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Protein & Cell 2024年第6期15卷 403-418页

作者： Song Xue Yuru Han Fan Wu Qiao Wang Key Laboratory of Medical Molecular virology (MOE/NHC/CAMS) Shanghai Institute of Infectious Disease and BiosecurityShanghai Frontiers Science Center of Pathogenic Microorganisms and InfectionSchool of Basic Medical SciencesShanghai Medical CollegeFudan UniversityShanghai 200032China

Intensive selection pressure constrains the evolutionary trajectory of SARS-CoV-2 genomes and results in various novel variants with distinct mutation *** mutations,particularly those within the receptor binding domain(RBD)of SARS-CoV-2 spike(S)protein,lead to the functional alteration in both receptor engagement and monoclonal antibody(mAb)***,we review the data of the RBD point mutations possessed by major SARS-CoV-2 variants and discuss their individual effects on ACE2 affinity and immune *** single amino acid substitutions within RBD epitopes crucial for the antibody evasion capacity may conversely weaken ACE2 binding ***,this weakened effect could be largely compensated by specific epistatic mutations,such as N501Y,thus maintaining the overall ACE2 affinity for the spike protein of all major *** predominant direction of SARS-CoV-2 evolution lies neither in promoting ACE2 affinity nor evading mAb neutralization but in maintaining a delicate balance between these two ***,this review interprets how RBD mutations efficiently resist antibody neutralization and meanwhile how the affinity between ACE2 and spike protein is maintained,emphasizing the significance of comprehensive assessment of spike mutations.

关键词： ACE2 affinity maintained

RIPK1 plays a crucial role in maintaining regulatory T-Cell homeostasis by inhibiting both RIPK3-and FADD-mediated cell death

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Cellular & Molecular Immunology 2024年第1期21卷 80-90页

作者： Xiaoxue Deng Lingxia Wang Yunze Zhai Qiuyue Liu Fengxue Du Yu Zhang Wenxing Zhao Tingtao Wu Yiwen Tao Jie Deng Yongbing Cao Pei Hao Jiazi Ren Yunli Shen Zuoren Yu Yuejuan Zheng Haibing Zhang Haikun Wang State Key Laboratory of Cardiology Shanghai East HospitalTongji University School of MedicineShanghai200120China CAS Key Laboratory of Molecular virology and Immunology Shanghai Institute of Immunity and InfectionChinese Academy of SciencesUniversity of Chinese Academy of SciencesShanghai200031China CAS Key Laboratory of Nutrition Metabolism and Food SafetyShanghai Institute of Nutrition and HealthShanghai Institutes for Biological SciencesUniversity of Chinese Academy of SciencesChinese Academy of SciencesShanghai200031China The Research Center for Traditional Chinese Medicine Shanghai Institute of Infectious Diseases and BiosecurityShanghai University of Traditional Chinese MedicineShanghai201203China institute of Vascular Disease Shanghai TCM-Integrated HospitalShanghai University of Traditional Chinese MedicineShanghai200433China

Regulatory T(T_(reg))cells play an essential role in maintaining immune balance across various physiological and pathological ***,the mechanisms underlying T_(reg)homeostasis remain incompletely ***,we report that RIPK1 is crucial for T_(reg) cell survival and *** generated mice with T_(reg) cell-specific ablation of Ripk1 and found that these mice developed fatal systemic autoimmunity due to a dramatic reduction in the Treg cell compartment caused by excessive cell *** conventional T cells,Treg cells with Ripk1 deficiency were only partially rescued from cell death by blocking FADD-dependent ***,simultaneous removal of both Fadd and Ripk3 completely restored the homeostasis of Ripk1-deficient Treg cells by blocking two cell death ***,our study highlights the critical role of RIPK1 in regulating Treg cell homeostasis by controlling both apoptosis and necroptosis,thereby providing novel insights into the mechanisms of Treg cell homeostasis.

关键词： Treg cell Homeostasis Apoptosis Necroptosis

Quantum discord and its dynamics for multipartite systems

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Chinese Physics B 2024年第6期33卷 168-175页

作者：罗嘉欣郭琼 College of Sciences Shanghai Institute of TechnologyShanghai 201418China

Quantum discord, one of the famous quantum correlations, has been recently generalized to multipartite systems by Radhakrishnan et al. Here we give analytical solutions of the quantum discord for a family of N-qubit quantum states. For the bipartite system, we derive a zero quantum discord which will remain unchanged under the phase damping channel. For multiparitite systems, it is found that the quantum discord can be classified into three categories and the quantum discord for odd-partite systems can exhibit freezing under the phase damping channel, while the freezing does not exist in the even-partite systems.

关键词： quantum discord multipartite systems decoherence channels frozen discord

Endogenous retrovirus activation: potential for immunology and clinical applications

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National Science Review 2024年第4期11卷 21-23页

作者： Jundan Yu Peishan Qiu Jingwen Ai Bo Liu Guan-Zhu Han Fan Zhu Wenhong Zhang Jie Cui Department of Infectious Diseases Shanghai Key Laboratory of Infectious Diseases and Biosafety Emergency Response National Medical Center for Infectious Diseases Huashan Hospital Shanghai Medical College Fudan University CAS Key Laboratory of Molecular virology &Immunology Shanghai Institute of Immunity and Infection Chinese Academy of Sciences University of Chinese Academy of Sciences shanghai Huashen institute of Microbes and Infections College of Life Sciences Nanjing Normal University State Key Laboratory of virology and Department of Medical Microbiology School of Basic Medical SciencesWuhan University The institute of Infection and Health Research Fudan University Key Laboratory of Medical Molecular virology(MOE/MOH) Shanghai Medical CollegeFudan University Laboratory for Marine Biology and Biotechnology Qingdao Marine Science and Technology Center

Endogenous retroviruses (ERVs), the remnants of ancient retrovirus infections, constitute approximately 8% of the human genome and play important roles in human evolution, development,and diseases. Multiple drugs, such as DNA methyltransferase inhibitors and lysine-specific histone demethylase 1inhibitors, reactivate ERVs, induce viral mimicry and trigger innate immune responses to enhance tumor immunogenicity.

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Strong shock propagation for the finite-source circular blast in a confined domain

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Applied Mathematics and Mechanics(English Edition) 2024年第6期45卷 1071-1084页

作者： Qihang MA Kaileong CHONG Bofu WANG Quan ZHOU shanghai Key Laboratory of Mechanics in Energy Engineering Shanghai Institute of Applied Mathematics and MechanicsSchool of Mechanics and Engineering ScienceShanghai UniversityShanghai 200072China shanghai institute of Aircraft Mechanics and Control Shanghai 200092China

The circular explosion wave produced by the abrupt discharge of gas from a high-temperature heat source serves as a crucial model for addressing explosion phenomena in compressible *** reflection of the primary shock and its propagation within a confined domain are studied both theoretically and numerically in this *** the assumption of strong shock,the scaling law governing propagation of the main shock is *** dimensionless frequency of reflected shock propagation is associated with the confined *** numerical simulation for the circular explosion problem in a confined domain is performed for *** the influence of confinement,the principal shock wave systematically undergoes reflection within the domain until it weakens,leading to the non-monotonic attenuation of kinetic energy in the explosion fireball and periodic oscillations of the fireball volume with a certain *** simulation results indicate that the frequency of kinetic energy attenuation and the volume oscillation of the explosive fireball align consistently with the scaling law.

关键词： explosion confinement main shock frequency

Dirac method for nonlinear and non-homogenous boundary value problems of plates

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Applied Mathematics and Mechanics(English Edition) 2024年第1期45卷 15-38页

作者： Xiaoye MAO Jiabin WU Junning ZHANG Hu DING Liqun CHEN shanghai Key Laboratory of Mechanics in Energy Engineering Shanghai Frontier Science Center of MechanoinformaticsShanghai Institute of Applied Mathematics and MechanicsSchool of Mechanics and Engineering ScienceShanghai UniversityShanghai 200444China shanghai institute of Aircraft Mechanics and Control Shanghai 200092China

The boundary value problem plays a crucial role in the analytical investigation of continuum dynamics. In this paper, an analytical method based on the Dirac operator to solve the nonlinear and non-homogeneous boundary value problem of rectangular plates is proposed. The key concept behind this method is to transform the nonlinear or non-homogeneous part on the boundary into a lateral force within the governing function by the Dirac operator, which linearizes and homogenizes the original boundary, allowing one to employ the modal superposition method for obtaining solutions to reconstructive governing equations. Once projected into the modal space, the harmonic balance method(HBM) is utilized to solve coupled ordinary differential equations(ODEs)of truncated systems with nonlinearity. To validate the convergence and accuracy of the proposed Dirac method, the results of typical examples, involving nonlinearly restricted boundaries, moment excitation, and displacement excitation, are compared with those of the differential quadrature element method(DQEM). The results demonstrate that when dealing with nonlinear boundaries, the Dirac method exhibits more excellent accuracy and convergence compared with the DQEM. However, when facing displacement excitation, there exist some discrepancies between the proposed approach and simulations;nevertheless, the proposed method still accurately predicts resonant frequencies while being uniquely capable of handling nonuniform displacement excitations. Overall, this methodology offers a convenient way for addressing nonlinear and non-homogenous plate boundaries.

关键词： rectangular plate Dirac operator nonlinear boundary time-dependent boundary boundary value problem

Parametric resonance of axially functionally graded pipes conveying pulsating fluid

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Applied Mathematics and Mechanics(English Edition) 2024年第2期45卷 239-260页

作者： Jie JING Xiaoye MAO Hu DING Liqun CHEN shanghai Key Laboratory of Mechanics in Energy Engineering Shanghai Frontier Science Center of MechanoinformaticsShanghai Institute of Applied Mathematics and MechanicsSchool of Mechanics and Engineering ScienceShanghai UniversityShanghai 200444China shanghai institute of Aircraft Mechanics and Control Shanghai 200092China

Based on the generalized Hamilton's principle,the nonlinear governing equation of an axially functionally graded(AFG)pipe is *** non-trivial equilibrium configuration is superposed by the modal functions of a simply supported *** the direct multi-scale method,the response and stability boundary to the pulsating fluid velocity are solved analytically and verified by the differential quadrature element method(DQEM).The influence of Young's modulus gradient on the parametric resonance is investigated in the subcritical and supercritical *** general,the pipe in the supercritical region is more sensitive to the pulsating *** nonlinearity changes from hard to soft,and the non-trivial equilibrium configuration introduces more frequency components to the ***,the increasing Young's modulus gradient improves the critical pulsating flow velocity of the parametric resonance,and further enhances the stability of the *** addition,when the temperature increases along the axial direction,reducing the gradient parameter can enhance the response *** work further complements the theoretical analysis of pipes conveying pulsating fluid.

关键词： pipe conveying fluid axially functionally graded supercritical resonance multi-scale method parametric resonance

An improved interval model updating method via adaptive Kriging models

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Applied Mathematics and Mechanics(English Edition) 2024年第3期45卷 497-514页

作者： Sha WEI Yifeng CHEN Hu DING Liqun CHEN shanghai Key Laboratory of Mechanics in Energy Engineering Shanghai Frontier Science Center of MechanoinformaticsShanghai Institute of Applied Mathematics and MechanicsSchool of Mechanics and Engineering ScienceShanghai UniversityShanghai 200072China shanghai institute of Aircraft Mechanics and Control Shanghai 200092China

Interval model updating(IMU)methods have been widely used in uncertain model updating due to their low requirements for sample ***,the surrogate model in IMU methods mostly adopts the one-time construction *** makes the accuracy of the surrogate model highly dependent on the experience of users and affects the accuracy of IMU ***,an improved IMU method via the adaptive Kriging models is *** method transforms the objective function of the IMU problem into two deterministic global optimization problems about the upper bound and the interval diameter through universal grey *** optimization problems are addressed through the adaptive Kriging models and the particle swarm optimization(PSO)method to quantify the uncertain parameters,and the IMU is *** the construction of these adaptive Kriging models,the sample space is gridded according to sensitivity *** sampling is then performed in key subspaces based on the maximum mean square error(MMSE)*** interval division coefficient and random sampling coefficient are adaptively adjusted without human interference until the model meets accuracy *** effectiveness of the proposed method is demonstrated by a numerical example of a three-degree-of-freedom mass-spring system and an experimental example of a butted cylindrical *** results show that the updated results of the interval model are in good agreement with the experimental results.

关键词： interval model updating(IMU) non-probabilistic uncertainty adaptive Kriging model surrogate model grey number

The study of intelligent algorithm in particle identification of heavy-ion collisions at low and intermediate energies

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Nuclear Science and Techniques 2024年第2期35卷 170-182页

作者： Gao-Yi Cheng Qian-Min Su Xi-Guang Cao Guo-Qiang Zhang School of Electronic and Electrical Engineering Shanghai University of Engineering ScienceShanghai 201620China shanghai Advanced Research institute Chinese Academy of SciencesShanghai 201210China shanghai institute of Applied Physics Chinese Academy of SciencesShanghai 201800China

Traditional particle identification methods face timeconsuming,experience-dependent,and poor repeatability challenges in heavy-ion collisions at low and intermediate *** urgently need solutions to the dilemma of traditional particle identification *** study explores the possibility of applying intelligent learning algorithms to the particle identification of heavy-ion collisions at low and intermediate *** intelligent algorithms,including XgBoost and TabNet,were selected to test datasets from the neutron ion multi-detector for reaction-oriented dynamics(NIMROD-ISiS)and Geant4 ***-based machine learning algorithms and deep learning algorithms *** show excellent performance and generalization *** additional data features besides energy deposition can improve the algorithm’s performance when the data distribution is *** learning algorithms can be applied to solve the particle identification problem in heavy-ion collisions at low and intermediate energies.

关键词： Heavy-ion collisions at low and intermediate energies Machine learning Ensemble learning algorithm Particle identification Data imbalance

High-precision X-ray polarimeter based on channel-cut crystals

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Nuclear Science and Techniques 2024年第3期35卷 30-39页

作者： Shang-Yu Si Zhong-Liang Li Wen-Hong Jia Lian Xue Hong-Xin Luo Jian-Cai Xu Bai-Fei Shen Lin-Gang Zhang Liang-Liang Ji Yu-Xin Leng Ren-Zhong Tai shanghai institute of Applied Physics Chinese Academy of SciencesShanghai 201800China University of Chinese Academy of Sciences Beijing 100049China shanghai Synchrotron Radiation Facility Shanghai Advanced Research InstituteChinese Academy of SciencesShanghai 201204China shanghai institute of Optics and Fine Mechanics Chinese Academy of SciencesShanghai 201800China

We report on using synthetic silicon for a high-precision X-ray polarimeter comprising a polarizer and an analyzer,each based on a monolithic channel-cut crystal used at multiple Brewster reflections with a Bragg angle very close to 45°.Experiments were performed at the BL09B bending magnet beamline of the shanghai Synchrotron Radiation Facility using a Si(800)crystal at an X-ray energy of 12.914 keV.A polarization purity of 8.4×10^(-9)was *** result is encouraging,as the measured polarization purity is the best-reported value for the bending magnet ***,this is the firstly systematic study on the hard X-ray polarimeter in China,which is crucial for exploring new physics,such as verifying vacuum birefringence.

关键词： X-ray polarimeter Vacuum birefringence Synchrotron radiation Channel-cut crystal