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Advances and applications in single-cell and spatial genomics

Science China Life Sciences 2025年

作者： Jingjing Wang Fang Ye Haoxi Chai Yujia Jiang Teng Wang Xia Ran Qimin Xia ziye xu Yuting Fu Guodong Zhang Hanyu Wu Guoji Guo Hongshan Guo Yijun Ruan Yongcheng Wang Dong Xing xun xu Zemin Zhang Beijing Advanced Innovation Center for Genomics (ICG) Peking University Guangdong Provincial Key Laboratory of Genome Read and Write BGI Research Bone Marrow Transplantation Center of the First Affiliated Hospital & Liangzhu Laboratory Zhejiang University School of Medicine Life Sciences Institute and The Second Affiliated Hospital Zhejiang University BGI Research Biomedical Pioneering Innovation Center (BIOPIC) and School of Life Sciences Peking University Academy for Advanced Interdisciplinary Studies Peking University Institute of Hematology Zhejiang University Department of Laboratory Medicine of The First Affiliated Hospital & Liangzhu Laboratory Zhejiang University School of Medicine Center for Stem Cell and Regenerative Medicine Zhejiang University School of Medicine Zhejiang Provincial Key Lab for Tissue Engineering and Regenerative Medicine Dr.Li Dak Sum & Yip Yio Chin Center for Stem Cell and Regenerative Medicine

The applications of single-cell and spatial technologies in recent times have revolutionized the present understanding of cellular states and the cellular heterogeneity inherent in complex biological systems. These advancements offer unprecedented resolution in the examination of the functional genomics of individual cells and their spatial context within tissues. In this review, we have comprehensively discussed the historical development and recent progress in the field of single-cell and spatial genomics. We have reviewed the breakthroughs in single-cell multi-omics technologies, spatial genomics methods, and the computational strategies employed toward the analyses of singlecell atlas data. Furthermore, we have highlighted the advances made in constructing cellular atlases and their clinical applications,particularly in the context of disease. Finally, we have discussed the emerging trends, challenges, and opportunities in this rapidly evolving field.

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Cellular and Transcriptional Dynamics during Brown Adipose Tissue Regeneration under Acute Injury

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Research 2024年第3期2023卷 345-357页

作者： Wenjing You ziye xu Wentao Chen Xin Yang Shiqi Liu Liyi Wang Yuang Tu Yanbing Zhou Teresa G.Valencak Yizhen Wang Shihuan Kuang Tizhong Shan College of Animal Sciences Zhejiang UniversityHangzhouChina The Key Laboratory of Molecular Animal Nutrition Ministry of EducationHangzhouChina Zhejiang Provincial Laboratory of Feed and Animal Nutrition HangzhouChina Department of Laboratory Medicine the First Affiliated HospitalCollege of MedicineZhejiang UniversityHangzhouChina Department of Animal Sciences Purdue UniversityWest LafayetteINUSA.

Brown adipose tissue(BAT)is the major site of non-shivering thermogenesis and crucial for systemic *** chronic cold exposures and high-fat diet challenges,BAT undergoes robust remodeling to adapt to physiological ***,whether and how BAT regenerates after acute injuries are poorly ***,we established a novel BAT injury and regeneration model(BAT-IR)in mice and performed single-cell RNA sequencing(scRNA-seq)and bulk RNA-seq to determine cellular and transcriptomic dynamics during *** further defined distinct fibro-adipogenic and myeloid progenitor populations contributing to BAT *** trajectory and gene expression analyses uncovered the involvement of MAPK,Wnt,and Hedgehog(Hh)signaling pathways in BAT *** confirmed the role of Hh signaling in BAT development through Myf5Cre-mediated conditional knockout(cKO)of the Sufu gene to activate Hh signaling in BAT and muscle *** BAT-IR model therefore provides a paradigm to identify conserved cellular and molecular mechanisms underlying BAT development and remodeling.

关键词： injuries involvement acute

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Functional connectivity between dorsal attention and default mode networks mediates subjective sleep duration and depression in young females

Functional connectivity between dorsal attention and default...

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中国睡眠研究会第十五届全国学术年会

作者： ziye xu xu Lei Wenrui Zhao Haien Wang Yun Tian Southwest University

Background: Depression prevails throughout the *** females are more likely to suffer from depression because of lack of ***: We recruited 405 young female participants to assess their subjective sleep duration and self-rating *** resting-state magnetic resonance imaging(rs-fMRI) data were collected to identify the brain regions related to sleep duration and depression, and a mediating model was established among sleep duration, depression and functional connectivity(FC) of ***: Correlation analysis indicated that subjective sleep duration was negatively associated with self-rating depression in young females(r =-0.22, p <.001).The network connectivity between dorsal attention network(DAN) and default mode network(DMN) positively correlated with self-rating depression(r = 0.13, p <.05), and negatively correlated with subjective sleep duration(r =-0.14, p <.01).Furthermore, the mediation analysis revealed that the FC of DAN-DMN significantly mediated the effect of sleep duration on ***: The study was a cross-section design and the sleep duration of the participants was subjectively *** studies should consider to track the participants longitudinally and to measure the objective sleep duration by actigraph or ***: The participants with less sleep duration are more prone to develop depression *** FC of DAN-DMN mediated the effect of sleep duration on ***, the FC of DAN-DMN could be consider as a neural target to relieve depression by increasing sleep duration in young females.

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超时工作现象与劳动法制度设计的应对

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工会理论研究 2019年第3期 12-20页

作者：陆敬波徐子晔上海江三角律师事务所

超时工作具有普遍性、制度性、文化性和违法性等主要特点,使劳动者透支身心健康、不利于学习提高,也无益于企业效益的增加,还具有不容忽视的社会危害。从目前劳动法制度看,超时工作的成因有工作时间界定不清、工时法律规制僵化、过劳损... 详细信息

超时工作具有普遍性、制度性、文化性和违法性等主要特点,使劳动者透支身心健康、不利于学习提高,也无益于企业效益的增加,还具有不容忽视的社会危害。从目前劳动法制度看,超时工作的成因有工作时间界定不清、工时法律规制僵化、过劳损害认定困难、违法追究力度有限等方面。因此,治理超时工作,需要完善现有工时界定,探索新型工作模式,并完善“过劳死”预防规制,加强违法责任追究,从而优化现有劳动法制度。

关键词：超时工作劳动法律制度应对

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Aquaporin-4-IgG-seropositive neuromyelitis optica spectrum disorders:progress of experimental models based on disease pathogenesis

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Neural Regeneration Research 2025年第2期20卷 354-365页

作者： Li xu Huiming xu Changyong Tang Department of Neurology The Third Affiliated Hospital of Sun Yat-sen UniversityGuangzhouGuangdong ProvinceChina

Neuromyelitis optica spectrum disorders are neuroinflammatory demyelinating disorders that lead to permanent visual loss and motor *** date,no effective treatment exists as the exact causative mechanism remains ***,experimental models of neuromyelitis optica spectrum disorders are essential for exploring its pathogenesis and in screening for therapeutic *** most patients with neuromyelitis optica spectrum disorders are seropositive for IgG autoantibodies against aquaporin-4,which is highly expressed on the membrane of astrocyte endfeet,most current experimental models are based on aquaporin-4-IgG that initially targets *** experimental models have successfully simulated many pathological features of neuromyelitis optica spectrum disorders,such as aquaporin-4 loss,astrocytopathy,granulocyte and macrophage infiltration,complement activation,demyelination,and neuronal loss;however,they do not fully capture the pathological process of human neuromyelitis optica spectrum *** this review,we summarize the currently known pathogenic mechanisms and the development of associated experimental models in vitro,ex vivo,and in vivo for neuromyelitis optica spectrum disorders,suggest potential pathogenic mechanisms for further investigation,and provide guidance on experimental model *** addition,this review summarizes the latest information on pathologies and therapies for neuromyelitis optica spectrum disorders based on experimental models of aquaporin-4-IgG-seropositive neuromyelitis optica spectrum disorders,offering further therapeutic targets and a theoretical basis for clinical trials.

关键词： aquaporin-4 experimental model neuromyelitis optica spectrum disorder pathogenesis

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Reducing the measurement errors in nonadiabatic holonomic quantum computers

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Science China(Physics,Mechanics & Astronomy) 2025年第1期Mechanics & Astronomy) .卷 64-70页

作者： Guo-Fu xu Department of Physics Shandong University

Nonadiabatic holonomic quantum computers serve as the physical platform for nonadiabatic holonomic quantum *** quantum computation has entered the noisy intermediate-scale era, building accurate intermediate-scale nonadiabatic holonomic quantum computers is clearly necessary. Given that measurements are the sole means of extracting information, they play an indispensable role in nonadiabatic holonomic quantum computers. Accordingly, developing methods to reduce measurement errors in nonadiabatic holonomic quantum computers is of great importance. However, while much attention has been given to the research on nonadiabatic holonomic gates, the research on reducing measurement errors in nonadiabatic holonomic quantum computers is severely lacking. In this study, we propose a measurement error reduction method tailored for intermediate-scale nonadiabatic holonomic quantum computers. The reason we say this is because our method can not only reduce the measurement errors in the computer but also be useful in mitigating errors originating from nonadiabatic holonomic gates. Given these features,our method significantly advances the construction of accurate intermediate-scale nonadiabatic holonomic quantum computers.

关键词： quantum holonomy quantum computation measurement errors

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学生主体、多元参与:约翰斯·霍普金斯大学本科生课程质量保障体系研究

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扬州大学学报（高教研究版） 2022年第2期26卷 104-112页

作者：周婕徐子叶汪霞南京大学教育研究院江苏南京210023

课程质量保障是教育质量保障的重要环节。基于“以学生为中心”视角,运用泰勒原理对约翰斯·霍普金斯大学生物医学工程专业的本科课程体系进行分析,发现该专业通过确定面向未来的课程目标,选择了“BME 2.0”课程体系,并通过“成长金字... 详细信息

课程质量保障是教育质量保障的重要环节。基于“以学生为中心”视角,运用泰勒原理对约翰斯·霍普金斯大学生物医学工程专业的本科课程体系进行分析,发现该专业通过确定面向未来的课程目标,选择了“BME 2.0”课程体系,并通过“成长金字塔”组织课程,建立了学习质量评价与课程评估反馈机制,以便进一步调整课程目标,从而保障了课程质量。该专业独特的课程质量保障体系为其他工科类专业的课程建设和课程质量提升提供了借鉴。我国工科专业的本科课程设置应进一步明确使命及目标,紧密结合现实问题和社会热点设置课程内容,提供充分的资源支持学生学习,完善相关课程评价机制。

关键词：以学生为中心课程质量保障本科课程约翰斯·霍普金斯大学

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再生粗骨料沙漠砂混凝土配合比试验研究

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混凝土 2023年第7期 169-172,176页

作者：许梓晔杨维武刘海峰宁夏大学土木与水利工程学院宁夏银川750021

为探究将沙漠砂与再生粗骨料结合应用配制混凝土的可行性,设计四因素三水平正交试验,进行再生粗骨料沙漠砂混凝土和易性和抗压强度试验,分析水胶比、砂率、沙漠砂替代率和再生粗骨料替代率对再生粗骨料沙漠砂混凝土和易性、7 d与28 d抗... 详细信息

为探究将沙漠砂与再生粗骨料结合应用配制混凝土的可行性,设计四因素三水平正交试验,进行再生粗骨料沙漠砂混凝土和易性和抗压强度试验,分析水胶比、砂率、沙漠砂替代率和再生粗骨料替代率对再生粗骨料沙漠砂混凝土和易性、7 d与28 d抗压强度的影响。试验结果表明:采用再生粗骨料部分替代天然粗骨料、沙漠砂部分替代中砂配制混凝土是可行的。从强度与和易性角度出发,得到C30混凝土最优配合比为水胶比0.4、砂率28%、沙漠砂替代率40%和再生粗骨料替代率50%。

关键词：沙漠砂混凝土再生粗骨料配合比正交试验

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Mitophagy in acute central nervous system injuries:regulatory mechanisms and therapeutic potentials

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Neural Regeneration Research 2025年第9期20卷 2437-2453页

作者： Siyi xu Junqiu Jia Rui Mao Xiang Cao Yun xu Department of Neurology Nanjing Drum Tower HospitalClinical College of Jiangsu UniversityNanjingJiangsu ProvinceChina Department of Neurology Nanjing Drum Tower HospitalChinese Academy of Medical Science&Peking Union Medical CollegeNanjingJiangsu ProvinceChina Department of Neurology Nanjing Drum Tower HospitalAffiliated Hospital of Medical SchoolNanjing UniversityNanjingJiangsu ProvinceChina State Key Laboratory of Pharmaceutical Biotechnology and Institute of Translational Medicine for Brain Critical Diseases Nanjing UniversityNanjingJiangsu ProvinceChina Jiangsu Key Laboratory for Molecular Medicine Medical School of Nanjing UniversityNanjingJiangsu ProvinceChina Nanjing Neurology Medical Center NanjingJiangsu ProvinceChina

Acute central nervous system injuries,including ischemic stro ke,intracerebral hemorrhage,subarachnoid hemorrhage,traumatic brain injury,and spinal co rd injury,are a major global health *** optimal therapies and improving the long-term neurological functions of patients with acute central nervous system injuries are urgent *** are susceptible to damage after acute central nervous system injury,and this leads to the release of toxic levels of reactive oxygen species,which induce cell ***,a selective form of autophagy,is crucial in eliminating redundant or damaged mitochondria during these *** evidence has highlighted the significant role of mitophagy in acute central nervous system *** this review,we provide a comprehensive overview of the process,classification,and related mechanisms of *** also highlight the recent developments in research into the role of mitophagy in various acute central nervous system injuries and drug therapies that regulate *** the final section of this review,we emphasize the potential for treating these disorders by focusing on mitophagy and suggest future research paths in this area.

关键词： autophagy intracerebral hemorrhage ischemic stroke mitochondria mitochondrial biogenesis mitochondrial quality control mitophagy spinal cord injury subarachnoid hemorrhage traumatic brain injury

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Boosting Photocatalytic Performance of Cu-Mn Co-doped CeO_(2) Nanoparticles for Tetracycline Degradation

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Journal of Wuhan University of Technology(Materials Science) 2025年第1期40卷 42-48页

作者： xu Rongqi MI Jianxin WANG Shulin xu Man ZHU Li BAI Lei TANG Dandan LEI Yu Engineering Research Center of Environmental Materials and Membrane Technology of Hubei Province School of Materials Science and EngineeringWuhan Institute of TechnologyWuhan 430205China Shaanxi Coal Chemical Industry Technology Research Institute Co. Ltd.Xi’an 710100China

Cu-Mn co-doped CeO_(2) photocatalyst was successfully synthesized by the sol-gel method to assess its capability in degrading *** and TEM results showed that Cu and Mn were successfully co-doped into CeO_(2) without forming heterostructure,XPS and photoelectrochemical results revealed that Mn ions doping amplified the generation of photo-induced charge carriers,while Cu ions doping significantly facilitated the interfacial charge transfer ***,the optimized Cu3Mn2CeO_(2) nanoparticles exhibited the highest TC removal efficiency,achieved a rate of 78.18%and maintained a stable cycling performance.

关键词： photocatalyst co-doped charge separation water treatment

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