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A large-scale transcriptional study reveals inhibition of COVID-19 related cytokine storm by traditional Chinese medicines

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Science Bulletin 2021年第9期66卷 884-888,M0003页

作者： Yifei Dai Weijie Qiang Yu Gui Xue Tan Tianli Pei Kequan Lin Siwei Cai Liang Sun Guochen Ning Jianxun Wang Hongyan Guo Yimin Sun Jing Cheng Lan Xie Xun Lan Dong Wang State Key Laboratory of Southwestern Chinese Medicine Resources School of Basic Medical SciencesChengdu University of Traditional Chinese MedicineChengdu 611137China Department of Basic Medical Sciences School of MedicineTsinghua UniversityBeijing 100084China Institute of Medicinal Plant Development Chinese Academy of Medical Sciences and Peking Union Medical CollegeBeijing 100193China School of Pharmacy Chengdu University of Traditional Chinese MedicineChengdu 611137China High Performance Computing Department National Supercomputing Center in ShenzhenShenzhen 518055China Department of Electronic and Computer Engineering College of EngineeringDrexel UniversityPhiladelphia 19104USA Dongli District Jinqiao Street Community Health Service Center Tianjin 300300China Department of Biomedical Engineering School of MedicineTsinghua UniversityBeijing 100084China School of Life Sciences Beijing University of Chinese MedicineBeijing 100029China National Engineering Research Center for Beijing Biochip Technology Beijing 102206China State Key Laboratory of Membrane Biology School of MedicineTsinghua UniversityBeijing 100084China Collaborative Innovation Center for Diagnosis and Treatment of Infectious Diseases Hangzhou 310003China Medical Systems Biology Research Center School of MedicineTsinghua UniversityBeijing 100084China

The application of traditional Chinese medicine(TCM)has made great contributions to the fight against the epidemic of coronavirus disease-2019(COVID-19).Despite the remarkable therapeutic effects of TCM,the molecular mechanisms of TCM formulae inhibiting COVID-19 are still not fully ***,we cφm-bined the automated high throughput sequencing-based high throughput screening(HTS^(2))assay with bioinformatics and computer-aided drug design(CADD)to investigate the molecular mechanisms of TCM-mediated therapeutic effects on COVID-19-related cytokine storm(Fig.1a).

关键词：细胞因子风暴六君子汤理中汤诊疗方案黄连解毒汤中药提取物肺炎分子机制

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Rate-Splitting for Cell-Free Massive MIMO: performance Analysis and Generative AI Approach

arXiv

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arXiv 2024年

作者： Zheng, Jiakang Zhang, Jiayi Du, Hongyang Zhang, Ruichen Niyato, Dusit Dobre, Octavia A. Ai, Bo The School of Electronic and Information Engineering Beijing Jiaotong University Beijing100044 China The Frontiers Science Center for Smart High-speed Railway System Beijing Jiaotong University Beijing100044 China The Department of Electrical and Electronic Engineering University of Hong Kong Pok Fu Lam Hong Kong The College of Computing and Data Science Nanyang Technological University Singapore Faculty of Engineering and Applied Science Memorial University Canada The State Key Laboratory of Rail Traffic Control and Safety Beijing Jiaotong University Beijing100044 China The Frontiers Science Center for Smart High-speed Railway System China Henan Joint International Research Laboratory of Intelligent Networking and Data Analysis Zhengzhou University Zhengzhou450001 China Research Center of Networks and Communications Peng Cheng Laboratory Shenzhen China

Cell-free (CF) massive multiple-input multiple-output (MIMO) provides a ubiquitous coverage to user equipments (UEs) but it is also susceptible to interference. Rate-splitting (RS) effectively extracts data by decoding interference, yet its effectiveness is limited by the weakest UE. In this paper, we investigate an RS-based CF massive MIMO system, which combines strengths and mitigates weaknesses of both approaches. Considering imperfect channel state information (CSI) resulting from both pilot contamination and noise, we derive a closed-form expression for the sum spectral efficiency (SE) of the RS-based CF massive MIMO system under a spatially correlated Rician channel. Moreover, we propose low-complexity heuristic algorithms based on statistical CSI for power-splitting of common messages and power-control of private messages, and genetic algorithm is adopted as a solution for upper bound performance. Furthermore, we formulate a joint optimization problem, aiming to maximize the sum SE of the RS-based CF massive MIMO system by optimizing the power-splitting factor and power-control coefficient. Importantly, we improve a generative AI (GAI) algorithm to address this complex and non-convexity problem by using a diffusion model to obtain solutions. Simulation results demonstrate its effectiveness and practicality in mitigating interference, especially in dynamic environments. Copyright © 2024, The Authors. All rights reserved.

关键词： Genetic algorithms

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The discovery of three-dimensional Van Hove singularity

arXiv

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arXiv 2023年

作者： Wu, Wenbin Shi, Zeping Ozerov, Mykhaylo Du, Yuhan Wang, Yuxiang Ni, Xiao-Sheng Meng, Xianghao Jiang, Xiangyu Wang, Guangyi Hao, Congming Wang, Xinyi Zhang, Pengcheng Pan, Chunhui Pan, Haifeng Sun, Zhenrong Yang, Run Xu, Yang Hou, Yusheng Yan, Zhongbo Zhang, Cheng Lu, Hai-Zhou Chu, Junhao Yuan, Xiang State Key Laboratory of Precision Spectroscopy East China Normal University Shanghai200241 China Key Laboratory of Polar Materials and Devices Ministry of Education School of Physics and Electronic Science East China Normal University Shanghai200241 China Shanghai Center of Brain-Inspired Intelligent Materials and Devices East China Normal University Shanghai200241 China National High Magnetic Field Laboratory Florida State University TallahasseeFL32310 United States State Key Laboratory of Surface Physics Institute for Nanoelectronic Devices and Quantum Computing Fudan University Shanghai200433 China Guangdong Provincial Key Laboratory of Magnetoelectric Physics and Devices School of Physics Sun Yat-Sen University Guangzhou510275 China Multifunctional Platform for Innovation Precision Machining Center East China Normal University Shanghai200241 China Key Laboratory of Quantum Materials and Devices of Ministry of Education School of Physics Southeast University Nanjing211189 China Zhangjiang Fudan International Innovation Center Fudan University Shanghai201210 China Shenzhen518055 China Institute of Optoelectronics Fudan University Shanghai200438 China

Arising from the extreme/saddle point in electronic bands, Van Hove singularity (VHS) manifests divergent density of states (DOS) and induces various new states of matter such as unconventional superconductivity. VHS is believed to exist in one and two dimensions, but rarely found in three dimension (3D). Here, we report the discovery of 3D VHS in a topological magnet EuCd2As2 by magneto-infrared spectroscopy. External magnetic fields effectively control the exchange interaction in EuCd2As2, and shift 3D Weyl bands continuously, leading to the modification of Fermi velocity and energy dispersion. Above the critical field, the 3D VHS forms and is evidenced by the abrupt emergence of inter-band transitions, which can be quantitatively described by the minimal model of Weyl semimetals. Three additional optical transitions are further predicted theoretically and verified in magneto-near-infrared spectra. Our results pave the way to exploring VHS in 3D systems and uncovering the coordination between electronic correlation and the topological phase. Copyright © 2023, The Authors. All rights reserved.

关键词： Infrared spectroscopy

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REFUGE2 CHALLENGE: A TREASURE TROVE FOR MULTI-DIMENSION ANALYSIS AND EVALUATION IN GLAUCOMA SCREENING

arXiv

引用

arXiv 2022年

作者： Fang, Huihui Li, Fei Wu, Junde Fu, Huazhu Sun, Xu Son, Jaemin Yu, Shuang Zhang, Menglu Yuan, Chenglang Bian, Cheng Lei, Baiying Zhao, Benjian Xu, Xinxing Li, Shaohua Fumero, Francisco Sigut, José Almubarak, Haidar Bazi, Yakoub Guo, Yuanhao Zhou, Yating Baid, Ujjwal Innani, Shubham Guo, Tianjiao Yang, Jie Orlando, José Ignacio Bogunović, Hrvoje Zhang, Xiulan Xu, Yanwu The REFUGE2 Challenge Australia State Key Laboratory of Ophthalmology Zhongshan Ophthalmic Center Sun Yat-Sen University Guangdong Provincial Key Laboratory of Ophthalmology and Visual Science Guangzhou China Intelligent Healthcare Unit Baidu Inc. Beijing China The Institute of High Performance Computing Agency for Science Technology and Research Singapore Yatiris Group PLADEMA Institute CONICET UNICEN Tandil Argentina Christian Doppler Lab for Artificial Intelligence in Retina Department of Ophthalmology and Optometry Medical University of Vienna Vienna Austria VUNO Inc Seoul Korea Republic of Tencent HealthCare Tencent Shenzhen China Computer Vision Institute College of Computer Science and Software Engineering of Shenzhen University Shenzhen China School of Biomedical Engineering Health Science Center Shenzhen University China Xiaohe Healthcare ByteDance Guangdong Guangzhou510000 China School of Biomedical Engineering Shenzhen University China College of Computer Science & Software Engineering Shenzhen University China Department of Computer Science and Systems Engineering Universidad de La Laguna Spain Saudi Electronic University Saudi Arabia King Saud University Saudi Arabia Institute of Automation Chinese Academy of Sciences Beijing China University of Chinese Academy of Sciences Beijing China SGGS Institute of Engineering and Technology India Institute of Medical Robotics Shanghai Jiao Tong University China Institute of Image Processing and Pattern Recognition Shanghai Jiao Tong University China

With the rapid development of artificial intelligence (AI) in medical image processing, deep learning in color fundus photography (CFP) analysis is also evolving. Although there are some open-source, labeled datasets of CFPs in the ophthalmology community, large-scale datasets for screening only have labels of disease categories, and datasets with annotations of fundus structures are usually small in size. In addition, labeling standards are not uniform across datasets, and there is no clear information on the acquisition device. Here we release a multi-annotation, multi-quality, and multi-device color fundus image dataset for glaucoma analysis on an original challenge-Retinal Fundus Glaucoma Challenge 2nd Edition (REFUGE2). The REFUGE2 dataset contains 2000 color fundus images with annotations of glaucoma classification, optic disc/cup segmentation, as well as fovea localization. Meanwhile, the REFUGE2 challenge sets three sub-tasks of automatic glaucoma diagnosis and fundus structure analysis and provides an online evaluation framework. Based on the characteristics of multi-device and multi-quality data, some methods with strong generalizations are provided in the challenge to make the predictions more robust. This shows that REFUGE2 brings attention to the characteristics of real-world multi-domain data, bridging the gap between scientific research and clinical application. © 2022, CC BY-NC-ND.

关键词： Color

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GAMMA Challenge: Glaucoma grAding from Multi-Modality imAges

arXiv

引用

arXiv 2022年

作者： Wu, Junde Fang, Huihui Li, Fei Fu, Huazhu Lin, Fengbin Li, Jiongcheng Huang, Yue Yu, Qinji Song, Sifan Xu, Xinxing Xu, Yanyu Wang, Wensai Wang, Lingxiao Lu, Shuai Li, Huiqi Huang, Shihua Lu, Zhichao Ou, Chubin Wei, Xifei Liu, Bingyuan Kobbi, Riadh Tang, Xiaoying Lin, Li Zhou, Qiang Hu, Qiang Bogunović, Hrvoje Orlando, José Ignacio Zhang, Xiulan Xu, Yanwu State Key Laboratory of Ophthalmology Zhongshan Ophthalmic Center Sun Yat-sen University Guangdong Provincial Key Laboratory of Ophthalmology and Visual Science Guangzhou China Intelligent Healthcare Unit Baidu Inc. Beijing China Singapore School of Informatics Xiamen University Xiamen China Shanghai Jiao Tong University Shanghai China Xi'an Jiaotong-Liverpool University Suzhou China Institute of High Performance Computing A*STAR Singapore Institute of Biomedical Engineering Chinese Academy of Medical Sciences Peking Union Medical College Tianjin China School of Medical Technology Beijing Institute of Technology Beijing China Department of Computing Hong Kong Polytechnic University Hong Kong Department of Computer Science and Engineering Southern University of Science and Technology Shenzhen China Weizhi Medical Technology Company Suzhou China École de Technologie Supérieure Montreal Montreal Canada DIAGNOS Inc. Quebec Canada Department of Electrical and Electronic Engineering Southern University of Science and Technology Shenzhen China Department of Electrical and Electronic Engineering The University of Hong Kong Hong Kong Technology Co. Ltd. Shanghai China School of Information and Electronics Beijing Institute of Technology Beijing China Christian Doppler Lab for Artificial Intelligence in Retina Department of Ophthalmology Medical University of Vienna Austria Yatiris Group PLADEMA Institute CONICET UNICEN Tandil Argentina

Glaucoma is a chronic neuro-degenerative condition that is one of the world's leading causes of irreversible but preventable blindness. The blindness is generally caused by the lack of timely detection and treatment. Early screening is thus essential for early treatment to preserve vision and maintain life quality. Color fundus photography and Optical Coherence Tomography (OCT) are the two most cost-effective tools for glaucoma screening. Both imaging modalities have prominent biomarkers to indicate glaucoma suspects, such as the vertical cup-to-disc ratio (vCDR) on fundus images and retinal nerve fiber layer (RNFL) thickness on OCT volume. In clinical practice, it is often recommended to take both of the screenings for a more accurate and reliable diagnosis. However, although numerous algorithms are proposed based on fundus images or OCT volumes for the automated glaucoma detection, there are few methods that leverage both of the modalities to achieve the target. To fulfill the research gap, we set up the Glaucoma grAding from Multi-Modality imAges (GAMMA) Challenge to encourage the development of fundus & OCT-based glaucoma grading. The primary task of the challenge is to grade glaucoma from both the 2D fundus images and 3D OCT scanning volumes. As part of GAMMA, we have publicly released a glaucoma annotated dataset with both 2D fundus color photography and 3D OCT volumes, which is the first multi-modality dataset for machine learning based glaucoma grading. In addition, an evaluation framework is also established to evaluate the performance of the submitted methods. During the challenge, 1272 results were submitted, and finally, ten best performing teams were selected for the final stage. We analyze their results and summarize their methods in the paper. Since all the teams submitted their source code in the challenge, we conducted a detailed ablation study to verify the effectiveness of the particular modules proposed. Finally, we identify the proposed techniqu

关键词： Grading

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ADAM CHALLENGE: DETECTING AGE-RELATED MACULAR DEGENERATION FROM FUNDUS IMAGES

arXiv

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arXiv 2022年

作者： Fang, Huihui Li, Fei Fu, Huazhu Sun, Xu Cao, Xingxing Lin, Fengbin Son, Jaemin Kim, Sunho Quellec, Gwenole Matta, Sarah Shankaranarayana, Sharath M. Chen, Yi-Ting Wang, Chuen-Heng Shah, Nisarg A. Lee, Chia-Yen Hsu, Chih-Chung Xie, Hai Lei, Baiying Baid, Ujjwal Innani, Shubham Dang, Kang Shi, Wenxiu Kamble, Ravi Singhal, Nitin Wang, Ching-Wei Lo, Shih-Chang Orlando, José Ignacio Bogunović, Hrvoje Zhang, Xiulan Xu, Yanwu The ADAM Challenge State Key Laboratory of Ophthalmology Zhongshan Ophthalmic Center Sun Yat-Sen University Guangdong Provincial Key Laboratory of Ophthalmology and Visual Science Guangzhou China Intelligent Healthcare Unit Baidu Inc. Beijing China The Institute of High Performance Computing Agency for Science Technology and Research Singapore CONICET Yatiris lab of Pladema Institute Tandil Argentina Department of Ophthalmology and Optometry Medical University of Vienna Vienna Austria VUNO Inc Seoul Korea Republic of Inserm UMR 1101 BrestF-29200 France Univ Bretagne Occidentale BrestF-29200 France Zasti India Pvt. Ltd. India Graphen.Inc Muen Biomedical and Optoelectronics Technologies Inc Taiwan Department of Electrical Engineering Indian Institute of Technology Rajasthan Jodhpur India Department of Electrical Engineering National United University Taiwan Institute of Data Science Department of Statistics National Cheng Kung University Taiwan Shenzhen University Shenzhen China SGGS Institute of Engineering and Technology Nanded India Suzhou Tisu Information Technology Co. Ltd China AIRA Matrix Mumbai India Graduate Institute of Biomedical Engineering National Taiwan University of Science and Technology Taiwan

Age-related macular degeneration (AMD) is the leading cause of visual impairment among elderly in the world. Early detection of AMD is of great importance, as the vision loss caused by this disease is irreversible and permanent. Color fundus photography is the most cost-effective imaging modality to screen for retinal disorders. Cutting edge deep learning based algorithms have been recently developed for automatically detecting AMD from fundus images. However, there are still lack of a comprehensive annotated dataset and standard evaluation benchmarks. To deal with this issue, we set up the Automatic Detection challenge on Age-related Macular degeneration (ADAM), which was held as a satellite event of the ISBI 2020 conference. The ADAM challenge consisted of four tasks which cover the main aspects of detecting and characterizing AMD from fundus images, including detection of AMD, detection and segmentation of optic disc, localization of fovea, and detection and segmentation of lesions. As part of the ADAM challenge, we have released a comprehensive dataset of 1200 fundus images with AMD diagnostic labels, pixel-wise segmentation masks for both optic disc and AMD-related lesions (drusen, exudates, hemorrhages and scars, among others), as well as the coordinates corresponding to the location of the macular fovea. A uniform evaluation framework has been built to make a fair comparison of different models using this dataset. During the ADAM challenge, 610 results were submitted for online evaluation, with 11 teams finally participating in the onsite challenge. This paper introduces the challenge, the dataset and the evaluation methods, as well as summarizes the participating methods and analyzes their results for each task. In particular, we observed that the ensembling strategy and the incorporation of clinical domain knowledge were the key to improve the performance of the deep learning models. © 2022, CC BY-NC-ND.

关键词： Cost effectiveness

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The 5th International Conference on Biomedical Engineering and Biotechnology (ICBEB 2016) Abstracts

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BMC MEDICAL IMAGING 2016年第Sup1期16卷 65-65页

作者： [Anonymous] Department of MRI Shandong Medical Imaging Research Institute Affiliated to Shandong University Jinan Shandong 250021 People’s Republic of China Department of Interventional Radiology Shandong Provincial Hospital Affiliated to Shandong University Jinan Shandong 250021 People’s Republic of China College of Information Science and Technology Engr. Research Center of Digitized Textile & Fashion Tech. for Ministry of Education Donghua University Shanghai 201620 China Intelligent multimedia information processing Lab College of Software Northeastern University Shenyang Liaoning Province 110004 China Institute of Biomedical and Health Engineering Shenzhen Institutes of Advanced Technology Chinese Academy of Sciences Shenzhen 518055 China School of Computer Science and Technology Nanjing Normal University Nanjing China Department of Electrical Engineering The City College of New York CUNY New York USA Jiangsu Key Laboratory of 3D Printing Equipment and Manufacturing Nanjing China School of Electronic Science and Engineering Nanjing University Nanjing Jiangsu 210046 China College of Engineering Nanyang Technological University Singapore 639798 Singapore School of Electronic Information Shanghai Dianji University Shanghai China School of Natural Sciences and Mathematics Shepherd University Shepherdstown WV 25443 USA Davis College of Agriculture Natural Resources and Design West Virginia University Morgantown WV 26505 USA State Key Laboratory of Millimeter Waves Southeast University Nanjing 210096 China Center of Medical Physics and Technology Hefei Institutes of Physical Science Chinese Academy of Sciences Hefei China College of Agricultural and Life Sciences University of Florida Gainesville FL 32611 USA Courant Institute of Mathematical Sciences New York University New York NY 10012 USA Translational Imaging Division & MRI Unit Columbia University and New York State Psychiatric Institute New York NY 10032 USA Guangxi Key Laboratory of Manufacturing System & Adv

Shaoqing Wang1, Xiancun Yang2, Meixia Su1, Qiang Liu1 1Department of MRI, Shandong Medical Imaging Research Institute Affiliated to Shandong University, Jinan, Shandong, 250021, People's Republic of China; 2Department of Interventional Radiology, Shandong Provincial Hospital Affiliated to Shandong University, Jinan, Shandong, 250021, People's Republic of China Correspondence: Qiang Liu (2002md@***) Aims To evaluate the diagnostic value of three- dimensional rotational angiography (3D-RA) of intracranial micro-aneurysms (diameter ≤ 3 mm) and provide guidance on the value of endovascular treatment. Materials and methods 43 patients with intracranial micro-aneurysms were analyzed retrospectively, all patients had undergone angiography with both conventional 2D-DSA(Two-Dimensional Digital Subtraction Angiography) and rotational angiography with three-dimensional reconstruction; the frequency of detection of aneurysms, depiction of aneurysm neck, radiation dose, and the dosage of contrast agent were recorded respectively. Results 55 pieces of aneurysms were detected out from the 43 cases with intracranial micro-aneurysms by 3D-RA. But only 39 cases were detected out using 2D-DSA from the 55 samples, there were significant differences with regards to detection rate (P < 0.05). There were significant differences in radiation dose and dosage of contrast agent (P < 0.05) between the two methods of using 3D-RA can improve the detection rate of micro-aneurysms, which bestows obvious advantages on displaying the shape of aneurysms, the aneurysm neck at the best angle, and the relationship with the parent artery, at the same time, the amount of contrast agent and radiation dose are reduced in 3D-RA compared to 2D-DSA.

关键词： Convolutional Neural Network high Resolution Compute Tomography Intensity Inhomogeneity Kernel Support Vector Machine Clonal Selection Algorithm

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