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| 1 | clusterProfiler 4.0:A universal enrichment tool for interpreting omics data显示文摘Functional enrichment analysis is pivotal for interpreting highthroughput omics data in life science.It is crucial for this type of tool to use the latest annotation databases for as many organisms as possible.To meet these requirements,we present here an updated version of our popular Bioconductor package,clusterProfiler 4.0.This package has been enhanced considerably compared with its original version published 9 years ago.The new version provides a universal interface for functional enrichment analysis in thousands of organisms based on internally supported ontologies and pathways as well as annotation data provided by users or derived from online databases.It also extends the dplyr and ggplot2 packages to offer tidy interfaces for data operation and visualization.Other new features include gene set enrichment analysis and comparison of enrichment results from multiple gene lists.We anticipate that clusterProfiler 4.0 will be applied to a wide range of scenarios across diverse organisms. | Tianzhi Wu Erqiang Hu Shuangbin Xu Meijun Chen Pingfan Guo Zehan Dai Tingze Feng Lang Zhou Wenli Tang Li Zhan Xiaocong Fu Shanshan Liu Xiaochen Bo Guangchuang Yu | 2021 | The Innovation2021，2，3： | 40 |
| 2 | Major advances in studies of the physical geography and living environment of China during the past 70 years and future prospects显示文摘The natural environment provides material essentials for human survival and development. The characteristics,processes, regional differentiation and forcing mechanisms of the elements of the natural environment(e.g. geomorphology,climate, hydrology, soil, etc.) are the main objects of research in physical geography. China has a complex natural environment and huge regional differentiation and therefore it provides outstanding reserach opportunities in physical geography. This review summarizes the most important developments and the main contributions of research in the physical geography and human living environment in China during the past 70 years. The major topics addressed are the uplift of the Tibetan Plateau and the evolution of its cryosphere, the development of fluvial systems, the acidification of the vast arid region of the Asian interior, variations in the monsoon and westerly climate systems on multiple timescales, the development of lakes and wetlands, the watershed system model, soil erosion, past human-environment interactions, biogeography, and physical geographic zonality. After briefly introducing international research developments, we review the history of research in physical geography in China, focusing on the major achievements and major academic debates, and finally we summarize the status of current research and the future prospects. We propose that in the context of the national demand for the construction of an ecological civilization, we should make full use of the research findings of physical geography, and determine the patterns and mechanisms of natural environmental processes in order to continue to promote the continued contribution of physical geography to national development strategies, and to further contribute to the theory of physical geography from a global perspective. | Fahu CHEN Bojie FU Jun XIA Duo WU Shaohong WU Yili ZHANG Hang SUN Yu LIU Xiaomin FANG Boqiang QIN Xin LI Tingjun ZHANG Baoyuan LIU Zhibao DONG Shugui HOU Lide TIAN Baiqing XU Guanghui DONG Jingyun ZHENG Wei YANG Xin WANG Zaijun LI Fei Wang Zhenbo HU Jie WANG Jianbao LIU Jianhui CHEN Wei HUANG Juzhi HOU Qiufang CAI Hao LONG Ming JIANG Yaxian HU Xiaoming FENG Xingguo MO Xiaoyan YANG Dongju ZHANG Xiuhong WANG Yunhe YIN Xiaochen LIU | 2019 | Science China Earth Sciences2019，62，11： | 11 |
| 3 | Graphene and cobalt phosphide nanowire composite as an anode material for high performance lithium-ion batteries显示文摘合成一经由一个灵巧的热水的方法的磷化物 nanowires 和减少的 graphene 氧化物(表示 CoP/RGO ) 与随后的退火步相结合的钴合成被报导。结果合成介绍大特定的表面区域和提高的电导率,它能有效地便于充电运输并且在 lithiation/de-lithiation 过程期间在体积提供变化。作为结果, CoP/RGO nanocomposite 表明 960 | Jun Yang Yu Zhang Chencheng Sun Hongzheng Liu Laiquan Li Weili Si Wei Huang Qingyu Yan Xiaochen Dong | 2016 | Nano Research2016，9，3： | 8 |
| 4 | Embryonic endothelial evolution towards first hematopoietic stem cells revealed by single-cell transcriptomic and functional analyses显示文摘Hematopoietic stem cells(HSCs)in adults are believed to be born from hemogenic endothelial cells(HECs)in mid-gestational embryos.Due to the rare and transient nature,the HSC-competent HECs have never been stringently identified and accurately captured,let alone their genuine vascular precursors.Here,we first used high-precision single-cell transcriptomics to unbiasedly examine the relevant EC populations at continuous developmental stages with intervals of 0.5 days from embryonic day(E)9.5 to E11.0.As a consequence,we transcriptomically identified two molecularly different arterial EC populations and putative HSCprimed HECs,whose number peaked at El 0.0 and sharply decreased thereafter,in the dorsal aorta of the aorta-gonadmesonephros(AGM)region.Combining computational prediction and in vivo functional validation,we precisely captured HSCcompetent HECs by the newly constructed Neurl3-EGFP reporter mouse model,and realized the enrichment further by a combination of surface markers(Procr+Kit+CD44+,PK44).Surprisingly,the endothelial-hematopoietic dual potential was rarely but reliably witnessed in the cultures of single HECs.Noteworthy,primitive vascular ECs from E8.0 experienced two-step fate choices to become HSC-primed HECs,namely an Initial arterial fate choice followed by a hemogenic fate conversion.This finding resolves several previously observed contradictions.Taken together,comprehensive understanding of endothelial evolutions and molecular programs underlying HSC-primed HEC specification in vivo will facilitate future investigations directing HSC production in vitro. | Siyuan Hou Zongcheng Li Xiaona Zheng Yun Gao Ji Dong Yanli Ni Xiaobo Wang Yunqiao Li Xiaochen Ding Zhilin Chang Shuaili Li Yuqiong Hu Xiaoying Fan Yu Hou Lu Wen Bing Liu Fuchou Tang Yu Lan | 2020 | Cell Research2020，30，5： | 8 |
| 5 | Revisiting ovarian cancer microenvironment: a friend or a foe?显示文摘 | Boyi Zhang Fei Chen Qixia Xu Liu Han Jiaqian Xu Libin Gao Xiaochen Sun Yiwen Li Yan Li Min Qian Yu Sun | 2018 | Protein & Cell2018，9，8： | 6 |
| 6 | Comparison of nonhuman primates identified the suitable model for COVID-19显示文摘Identification of a suitable nonhuman primate(NHP)model of COVID-19 remains challenging.Here,we characterized severe acute respiratory syndrome coronavirus 2(SARS-CoV-2)infection in three NHP species:Old World monkeys Macaca mulatta(M.mulatta)and Macaca fascicularis(M.fascicularis)and New World monkey Callithrix jacchus(C.jacchus).Infected M.mulatta and M.fascicularis showed abnormal chest radiographs,an increased body temperature and a decreased body weight.Viral genomes were detected in swab and blood samples from all animals.Viral load was detected in the pulmonary tissues of M.mulatta and M.fascicularis but not C.jacchus.Furthermore,among the three animal species,M.mulatta showed the strongest response to SARS-CoV-2,including increased inflammatory cytokine expression and pathological changes in the pulmonary tissues.Collectively,these data revealed the different susceptibilities of Old World and New World monkeys to SARS-CoV-2 and identified M.mulatta as the most suitable for modeling COVID-19. | Shuaiyao Lu Yuan Zhao Wenhai Yu Yun Yang Jiahong Gao Junbin Wang Dexuan Kuang Mengli Yang Jing Yang Chunxia Ma Jingwen Xu Xingli Qian Haiyan Li Siwen Zhao Jingmei Li Haixuan Wang Haiting Long Jingxian Zhou Fangyu Luo Kaiyun Ding Daoju Wu Yong Zhang Yinliang Dong Yuqin Liu Yinqiu Zheng Xiaochen Lin Li Jiao Huanying Zheng Qing Dai Qiangming Sun Yunzhang Hu Changwen Ke Hongqi Liu Xiaozhong Peng | 2020 | Signal Transduction and Targeted Therapy2020，5，1： | 5 |
| 7 | Kinematics analysis of a novel all-attitude flight simulator显示文摘To overcome the kinematic singularity limitation of simulator, which is unavoidable in a three-axis architecture, an all-attitude flight simulator in a four-axis architecture is proposed. The simulator can always provide 3DOF motion by applying redundant manipulator mechanism. For direct kinematics of the manipulator, a dual-Euler method is adopted to solve the expressions of attitude angles; thus computation singularity of all- attitude angles is overcome. For inverse kinematics of the manipulator, pseudo-inverse gradient projection method is used to obtain optimal velocity solution. Then, based on dynamic control method, optimal position solution is obtained. The proposed inverse kinematics algorithm can achieve desired attitudes, as well as can avoid kinematics singularity and axis angle limits. The simulation results show that the kinematic performance of the four-axis all-attitude flight simulator is superior to that of a three-axis simulator. | WANG XiaoChen , ZHAO Hui, MA KeMao, HUO Xin & YAO Yu Control and Simulation Center, Harbin Institute of Technology, Harbin 150080, China | 2010 | Science China(Information Sciences)2010，53，2： | 3 |
| 8 | IP3R-mediated Ca2+ signals govern hematopoietic and cardiac divergence of Flk1+ cells via the calcineurin-N FATc3-Etv2 pathway显示文摘 | Yi-Jie Wang Jijun Huang Wenqiang Liu Xiaochen Kou Huayuan Tang Hong Wang Xiujian Yu Shaorong Gao Kunfu Ouyang Huang-Tian Yang | 2017 | Journal of Molecular Cell Biology2017，9，4： | 2 |
| 9 | Heterogeneity in endothelial cells and widespread venous arterialization during early vascular development in mammals显示文摘Arteriogenesis rather than unspecialized capillary expansion is critical for restoring effective circulation to compromised tissues in patients.Deciphering the origin and specification of arterial endothelial cells during embryonic development will shed light on the understanding of adult arteriogenesis.However,during early embryonic angiogenesis,the process of endothelial diversification and molecular events underlying arteriovenous fate settling remain largely unresolved in mammals.Here,we constructed the single-cell transcriptomic Iandscape of vascular endothelial cells(VECs)during the time window for the occurrenee of key vasculogenic and angiogenic events in both mouse and human embryos.We uncovered two distinct arterial VEC types,the major artery VECs and arterial plexus VECs,and un expectedly diverge nt arteriove nous characteristics among VECs that are located in morphologically undistinguishable vascular plexus intra-embryonically.Using computational prediction and further lineage tracing of venous-featured VECs with a newly developed Nr2f2^(CrexER) | Siyuan Hou Zongcheng Li Ji Dong Yun Gao Zhilin Chang Xiaochen Ding Shuaili Li Yunqiao Li Yang Zeng Qian Xin Baihan Wang Yanli Ni Xiaowei Ning Yuqiong Hu Xiaoying Fan Yu Hou Xianlong Li Lu Wen Bin Zhou Bing Liu Fuchou Tang Yu Lan | 2022 | Cell Research2022，32，4： | 2 |
| 10 | Exosomes secreted from cardiomyocytes suppress the sensitivity of tumor ferroptosis in ischemic heart failure显示文摘Heart failure(HF)patients in general have a higher risk of developing cancer.Several animal studies have indicated that cardiac remodeling and HF remarkably accelerate tumor progression,highlighting a cause-and-effect relationship between these two disease entities.Targeting ferroptosis,a prevailing form of non-apoptotic cell death,has been considered a promising therapeutic strategy for human cancers.Exosomes critically contribute to proximal and distant organ-organ communications and play crucial roles in regulating diseases in a paracrine manner.However,whether exosomes control the sensitivity of cancer to ferroptosis via regulating the cardiomyocyte-tumor cell crosstalk in ischemic HF has not yet been explored.Here,we demonstrate that myocardial infarction(MI)decreased the sensitivity of cancer cells to the canonical ferroptosis activator erastin or imidazole ketone erastin in a mouse model of xenograft tumor.Post-MI plasma exosomes potently blunted the sensitivity of tumor cells to ferroptosis inducers both in vitro in mouse Lewis lung carcinoma cell line LLC and osteosarcoma cell line K7M2 and in vivo with xenograft tumorigenesis model.The expression of miR-22-3p in cardiomyocytes and plasma-exosomes was significantly upregulated in the failing hearts of mice with chronic MI and of HF patients as well.Incubation of tumor cells with the exosomes isolated from post-MI mouse plasma or overexpression of miR-22-3p alone abrogated erastin-induced ferroptotic cell death in vitro.Cardiomyocyte-enriched miR-22-3p was packaged in exosomes and transferred into tumor cells.Inhibition of cardiomyocyte-specific miR-22-3p by AAV9 sponge increased the sensitivity of cancer cells to ferroptosis.ACSL4,a pro-ferroptotic gene,was experimentally established as a target of miR-22-3p in tumor cells.Taken together,our findings uncovered for the first time that MI suppresses erastin-induced ferroptosis through releasing miR-22-3p-enriched exosomes derived from cardiomyocytes.Therefore,targeting exosome-mediated cardiomyocyte/tumor pathological communication may offer a novel approach for the ferroptosis-based antitumor therapy. | Ye Yuan Zhongting Mei Zhezhe Qu Guanghui Li Shuting Yu Yingqi Liu Kuiwu Liu Zhihua Shen Jiaying Pu Yanquan Wang Changhao Wang Zhiyong Sun Qian Liu Xiaochen Pang Ao Wang Zijing Ren Tong Wang Ying Liu Jinhuan Hong Jiajie Xie Xin Li Zhonghua Wang Weijie Du Baofeng Yang | 2023 | Signal Transduction and Targeted Therapy2023，8，4： | 2 |
| 11 | High-throughput sequencing reveals the disruption of methylation of imprinted gene in induced pluripotent stem cells显示文摘在导致的 pluripotent 干细胞(iPSCs ) 积累的反常 epigenetic 修正是否能最终影响 iPSC pluripotency,仍然保持争论。为了探查这个问题,有一样的基因背景的 iPSC 线和 proviral 集成地点,被建立,并且每根 iPSC 线的 pluripotency 状态用 tetraploid (4N ) 被描绘互补试金。随后,基因表示和 “ 的全球 epigenetic 修正; 4N-ON ”并且相应 “ 4N-OFF ”iPSC 线通过深定序 mRNA 表示,小 RNA 侧面, histone 修正(H3K27me3, H3K4me3,和 H3K4me2 ) ,和 DNA methylation 的分析被比较。我们发现了印的基因的那 methylation, Zrsr1,一致地与减少的 pluripotency 在 iPSC 线被破坏。而且,破坏 methylation 不能被改进文化条件或 iPSCs 的 subcloning 救。而且,在 iPSCs 的 Zrsr1 和 pluripotency 状态的 hypomethylation 之间的关系进一步在线从另外的 reprogramming 系统导出的独立 iPSC 被验证。 | Gang Chang Shuai Gao Xinfeng Hou Zijian Xu Yanfeng Liu Lan Kang Yu Tao Wenqiang Liu Bo Huang Xiaochen Kou Jiayu Chen Lei An Kai Miao Keqian Di Zhilong Wang Kun Tan Tao Cheng Tao Cai Shaorong Gao Jianhui Tian | 2014 | Cell Research2014，24，3： | 2 |
| 12 | Particle Image Velocimetry Experimental and Computational Investigation of a Blood Pump显示文摘Blood pumps have been adopted to treat heart failure over the past decades.A novel blood pump adopting the ro-tor with splitter blades and tandem cascade stator was developed recently.A particle image velocimetry (PIV) experiment was carried out to verify the design of the blood pump based on computational fluid dynamics (CFD) and further analyze the flow properties in the rotor and stator.The original sized pump model with an acrylic housing and an experiment loop were constructed to perform the optical measurement.The PIV testing was car-ried out at the rotational speed of 6952±50 r/min with the flow rate of 3.1 l/min and at 8186±50 r/min with 3.5 l/min,respectively.The velocity and the Reynolds shear stress distributions were investigated by PIV and CFD,and the comparisons between them will be helpful for the future blood pump design. | Xiaochen Yang Xingmin Gui Hui Huang Yongbin Shen Ziwen Yu Yan Zhang | 2012 | Journal of Thermal Science2012，21，3： | 2 |
| 13 | Hydrogenated vanadium oxides as an advanced anode material in lithium ion batteries显示文摘 | Yufei Zhang Huanwen Wang Jun Yang Haosen Fan Yu Zhang Zhengfei Dai Yun Zheng Wei Huang Xiaochen Dong Qingyu Yan | 2017 | Nano Research2017，10，12： | 2 |
| 14 | A Rubik’s microfluidic cube显示文摘A Rubik’s cube as a reconfigurable microfluidic system is presented in this work.Composed of physically interlocking microfluidic blocks,the microfluidic cube enables the on-site design and configuration of custom microfluidics by twisting the faces of the cube.The reconfiguration of the microfluidics could be done by solving an ordinary Rubik’s cube with the help of Rubik’s cube algorithms and computer programs.An O-ring-aided strategy is used to enable self-sealing and the automatic alignment of the microfluidic cube blocks.Owing to the interlocking mechanics of cube blocks,the proposed microfluidic cube exhibits good reconfigurability and robustness in versatile applications and proves to be a promising candidate for the rapid deployment of microfluidic systems in resource-limited settings. | Xiaochen Lai Zhi Shi Zhihua Pu Penghao Zhang Xingguo Zhang Haixia Yu Dachao Li | 2020 | Microsystems & Nanoengineering2020，6，1： | 1 |
| 15 | Control Design for Harmonic Disturbance Rejection for Robot Manipulators with Bounded Inputs显示文摘Currently most of control methods are of one degree of freedom(1-DOF) control structure for the robot systems which are affected by unmeasurable harmonic disturbances,at the same time in order to obtain perfect disturbance attenuation level,the controller gain must be increased.In practice,however,for robotic actuators,there are physical constraints that limit the amplitude of the available torques.This paper considers the problem of tracking control under input constraints for robot manipulators which are affected by unmeasurable harmonic disturbances.A new control scheme is proposed for the problem,which is composed of a parameter-dependent nonlinear observer and a tracking controller.The parameter-dependent nonlinear observer,designed based on the internal model principle,can achieve an estimation and compensation of a class of harmonic disturbances with unknown frequencies.The tracking controller,designed via adaptive control techniques,can make the systems asymptotically track the desired trajectories.In the control design,the continuous piecewise differentiable increasing function is used to limit control input amplitude,such that the control input saturation is avoided.The Lyapunov stability of closed loop systems is analyzed.To validate proposed control scheme,simulation results are provided for a two link horizontal robot manipulator.The simulation results show that the proposed control scheme ensures asymptotic tracking in presence of an uncertain external disturbance acting on the system.An important feature of the methodology consists of the fact that the designed controller is of 2-DOF control structure,namely,it has the ability to overcome the conflict between controller gain and robustness against external disturbances in the traditional 1 -DOF control structure framework. | YAO Yu WANG Xiaochen HE Fenghua | 2011 | Chinese Journal of Mechanical Engineering2011，24，2： | 1 |
| 16 | Pre-ribosomal RNA reorganizes DNA damage repair factors in nucleus during meiotic prophase and DNA damage response显示文摘In response to DNA double strand breaks(DSBs),DNA damage repair factors are recruited to DNA lesions and form nuclear foci.However,the underlying molecular mechanism remains largely elusive.Here,by analyzing the localization of DSB repair factors in the XY body and DSB foci,we demonstrate that pre-ribosomal RNA(pre-rRNA)mediates the recruitment of DSB repair factors around DNA lesions.Pre-rRNA exists in the XY body,a DSB repair hub,during meiotic prophase,and colocalizes with DSB repair factors,such as MDC1,BRCA1 and TopBP1.Moreover,pre-rRNA-associated proteins and RNAs,such as ribosomal protein subunits,RNase MRP and snoRNAs,also localize in the XY body.Similar to those in the XY body,pre-rRNA and ribosomal proteins also localize at DSB foci and associate with DSB repair factors.RNA polymerase I inhibitor treatment that transiently suppresses transcription of rDNA but does not affect global protein translation abolishes foci formation of DSB repair factors as well as DSB repair.The FHA domain and PST repeats of MDC1 recognize pre-rRNA and mediate phase separation of DSB repair factors,which may be the molecular basis for the foci formation of DSB repair factors during DSB response. | Xiaochen Gai Di Xin Duo Wu Xin Wang Linlin Chen Yiqing Wang Kai Ma Qilin Li Peng Li Xiaochun Yu | 2022 | Cell Research2022，32，3： | 1 |
| 17 | Water and thermal management for Bal- lard PEM fuel cell stack 显示文摘 | Yu Xiaochen Zhou Biao | 1991 | Journal of Electrochemical Society1991，，： | 1 |
| 18 | THE DGW-I FURNACE A MATERIALS PROCESSING FACILITY IN 'SZ-2' SPACECRAFT显示文摘The DGW-I is a new material processing facility developed in China, which was firstly carried into orbit in November 1999 by the SZ-1 spacecraft and then in January 2001 carried by SZ-2 into space again, and successfully processed 6 samples of materials, including 3 samples of alloys, 2 of semiconductors and 1 sample of oxide crystal. | WANG Jinchang LIU Yan AI Fei YU Qiang REN Juanxi TAN Xiaochen CEI Weixing | 2002 | 空间科学学报2002，22，z1： | 1 |
| 19 | The therapeutic efficacy of glutamine for rats with smoking inhalation injury显示文摘 | Wuquan Li Xiaochen Qiu Junjie Wang Hengyu Li Yu Sun Fang Zhang Haichao Jin Jinfeng Fu Zhaofan Xia | 2013 | International Immunopharmacology2013，，2： | 1 |
| 20 | Replacement of Oct4 by Tet1 during iPSC Induction Reveals an Important Role of DNA Methylation/Hydroxymethylation in Reprogramming显示文摘 | Yawei Gao Jiayu Chen Ke Li Tong Wu Bo Huang Wenqiang Liu Xiaochen Kou Yu Zhang Hua Huang Yonghua Jiang Chao Yao Xiaolei Liu Zhiwei Lu Zijian Xu Lan Kang Jun Chen Hailin Wang Tao Cai Shaorong Gao | 2013 | Cell Stem Cell2013，，： | 1 |
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