals are obviously a mixture of holo- and apo-enzymes, the 2.9 Å electron density map is uniformly clean, even at the iron site. We conclude that the three-dimensional structures of the iron-bound enzyme and the apoenzyme are identical.


Symmetry ◽  
2021 ◽  
Vol 13 (4) ◽  
pp. 703
Author(s):  
Jun Zhang ◽  
Jiaze Liu ◽  
Zhizhong Wang

Owing to the increased use of urban rail transit, the flow of passengers on metro platforms tends to increase sharply during peak periods. Monitoring passenger flow in such areas is important for security-related reasons. In this paper, in order to solve the problem of metro platform passenger flow detection, we propose a CNN (convolutional neural network)-based network called the MP (metro platform)-CNN to accurately count people on metro platforms. The proposed method is composed of three major components: a group of convolutional neural networks is used on the front end to extract image features, a multiscale feature extraction module is used to enhance multiscale features, and transposed convolution is used for upsampling to generate a high-quality density map. Currently, existing crowd-counting datasets do not adequately cover all of the challenging situations considered in this study. Therefore, we collected images from surveillance videos of a metro platform to form a dataset containing 627 images, with 9243 annotated heads. The results of the extensive experiments showed that our method performed well on the self-built dataset and the estimation error was minimum. Moreover, the proposed method could compete with other methods on four standard crowd-counting datasets.


Author(s):  
Jingxian Huang ◽  
Guanchen Ding ◽  
Yujia Guo ◽  
Daiqin Yang ◽  
Sihan Wang ◽  
...  
Keyword(s):  

Author(s):  
Theodore J. Heindel ◽  
Terrence C. Jensen ◽  
Joseph N. Gray

There are several methods available to visualize fluid flows when one has optical access. However, when optical access is limited to near the boundaries or not available at all, alternative visualization methods are required. This paper will describe flow visualization using an X-ray system that is capable of digital X-ray radiography, digital X-ray stereography, and digital X-ray computed tomography (CT). The unique X-ray flow visualization facility will be briefly described, and then flow visualization of various systems will be shown. Radiographs provide a two-dimensional density map of a three dimensional process or object. Radiographic images of various multiphase flows will be presented. When two X-ray sources and detectors simultaneously acquire images of the same process or object from different orientations, stereographic imaging can be completed; this type of imaging will be demonstrated by trickling water through packed columns and by absorbing water in a porous medium. Finally, local time-averaged phase distributions can be determined from X-ray computed tomography (CT) imaging, and this will be shown by comparing CT images from two different gas-liquid sparged columns.


Entropy ◽  
2021 ◽  
Vol 23 (6) ◽  
pp. 721
Author(s):  
Ao Feng ◽  
Hongxiang Li ◽  
Zixi Liu ◽  
Yuanjiang Luo ◽  
Haibo Pu ◽  
...  

The thousand grain weight is an index of size, fullness and quality in crop seed detection and is an important basis for field yield prediction. To detect the thousand grain weight of rice requires the accurate counting of rice. We collected a total of 5670 images of three different types of rice seeds with different qualities to construct a model. Considering the different shapes of different types of rice, this study used an adaptive Gaussian kernel to convolve with the rice coordinate function to obtain a more accurate density map, which was used as an important basis for determining the results of subsequent experiments. A Multi-Column Convolutional Neural Network was used to extract the features of different sizes of rice, and the features were fused by the fusion network to learn the mapping relationship from the original map features to the density map features. An advanced prior step was added to the original algorithm to estimate the density level of the image, which weakened the effect of the rice adhesion condition on the counting results. Extensive comparison experiments show that the proposed method is more accurate than the original MCNN algorithm.


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