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Single-cell omics:experimental workflow,data analyses and applications

Science China Life Sciences 2024年

作者： Fengying Sun Haoyan Li Dongqing Sun Shaliu Fu Lei Gu Xin Shao Qinqin Wang Xin Dong Bin Duan Feiyang Xing Jun Wu Minmin Xiao Fangqing Zhao Jing-Dong J.Han Qi Liu Xiaohui Fan Chen Li Chenfei Wang Tieliu Shi Center for Bioinformatics and Computational Biology Shanghai Key Laboratory of Regulatory Biology the Institute of Biomedical Sciences and School of Life Sciences East China Normal University Beijing Institutes of Life Science Chinese Academy of Sciences Peking-Tsinghua Center for Life Sciences Academy for Advanced Interdisciplinary Studies Center for Quantitative Biology (CQB) Peking University Zhejiang Key Laboratory of Precision Diagnosis and Therapy for Major Gynecological Diseases Women’s Hospital Zhejiang University School of Medicine Key Laboratory of Advanced Theory and Application in Statistics and Data Science-MOE School of Statistics East China Normal University Shanghai 200062 China Department of Clinical Laboratory the Affiliated Wuhu Hospital of East China Normal University (The Second People's Hospital of Wuhu City) Pharmaceutical Informatics Institute College of Pharmaceutical Sciences Zhejiang University Key Laboratory of Spine and Spinal Cord Injury Repair and Regeneration (Tongji university) Ministry of Education Orthopaedic Department Tongji Hospital Bioinformatics Department School of Life Sciences and Technology Tongji University Frontier Science Center for Stem Cells School of Life Sciences and Technology Tongji University Translational Medical Center for Stem Cell Therapy and Institute for Regenerative Medicine Shanghai East Hospital Bioinformatics Department School of Life Sciences and Technology Tongji University Research Institute of Intelligent Computing Zhejiang Lab Shanghai Research Institute for Intelligent Autonomous Systems Center for Single-cell Omics School of Public Health Shanghai Jiao Tong University School of Medicine National Key Laboratory of Chinese Medicine Modernization Innovation Center of Yangtze River Delta Zhejiang University

Cells are the fundamental units of biological systems and exhibit unique development trajectories and molecular features. Our exploration of how the genomes orchestrate the formation and maintenance of each cell, and control the cellular phenotypes of various organismsis, is both captivating and intricate. Since the inception of the first single-cell RNA technology, technologies related to single-cell sequencing have experienced rapid advancements in recent years. These technologies have expanded horizontally to include single-cell genome, epigenome,proteome, and metabolome, while vertically, they have progressed to integrate multiple omics data and incorporate additional information such as spatial scRNA-seq and CRISPR screening. Single-cell omics represent a groundbreaking advancement in the biomedical field,offering profound insights into the understanding of complex diseases, including cancers. Here, we comprehensively summarize recent advances in single-cell omics technologies, with a specific focus on the methodology section. This overview aims to guide researchers in selecting appropriate methods for single-cell sequencing and related data analysis.

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Fabrication and Wettability of ZnO Nanorod Array

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Journal of Materials Science & Technology 2009年第1期25卷 53-57页

作者： Meng Sun Yi Du Weichang Hao Huaizhe Xu Youxing Yu Tianmin Wang Centre of Materials Physics and Chemistry Beihang University Beijing 100083 China Department of Technology and Physics Zhengzhou University of Light Industry Zhengzhou 450002 China School of Science Beihang University Beijing 100083 China

ZnO nanorod arrays were prepared in an open system by using a simple aqueous solution method. Spindlelike, wimble-like, tower-like and hexagonal rod-like ZnO rods were obtained under different conditions. ZnO nanorod arrays with different morphology and size were studied by X-ray diffraction （XRD）, scanning electron microscopy （SEM）, and contact angle measurement （CAM）. The size of ordered zinc oxide rods can be controlled by temperature of water bath, because this temperature can influences growing speeds in different crystal directions. Some additives, such as urea and thiourea, were introduced into reaction solution to improve quality of arrays. Surface character of ZnO nanorod arrays can be changed from hydrophilic to hydrophobic, which was proved to be dependence on size of air grooves on surface.

关键词： ZnO Nanorod array Wettability Hydrophilic Hydrophobic

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Effect of dendrite arm spacing and the γ' phase size on stress rupture properties of Ni_3Al-base single crystal superalloy IC6SX

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Science China(Technological Sciences) 2010年第6期53卷 1460-1465页

作者： JIANG LiWu1,LI ShuSuo1,WU MeiLing1 & HAN YaFang1,2 1 School of Materials Science and Engineering,beihang university,Beijing 100191,China 2 Beijing Institute of Aeronautical Materials,Beijing 100095,China School of Materials Science and Engineering Beihang University Beijing China Beijing Institute of Aeronautical Materials Beijing China

The effect of dendrite arm spacing and the size of γ' phase on stress rupture properties of as-cast Ni3Al-based single crystal superalloy IC6SX was *** has been found that the stress rupture properties were affected by dendrite arm spacing and the size of γ' phase significantly,i.e.,the stress rupture lives of as-cast specimens under the test condition of 1100°C/120 MPa were significantly increased from about 10 h to 31 h with decreasing dendrite arm spacing and the size of γ' phase from 3.0 μm and 1.6 μm to 1.3 μm and 0.8 μm,*** creep cracks generated easily in the brittle Y-NiMo *** the cracks gradually mergered and grew up during creep,and finally led to specimens *** orientated coarsening of γ' phase has been found in the stress ruptured specimens,due to the elements ***,the γ' phase did not form the integrated structure during the short periods of 10-31 h as the creep tests lasted.

关键词： dendrite arm spacing size of γ’ phase Ni3Al-based single crystal stress rupture property

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Tautening effect mechanism of titanium-alloy InterTAN nail

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Rare Metals 2023年第12期42卷 4226-4233页

作者： Xiang-Sheng Gao Sheng-Kai Ma Wang-Ao-Ran Chen Min Wang Qi Pan Zi-Yu Liu Beijing Key Laboratory of Advanced Manufacturing Technology Faculty of Materials and ManufacturingBeijing University of TechnologyBeijing 100124China The Fourth People's Hospital of Jinan Jinan 250031China School of Engineering Medicine Beihang UniversityBeijing 100191China Division of Surgery&Interventional Science University College LondonRoyal National Orthopaedic HospitalLondon HA74LPUK

Although InterTAN(IT)nails are widely employed to treat femoral intertrochanteric fractures,the mechanism behind the tautening effect of titanium-alloy IT nails is not well *** study aimed to reveal the mechanism of this effect.A torque test experiment was conducted,with the torque value recorded and transformed to obtain the tautening ***,theoretical and finite element analyses were performed to further understand the *** influence of age and pitch-difference on the tautening effect was also examined in the study,the results attributed to the pitch-varying integrated interlocking lag *** torque and the corresponding tautening effect drastically increase as the screw is inserted deeper during the second stage,while the torque measured in the first stage is always ***,the tautening force increases with increasing age,this relationship helps evaluate the effect at different *** tautening effect also increases nearly linearly with the pitch difference,which can be adjusted during the IT design stage to select or design IT in engineering practice.

关键词： Tautening effect InterTAN nail Finite element analysis Torque

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A method based on magnetic moment measurement to identify the structural transition of quenched Fe_(1-x)Ga_x(x=0.15-0.30) alloys

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Chinese Physics B 2011年第7期20卷 421-425页

作者：朱小溪刘敬华徐翔蒋成保 School of Materials Science and Engineering Beihang University

A method based on the measurement of Fe average atomic magnetic moment to identify the structural transition caused by the increase of Ga content in quenched Fe1-xGax alloys （0.15 ≤ x ≤0.30） is proposed. The quenched Fe1-xGax alloys show a change of the Fe average atomic magnetic moment from 2.25μB to 1.78μB and then to 1.58μB, which corresponds to the structural transition from A2 to D03 and then to B2. The relationship between the structure and the magnetostriction is clarified, and the maximum magnetostriction appears in the A2 phase. The variation tendency of the magnetostriction is well characterized, which also reflects the structural transition.

关键词： magnetic moment structure magnetostrictions Fe-Ga alloy

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Closed-form solutions for free vibration of rectangular FGM thin plates resting on elastic foundation

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Acta Mechanica Sinica 2016年第6期32卷 1088-1103页

作者： T. F. Xu Y. F. Xing Institute of Solid Mechanics Beihang UniversityBeijing 100191 China China Academy of Launch Vehicle Technology R&D Center Beijing 100076 China

This article presents closed-form solutions for the frequency analysis of rectangular functionally graded material (FGM) thin plates subjected to initially in-plane loads and with an elastic foundation. Based on classical thin plate theory, the governing differential equations are derived using Hamilton's principle. A neutral surface is used to eliminate stretching-bending coupling in FGM plates on the basis of the assumption of constant Poisson's ratio. The resulting governing equation of FGM thin plates has the same form as homogeneous thin plates. The separation-of-variables method is adopted to obtain solutions for the free vibration problems of rectangular FGM thin plates with separable boundary conditions, including, for example, clamped plates. The obtained normal modes and frequencies are in elegant closed forms, and present formulations and solutions are validated by comparing present results with those in the literature and finite element method results obtained by the authors. A parameter study reveals the effects of the power law index n and aspect ratio a/b on frequencies.

关键词： Functionally graded material Free vibration Rectangular plate Close form solutions Neutral surface

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Cooperative formation control of multiple aerial vehicles based on guidance route in a complex task environment

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Chinese Journal of Aeronautics 2020年第2期33卷 701-720页

作者： Guibin SUN Rui ZHOU Kun XU Zhi WENG Yuhang ZHANG Zhuoning DONG Yingxun WANG School of Automation Science and Electrical Engineering Beihang UniversityBeijing 100083China State Key Laboratory of Software Development Environment Beihang UniversityBeijing 100083China College of Electronic Information Engineering Inner Mongolia UniversityHohhot 010021China

In recent years,formation control of multi-agent has been a significant research subject in the field of cooperative ***,previous works have mainly concentrated on formation control for simple point-mass model and linear *** contrast,this paper presents a novel cooperative algorithm for multiple air vehicles formation control,which aims to devise a control strategy based on guidance route to achieve precisely coordinated formation control for a group of fixed-wing aircraft in a complex task *** proposed method introduces the leader-follower structure for effective organization of the multi-agent ***,the Partial Integrated Formation and Control(PIFC)is adopted to design the control law for Guidance-Route based Formation Control(GRFC).Additionally,the proposed approach designs two guidance-route generation strategies for two special situations to demonstrate the effectiveness of GRFC in complex task *** analysis reveals that the proposed control protocol for guidance command can ensure the overall stability and tracking accuracy of the *** simulations are performed to illustrate the theoretical results,and verify that the proposed approach can achieve coordinated formation control precisely in a complex task environment.

关键词： Complex task environments Cooperative formation control Fixed-wing aircraft Guidance route Leader-follower structure Partial integrated formation and control

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Modeling for assembly simulations:Data description and a data-driven construction framework

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International Journal of Modeling, Simulation, and Scientific Computing 2017年第2期8卷 220-231页

作者： Lihong Qiao Yifan Qie Yixin Zhu School of Mechanical Engineering and Automation beihang university Engineering Research Center of Complex Product Advanced Manufacturing SystemMinistry of EducationP.R.China

Assembly simulations such as assembly process simulation and assembly tolerance simulation have become an effective means to evaluate and analyze product assembly design and assembly process *** core aspect of simulation implementation,building an assembly simulation model is rather time-consuming because of its high com***,modeling has a significant influence on the popularization and application of simulation *** this paper,data needed by assembly process and tolerance simulation are addressed to propose a data-driven approach for assembly simulation *** application process and the architecture of modeling framework for assembly simulation are presented as *** assembly sequence simulation example is given to illustrate the application of the *** framework provides a new idea for the realization of automatic modeling for assembly simulation.

关键词： Assembly simulation fast modeling data-driven.

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Distributed Collaborative Response Surface Method for Mechanical Dynamic Assembly Reliability Design

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Chinese Journal of Mechanical Engineering 2013年第6期26卷 1160-1168页

作者： BAI Guangchen FEI Chengwei School of Energy and Power Engineering Beihang University

Because of the randomness of many impact factors influencing the dynamic assembly relationship of complex machinery, the reliability analysis of dynamic assembly relationship needs to be accomplished considering the randomness from a probabilistic perspective. To improve the accuracy and efficiency of dynamic assembly relationship reliability analysis, the mechanical dynamic assembly reliability（MDAR） theory and a distributed collaborative response surface method（DCRSM） are proposed. The mathematic model of DCRSM is established based on the quadratic response surface function, and verified by the assembly relationship reliability analysis of aeroengine high pressure turbine（HPT） blade-tip radial running clearance（BTRRC）. Through the comparison of the DCRSM, traditional response surface method（RSM） and Monte Carlo Method（MCM）, the results show that the DCRSM is not able to accomplish the computational task which is impossible for the other methods when the number of simulation is more than 100 000 times, but also the computational precision for the DCRSM is basically consistent with the MCM and improved by 0.40-4.63% to the RSM, furthermore, the computational efficiency of DCRSM is up to about 188 times of the MCM and 55 times of the RSM under 10000 times simulations. The DCRSM is demonstrated to be a feasible and effective approach for markedly improving the computational efficiency and accuracy of MDAR analysis. Thus, the proposed research provides the promising theory and method for the MDAR design and optimization, and opens a novel research direction of probabilistic analysis for developing the high-performance and high-reliability of aeroengine.

关键词： machinery dynamic assembly reliability analysis distributed collaborative response surface method,blade-tip radial running clearance

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Distributed collaborative extremum response surface method for mechanical dynamic assembly reliability analysis

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Journal of Central South university 2013年第9期20卷 2414-2422页

作者：费成巍白广忱 School of Jet Propulsion Beihang University

To make the dynamic assembly reliability analysis more effective for complex machinery of multi-object multi-discipline(MOMD),distributed collaborative extremum response surface method(DCERSM)was proposed based on extremum response surface method(ERSM).Firstly,the basic theories of the ERSM and DCERSM were investigated,and the strengths of DCERSM were proved ***,the mathematical model of the DCERSM was established based upon extremum response surface function(ERSF).Finally,this model was applied to the reliability analysis of blade-tip radial running clearance(BTRRC)of an aeroengine high pressure turbine(HPT)to verify its *** results show that the DCERSM can not only reshape the possibility of the reliability analysis for the complex turbo machinery,but also greatly improve the computational speed,save the computational time and improve the computational efficiency while keeping the ***,the DCERSM is verified to be feasible and effective in the dynamic assembly reliability(DAR)analysis of complex ***,this method offers an useful insight for designing and optimizing the dynamic reliability of complex machinery.

关键词： complex machinery dynamic assembly reliability (DAR) blade-tip radial running clearance (BTRRC) radial deformation reliability analysis distributed collaborative extremum response surface method (DCERSM) multi-object multidiscipline (MOMD)

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