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Skmer approach improves species discrimination in taxonomically problematic genus Schima(Theaceae)

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Plant Diversity 2024年第6期46卷 713-722页

作者： han-ning duan Yin-Zi Jiang Jun-Bo Yang Jie Cai Jian-Li Zhao Lu Li Xiang-Qin Yu CAS Key Laboratory for Plant Diversity and Biogeography of East Asia Kunming Institute of BotanyChinese Academy of SciencesKunming 650201YunnanPR China College of Forestry Southwest Forestry UniversityKunming 650224YunnanPR China Genomics and Genetic Engineering Laboratory of Ornamental Plants College of Agriculture and BiotechnologyZhejiang UniversityHangzhouZhejiangPR China Germplasm Bank of Wild Species Kunming Institute of BotanyChinese Academy of SciencesKunming 650201YunnanPR China Yunnan Key Laboratory of Plant Reproductive Adaptation and Evolutionary Ecology Laboratory of Ecology and Evolutionary BiologySchool of Ecology and Environmental SciencesYunnan UniversityKunming 650500YunnanPR China

Genome skimming has dramatically extended DNA barcoding from short DNA fragments to next generation barcodes in ***,conserved DNA barcoding markers,including complete plastid genome and nuclear ribosomal DNA(nrDNA)sequences,are inadequate for accurate species ***,a recently proposed approach that estimates genetic distances among species based on unassembled genome skims,has been proposed to effectively improve species discrimination *** this study,we used Skmer to identify species based on genomic skims of 47 individuals representing 10 out of 13 species of Schima(Theaceae)from *** unassembled reads identified six species,with a species identification rate of 60%,twice as high as previous efforts that used plastid genomes(27.27%).In addition,Skmer was able to identify Schima species with only 0.5sequencing depth,as six species were well-supported with unassembled data sizes as small as 0.5 *** findings demonstrate the potential for Skmer approach in species identification,where nuclear genomic data plays a crucial *** taxonomically difficult taxa such as Schima,which have diverged recently and have low levels of genetic variation,Skmer is a promising alternative to next generation barcodes.

关键词： Schima Genome skimming Species discrimination Skmer

Preparation and applications of calcium ferrite as a functional material:A review

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International Journal of Minerals,Metallurgy and Materials 2025年第2期32卷 292-310页

作者： Xiuli han Bowen duan Lei Liu Shilong Fang Weiwei Wang College of Mining Engineering North China University of Science and TechnologyTangshan 063210China Collaborative Innovation Center of Green Development and Ecological Restoration of Mineral Resources of Hebei Province Tangshan 063210China Key Laboratory of Mining Development and Security Technology of Hebei Province Tangshan 063210China

Calcium ferrite(CF)is recognized as a potential green and efficient functional material because of its advantages of magnetism,electrochemistry,catalysis,and biocompatibility in the fields of materials chemistry,environmental engineering,and ***-fore,the obtained research results need to be systematically summarized,and new perspectives on CF and its composite materials need to be *** on the presented studies of CF and its composite materials,the types and structures of the crystal are *** addition,the current application technologies and theoretical mechanisms with various properties in different fields are ***,the various preparation methods of CF and its composite materials are elaborated in *** importantly,the advantages and disadvantages of the synthesis methods of CF and its composite materials are discussed,and the existing problems and emerging challenges in practical production are ***,the key future research directions of CF and its composite materials have been prospected from the potential application technologies to provide references for its synthesis and efficient utilization.

关键词： calcium ferrite mineral functional materials preparation application perspectives

Peripheral mitochondrial DNA as a neuroinflammatory biomarker for major depressive disorder

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Neural Regeneration Research 2025年第6期20卷 1541-1554页

作者： Jinmei Ye Cong duan Jiaxin han Jinrong Chen ning Sun Yuan Li Tifei Yuan Daihui Peng Division of Mood Disorder Shanghai Mental Health CenterShanghai Jiao Tong University School of MedicineShanghaiChina Department of Psychiatry First Hospital of Shanxi Medical UniversityTaiyuanShanxi ProvinceChina Shanghai Key Laboratory of Psychotic Disorders Brain Health InstituteNational Center for Mental DisordersShanghai Mental Health CenterShanghai Jiao Tong University School of MedicineShanghaiChina Co-Innovation Center of Neuroregeneration Nantong UniversityNantongJiangsu ProvinceChina

In the pathogenesis of major depressive disorder, chronic stress-related neuroinflammation hinders favorable prognosis and antidepressant response. Mitochondrial DNA may be an inflammatory trigger, after its release from stress-induced dysfunctional central nervous system mitochondria into peripheral circulation. This evidence supports the potential use of peripheral mitochondrial DNA as a neuroinflammatory biomarker for the diagnosis and treatment of major depressive disorder. Herein, we critically review the neuroinflammation theory in major depressive disorder, providing compelling evidence that mitochondrial DNA release acts as a critical biological substrate, and that it constitutes the neuroinflammatory disease pathway. After its release, mitochondrial DNA can be carried in the exosomes and transported to extracellular spaces in the central nervous system and peripheral circulation. Detectable exosomes render encaged mitochondrial DNA relatively stable. This mitochondrial DNA in peripheral circulation can thus be directly detected in clinical practice. These characteristics illustrate the potential for mitochondrial DNA to serve as an innovative clinical biomarker and molecular treatment target for major depressive disorder. This review also highlights the future potential value of clinical applications combining mitochondrial DNA with a panel of other biomarkers, to improve diagnostic precision in major depressive disorder.

关键词： biomarker cytokine exosomes inflammasome major depressive disorder microglia mitochondrial DNA mitochondrial dysfunction neuroinflammation Toll-like receptor

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

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Science China Life Sciences 2025年第1期68卷 5-102页

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 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 SciencesZhejiang University Key Laboratory of Spine and Spinal Cord Injury Repair and Regeneration (Tongji University) Ministry of EducationOrthopaedic DepartmentTongji HospitalBioinformatics DepartmentSchool of Life Sciences and TechnologyTongji University Frontier Science Center for Stem Cells School of Life Sciences and TechnologyTongji University Translational Medical Center for Stem Cell Therapy and Institute for Regenerative Medicine Shanghai East HospitalBioinformatics DepartmentSchool of Life Sciences and TechnologyTongji University Research Institute of Intelligent Computing Zhejiang Lab Shanghai Research Institute for Intelligent Autonomous Systems Center for Single-cell Omics School of Public HealthShanghai Jiao Tong University School of Medicine National Key Laboratory of Chinese Medicine Modernization Innovation Center of Yangtze River DeltaZhejiang University Center for Bioinformatics and Computational Biology Shanghai Key Laboratory of Regulatory Biologythe Institute of Biomedical Sciences and School of Life SciencesEast China Normal University Beijing Institutes of Life Science Chinese Academy of Sciences Peking-Tsinghua Center for Life Sciences Academy for Advanced Interdisciplinary StudiesCenter for Quantitative Biology (CQB)Peking University Zhejiang Key Laboratory of Precision Diagnosis and Therapy for Major Gynecological Diseases Women's HospitalZhejiang University School of Medicine Key Laboratory of Advanced Theory and Application in Statistics and Data Science-MOE School of StatisticsEast China Normal 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 sc RNA-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.

关键词： single-cell sequencing genome epigenome proteomics metabolomics multimodal spatial transcriptomics CRISPR screening

Nonlinear Waves in Two-Dimensional (2D) Square Lattice Frenkel-Kontorova (FK) System

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Communications in Theoretical Physics 2009年第1期51卷 90-96页

作者： WANG Cang-Long han Jiu-ning GAO Xiu-Yun duan Wen-Shant Department of Physics Northwest Normal University Lanzhou 730070 China

A 2D square lattice is studied. By using the continuum approximation, we set up the differential equations of motion for an arbitrary particle in the square lattice which subjects to an external periodic substrate potential. The exact solitary waves of the system are found for special cases. We conclude that the adhesive force f and the angle between propagation directions of upper and lower layers can affect these waves.

关键词： FK model square lattice solitary waves

Verification of monocular and binocular pose estimation algorithms in vision-based UAVs autonomous aerial refueling system

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Science China(Technological Sciences) 2016年第11期59卷 1730-1738页

作者： LI han duan HaiBin Bio-inspired Autonomous Flight Systems (BAFS) Research Group Science and Technology on Aircraft Control Laboratory School of Automation Science and Electrical Engineering Beihang University

With the high focus on autonomous aerial refueling(AAR), it becomes increasingly urgent to design efficient methods or algorithms for solving the AAR problems in complicated aerial environments. A vision-based technology for AAR is developed in this paper, and five monocular and binocular visual algorithms for pose estimation of the unmanned aerial vehicles(UAVs) are adopted and verified in this AAR system. The real-time on-board vision system is also designed for precise navigation in the UAVs docking phase. A series of out-door comparative experiments for different pose estimation algorithms are conducted to verify the feasibility and accuracy of the vision algorithms in AAR.

关键词： unmanned aerial vehicles(UAVs) autonomous aerial refueling(AAR) pose estimation monocular vision binocular vision

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食物饱腹感研究及其测试技术进展

食品科学 2025年第2期46卷 299-307页

作者：姚孟丽韩晓峰王若永韩小伟韩忠曾新安黄京美刘义凤苑鹏柳嘉段盛林中国食品发酵工业研究院北京100020 空军特色医学中心北京100142 中国人民解放军总医院第五医学中心北京100139 华南理工大学食品科学与工程学院广东广州510640

饱腹感,即为进食后满足感和不再渴望进食的状态,在维护正常食欲、控制体质量、预防肥胖及改善代谢性疾病方面具有重要意义。文章系统分析影响饱腹感的多种因素,包括食物成分、感官特征、能量密度、心理因素及饮食行为等,并阐述这些因素... 详细信息

饱腹感,即为进食后满足感和不再渴望进食的状态,在维护正常食欲、控制体质量、预防肥胖及改善代谢性疾病方面具有重要意义。文章系统分析影响饱腹感的多种因素,包括食物成分、感官特征、能量密度、心理因素及饮食行为等,并阐述这些因素对饱腹感的作用机制。同时,重点介绍模拟视觉量表、胃肠道激素检测及闪烁扫描等新兴技术在饱腹感测试中的应用,展示这些技术在评估饱腹感方面的科学性和有效性。此外,文章还讨论饱腹感及其测试技术的研究意义与未来展望,旨在为饱腹感相关机制的深入研究、饱腹感测试技术的创新以及高饱腹感食品的开发提供理论支持和实践参考。

关键词：饱腹感食物成分感官特征能量密度心理因素饮食行为模拟视觉量表生化指标

Effects of the dust size distribution in one-dimensional quantum dusty plasma

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Frontiers of physics 2015年第5期10卷 69-74页

作者： Juan-Fang han Dong-ning Gao Heng Zhang Xiao-Yun Wang Wen-Shan duan College of Physics and Electronic Engineering Northwest Normal University Lanzhou 730070 China Department of Mathematics and Physics Lanzhou Jiao Tong University Lanzhou 730070 China

The effects of the dust size distribution in ultracold quantum dusty plasmas are investigated. The amplitude φm and width ω of quantum dust acoustic waves are studied with different dust size distributions in the system. The φm and ω of the quantum dust acoustic waves are found to increase as the total number density increases. The φm and ω are greater for unusual dusty plasmas than for typical dusty plasmas. Moreover, as the Fermi temperature of the dust grains increases, the φm of the wave decreases. The ω of quantum dust acoustic waves increases as the speed u0 of the wave increases

关键词： dusty plasma electrostatic waves

Emergence of higher-level neuron properties using a hierarchical statistical distribution model

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Science China(Technological Sciences) 2019年第4期62卷 628-634页

作者： XIAN ning DENG Yi Min duan HaiBin School of Automation Science and Electrical Engineering Beihang University

Essential to visual tasks such as object recognition is the formation of effective representations that generalize from specific instances of visual input. Neurons in primary visual cortex are typically hypothesized to efficiently encode image structures such as edge and textures from natural scenes. Here this paper proposed a novel hierarchical statistical distribution model to generalize higher-level neuron properties and encode distributed regularities that characterize local image regions. Two layers of our hierarchical model are presented to extract spiking activities of excitatory neurons decorrelated by inhibitory neurons and to construct the statistical patterns of input data, respectively. Trained on whitened natural images, parameters including neural connecting weights and distribution coding weights are estimated by their corresponding learning rules. To prove the feasibility and effectiveness of our model, several experiments on natural images are conducted. Adapting our model to natural scenes yields a distributed representation for higher-order statistical regularities. Comparison results provide insight into higher-level neurons which encode more abstract and invariant properties.

关键词： statistical distribution spiking activity object classification localization