Jianquan Ouyang^1,*, Jinling Wang¹, Yaowu Wang¹, Tianming Liu²

Journal of Cyber Security, Vol.4, No.2, pp. 65-77, 2022, DOI:10.32604/jcs.2022.028065

Abstract Cryo-electron microscopy (cryo-EM) has become one of the mainstream techniques for determining the structures of proteins and macromolecular complexes, with prospects for development and significance. Researchers must select hundreds of thousands of particles from micrographs to acquire the database for single-particle cryo-EM reconstruction. However, existing particle picking methods cannot ensure that the particles are in the center of the bounding box because the signal-to-noise ratio (SNR) of micrographs is extremely low, thereby directly affecting the efficiency and accuracy of 3D reconstruction. We propose an automated particle-picking method (CenterPicker) based on particle center point detection to automatically select a large number… More >

Huanrong Tang¹, Sihan Wang¹, Jianquan Ouyang^1,*, Tianming Liu²

Journal on Big Data, Vol.4, No.1, pp. 61-76, 2022, DOI:10.32604/jbd.2022.028078

Abstract Cryo-Electron Microscopy (cryo-EM) has become a powerful method to study the structure and function of biological macromolecules. However, in clustering tasks based on the projection angle of particles in cryo-EM, the noise considerably affects the clustering results. Existing denoising algorithms are ineffective due to the extremely low signal-to-noise ratio (SNR) of cryo-EM images and the complexity of noise types. The noise of a single particle greatly influences the orientation estimation of the subsequent clustering task, and the result of the clustering task directly affects the accuracy of the 3D reconstruction. In this paper, we propose a construction method of cryo-EM… More >

Jianquan Ouyang¹, Yue Zhang¹, Kun Fang^1,2,*, Tianming Liu³, Xiangyu Pan²

CMC-Computers, Materials & Continua, Vol.72, No.1, pp. 1593-1610, 2022, DOI:10.32604/cmc.2022.025072

Abstract Cryo-Electron Microscopy (Cryo-EM) images are characterized by the low signal-to-noise ratio, low contrast, serious background noise, more impurities, less data, difficult data labeling, simpler image semantics, and relatively fixed structure, while U-Net obtains low resolution when downsampling rate information to complete object category recognition, obtains high-resolution information during upsampling to complete precise segmentation and positioning, fills in the underlying information through skip connection to improve the accuracy of image segmentation, and has advantages in biological image processing like Cryo-EM image. This article proposes A U-Net based residual intensive neural network (Urdnet), which combines point-level and pixel-level tags, used to accurately… More >

Jianquan Ouyang^*, Yi He, Huanrong Tang, Zhousong Fu

Journal of Information Hiding and Privacy Protection, Vol.2, No.1, pp. 1-9, 2020, DOI:10.32604/jihpp.2020.010657

Abstract Cryo-em (Cryogenic electron microscopy) is a technology this can build bio-macromolecule of three-dimensional structure. Under the condition of now, the projection image of the biological macromolecule which is collected by the Cryo-em technology that the contrast is low, the signal to noise is low, image blurring, and not easy to distinguish single particle from background, the corresponding processing technology is lagging behind. Therefore, make Cryoem image denoising useful, and maintaining bio-macromolecule of contour or signal of function-construct improve Cryo-em image quality or resolution of Cryo-em three-dimensional structure have important effect. This paper researched a denoising function base on GANs (generative… More >