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Your search keyword '"Zhao, Runchu"' showing total 11 results
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11 results on '"Zhao, Runchu"'

3. MD Simulation of Hundred-Billion-Metal-Atom Cascade Collision on Sunway Taihulight

Author

Chu, Genshen, Li, Yang, Zhao, Runchu, Ren, Shuai, Yang, Wen, He, Xinfu, Hu, Chungjun, and Wang, Jue

Subjects
Computer Science - Distributed, Parallel, and Cluster Computing
Abstract

Radiation damage to the steel material of reactor pressure vessels is a major threat to the nuclear reactor safety. It is caused by the metal atom cascade collision, initialized when the atoms are struck by a high-energy neutron. The paper presents MISA-MD, a new implementation of molecular dynamics, to simulate such cascade collision with EAM potential. MISA-MD realizes (1) a hash-based data structure to efficiently store an atom and find its neighbors, and (2) several acceleration and optimization strategies based on SW26010 processor of Sunway Taihulight supercomputer, including an efficient potential table storage and interpolation method, a coloring method to avoid write conflicts, and double-buffer and data reuse strategies. The experimental results demonstrated that MISA-MD has good accuracy and scalability, and obtains a parallel efficiency of over 79% in an 655-billion-atom system. Compared with a state-of-the-art MD program LAMMPS, MISA-MD requires less memory usage and achieves better computational performance.

Published
2021

5. Defining a de novo non-RBM antibody as RBD-8 and its synergistic rescue of immune-evaded antibodies to neutralize Omicron SARS-CoV-2

Author

Rao, Xia, primary, Zhao, Runchu, additional, Tong, Zhou, additional, Guo, Shuxin, additional, Peng, Weiyu, additional, Liu, Kefang, additional, Li, Shihua, additional, Wu, Lili, additional, Tong, Jianyu, additional, Chai, Yan, additional, Han, Pu, additional, Wang, Feiran, additional, Jia, Peng, additional, Li, Zhaohui, additional, Zhao, Xin, additional, Li, Dedong, additional, Zhang, Rong, additional, Zhang, Xue, additional, Zou, Weiwei, additional, Li, Weiwei, additional, Wang, Qihui, additional, Gao, George Fu, additional, Wu, Yan, additional, Dai, Lianpan, additional, and Gao, Feng, additional

Published
2023
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6. Atlas of currently available human neutralizing antibodies against SARS-CoV-2 and escape by Omicron sub-variants BA.1/BA.1.1/BA.2/BA.3

Author

Huang, Min, primary, Wu, Lili, additional, Zheng, Anqi, additional, Xie, Yufeng, additional, He, Qingwen, additional, Rong, Xiaoyu, additional, Han, Pu, additional, Du, Pei, additional, Han, Pengcheng, additional, Zhang, Zengyuan, additional, Zhao, Runchu, additional, Jia, Yunfei, additional, Li, Linjie, additional, Bai, Bin, additional, Hu, Ziliang, additional, Hu, Shixiong, additional, Niu, Sheng, additional, Hu, Yu, additional, Liu, Honghui, additional, Liu, Bo, additional, Cui, Kaige, additional, Li, Weiwei, additional, Zhao, Xin, additional, Liu, Kefang, additional, Qi, Jianxun, additional, Wang, Qihui, additional, and Gao, George Fu, additional

Published
2022
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7. Cross-species recognition and molecular basis of SARS-CoV-2 and SARS-CoV binding to ACE2s of marine animals

Author

Li, Shihua, primary, Yang, Ruirui, additional, Zhang, Di, additional, Han, Pu, additional, Xu, Zepeng, additional, Chen, Qian, additional, Zhao, Runchu, additional, Zhao, Xin, additional, Qu, Xiao, additional, Zheng, Anqi, additional, Wang, Liang, additional, Li, Linjie, additional, Hu, Yu, additional, Zhang, Rong, additional, Su, Chao, additional, Niu, Sheng, additional, Zhang, Yanfang, additional, Qi, Jianxun, additional, Liu, Kefang, additional, Wang, Qihui, additional, and Gao, George F, additional

Published
2022
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8. Atlas of Currently-Available Human MAbs and Escape to Newly-Emerging Omicron BA.1/BA.1.1/BA.2/BA.3

Author

Huang, Min, primary, Wu, Lili, additional, Zheng, Anqi, additional, Xie, Yufeng, additional, He, Qingwen, additional, Rong, Xiaoyu, additional, Han, Pu, additional, Du, Pei, additional, Han, Pengcheng, additional, Zhang, Zengyuan, additional, Zhao, Runchu, additional, Jia, Yunfei, additional, Li, Linjie, additional, Bai, Bin, additional, Hu, Ziliang, additional, Hu, Shixiong, additional, Niu, Sheng, additional, Hu, Yu, additional, Liu, Honghui, additional, Liu, Bo, additional, Cui, Kaige, additional, Li, Weiwei, additional, Zhao, Xin, additional, Liu, Kefang, additional, Qi, Jianxun, additional, Wang, Qihui, additional, and Gao, George F., additional

Published
2022
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10. Identification of novel bat coronaviruses sheds light on the evolutionary origins of SARS-CoV-2 and related viruses

Author

Zhou, Hong, primary, Ji, Jingkai, additional, Chen, Xing, additional, Bi, Yuhai, additional, Li, Juan, additional, Wang, Qihui, additional, Hu, Tao, additional, Song, Hao, additional, Zhao, Runchu, additional, Chen, Yanhua, additional, Cui, Mingxue, additional, Zhang, Yanyan, additional, Hughes, Alice C., additional, Holmes, Edward C., additional, and Shi, Weifeng, additional

Published
2021
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11. Cross-species recognition of bat coronavirus RsYN04 and cross-reaction of SARS-CoV-2 antibodies against the virus.

Author

Zhao R, Niu S, Han P, Gao Y, Liu D, Luo C, Liu H, Liu B, Xu Y, Qi J, Chen Z, Shi W, Wu L, Gao GF, and Wang Q

Subjects
Animals, Humans, SARS-CoV-2, Angiotensin-Converting Enzyme 2, Antibodies, Viral, Epitopes, COVID-19 veterinary, Chiroptera genetics
Abstract

Following the outbreak of coronavirus disease 2019 (COVID-19), several severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2)-related coronaviruses have been discovered. Previous research has identified a novel lineage of SARS-CoV-2-related CoVs in bats, including RsYN04, which recognizes human angiotensin-converting enzyme 2 (ACE2) and thus poses a potential threat to humans. Here, we screened the binding of the RsYN04 receptor-binding domain (RBD) to ACE2 orthologs from 52 animal species and found that the virus showed a narrower ACE2-binding spectrum than SARS-CoV-2. However, the presence of the T484W mutation in the RsYN04 RBD broadened its range. We also evaluated 44 SARS-CoV-2 antibodies targeting seven epitope communities in the SARS-CoV-2 RBD, together with serum obtained from COVID-19 convalescents and vaccinees, to determine their cross-reaction against RsYN04. Results showed that no antibodies, except for the RBD-6 and RBD-7 classes, bound to the RsYN04 RBD, indicating substantial immune differences from SARS-CoV-2. Furthermore, the structure of the RsYN04 RBD in complex with cross-reactive antibody S43 in RBD-7 revealed a potently broad epitope for the development of therapeutics and vaccines. Our findings suggest RsYN04 and other viruses belonging to the same clade have the potential to infect several species, including humans, highlighting the necessity for viral surveillance and development of broad anti-coronavirus countermeasures.

Published
2023
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