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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 | The recognizing of ca. 1.95 Ga tectono-thermal eventin Kong-ling nucleus and its significance for the evolution of Yangtze Block, South China显示文摘Some 1.95 Ga metamorphism of high-grade Ar-chean rocks in Kongling terrain, continental nucleus of Yangtze Block, South China, are recognized by Sm-Nd dating. This event is further confirmed by the ages of single zircon SHRIMP U-Pb and K-Ar analyses of TTG and (or) paragneisses, and intrusions of potassic-granitic batholith in the region. The coincidence in period between the high-grade metamorphism in the Kongling area and the creation of major basement rocks of its neighborhoods of the Yangtze Block around the Kongling Archean nucleus makes it a favorable explanation for their tectonic connections that, in the whole Yangtze Block there was some tectono-thermal event of ca. 2.0-1.8 Ga, which resulted in the formation of unitive Yangtze basement. | LING Wenli GAO Shan ZHANG Benren ZHOU Lian XU Qidong | 2001 | Chinese Science Bulletin2001，46，4： | 29 |
| 3 | Ways to sparse representation:An overview显示文摘Many algorithms have been proposed to find sparse representations over redundant dictionaries or transforms. This paper gives an overview of these algorithms by classifying them into three categories:greedy pursuit algorithms,lp norm regularization based algorithms,and iterative shrinkage algorithms. We summarize their pros and cons as well as their connections. Based on recent evidence,we conclude that the algorithms of the three categories share the same root:lp norm regularized inverse problem. Finally,several topics that deserve further investigation are also discussed. | YANG JingYu PENG YiGang XU WenLi DAI QiongHai | 2009 | Science in China(Series F)2009，52，4： | 15 |
| 4 | Ribosome profiling analysis identified a KRAS-interacting microprotein that represses oncogenic signaling in hepatocellular carcinoma cells显示文摘The roles of concealed microproteins encoded by long noncoding RNAs(lncRNAs)are gradually being exposed,but their functions in tumorigenesis are still largely unclear.Here,we identify and characterize a conserved 99-amino acid microprotein named KRASIM that is encoded by the putative lncRNA NCBP2-AS2.KRASIM is differentially expressed in normal hepatocytes and hepatocellular carcinoma(HCC)cells and can suppress HCC cell growth and proliferation.Mechanistically,KRASIM interacts and colocalizes with the KRAS protein in the cytoplasm of human HuH-7 hepatoma cells.More importantly,the overexpression of KRASIM decreases the KRAS protein level,leading to the inhibition of ERK signaling activity in HCC cells.These results demonstrate a novel microprotein repressor of the KRAS pathway for the first time and provide new insights into the regulatory mechanisms of oncogenic signaling and HCC therapy. | Wenli Xu Bing Deng Penghui Lin Chang Liu Bin Li Qiaojuan Huang Hui Zhou Jianhua Yang Lianghu Qu | 2020 | Science China(Life Sciences)2020，63，4： | 11 |
| 5 | Emodin prevents hypoxic-ischemic neuronal injury Involvement of the activin A pathway显示文摘Emodin, an extract of dried rhizomes and the root of the Rhizoma Polygoni Cuspidati, can protect neurons from hypoxic-ischemic brain damage. This study aimed to verify the underlying mechanism. After PC12 cells had differentiated into neuron-like cells under the induction of mouse nerve growth factor, cells were subjected to oxygen-glucose deprivation and treated with emodin. Results showed that the viability of neuron-like cells cultured under an ischemia-hypoxia environment decreased, while the expression of activin A and caspase-3 in cells increased. Emodin raised the survival rate of oxygen-glucose deprived neuron-like cells, increased activin A expression, and decreased caspase-3 expression. Experimental findings indicate that emodin can inhibit neuronal apoptosis and alleviate the injury of nerve cells after oxygen-glucose deprivation through the activin A pathway. | Hongliang Guo Xiaoran Shen Ye Xu Junliang Yuan Dongming Zhao Wenli Hu | 2013 | Neural Regeneration Research2013，8，15： | 5 |
| 6 | 中国大陆地区的3.5亚系PRRSV起源于中国台湾地区的3.2亚系显示文摘猪繁殖与呼吸综合征病毒(Porcine reproductive and respiratory syndrome virus,PRRSV)是引起猪繁殖与呼吸综合征(PRRS)的病原,该病毒分为两个基因型,以LV 株为代表的欧洲型(基因1型)和以VR2332 株为代表的美洲型(基因2型)。根据ORF5基因,基因2型PRRSV被划分为9个系,目前,在中国已检测到5个系,包括1,3,5,8和9 系。1998年,中国台湾报道首株3系PRRSVMD-001。 | Zhang WenLi Zhang HongL iang Hu Xu | 2019 | 中国预防兽医学报2019，41，8： | 4 |
| 7 | Galectin-3-centered paracrine network mediates cardiac inflammation and fibrosis upon β-adrenergic insult显示文摘Rapid over-activation of β-adrenergic receptors (β-AR) following acute stress initiates cardiac inflammation and injury by activating interleukin-18 (IL-18),however,the process of inflammation cascades has not been fully illustrated.The present study aimed to determine the mechanisms of cardiac inflammatory amplification following acute sympathetic activation.With bioinformatics analysis,galectin-3 was identified as a potential key downstream effector of β-AR and IL-18 activation.The serum level of galectin-3 was positively correlated with norepinephrine or IL-18 in patients with chest pain.In the heart of mice treated with β-AR agonist isoproterenol (ISO,5 mg kg^(-1)),galectin-3 expression was upregulated markedly later than IL-18 activation,and Nlrp3^(-/-)and Il18^(-/-)mice did not show ISO-induced galectin-3 upregulation.It was further revealed that cardiomyocyte-derived IL-18 induced galectin-3 expression in macrophages following ISO treatment.Moreover,galectin-3deficiency suppressed ISO-induced cardiac inflammation and fibrosis without blocking ISO-induced IL-18 increase.Treatment with a galectin-3 inhibitor,but not a β-blocker,one day after ISO treatment effectively attenuated cardiac inflammation and injury.In conclusion,galectin-3 is upregulated to exaggerate cardiac inflammation and injury following acute β-AR activation,a galectin-3 inhibitor effectively blocks cardiac injury one day after β-AR insult. | Guomin Hu Jimin Wu Huijun Gu Xiangning Deng Wenli Xu Shan Feng Shuaixing Wang Yao Song Zhengda Pang Xiuling Deng Aleksandr E.Vendrov Nageswara R.Madamanchi Marschall S.Runge Xinyu Wang Youyi Zhang Han Xiao Erdan Dong | 2023 | Science China(Life Sciences)2023，66，5： | 3 |
| 8 | Optimal sagittal gait with ZMP stability during complete walking cycle for humanoid robots显示文摘产生低精力步法因为单个、双的支持与零个时刻点(ZMP ) 分阶段执行稳定性的一个参量的方法被介绍。ZMP 稳定性条件被表示为限制到支持脚关节,和两个都走阶段的反的动力学的激活的转矩被调查。一个参量的优化方法被实现它接近由立方的花键功能的轨道在一致地分布式的时间连接了的关节系并且让优化参数仅仅包含描述关键姿势的有限分离状态。因此,步法优化被转变成一个平常的抑制非线性的编程问题。方法的 Theeffectiveness 通过在类人动物机器人 THBIP-I 模型上进行的数字模拟被验证。 | Zongying SHI Wenli XU Yisheng ZHONG Mingguo ZHAO | 2007 | 控制理论与应用(英文版)2007，5，2： | 3 |
| 9 | Identification of Histoplasma causing an unexplained disease cluster in Matthews Ridge, Guyana显示文摘Here,we report the identification of Histoplasma causing an unexplained disease cluster in Matthews Ridge,Guyana.In March 2019,14 employees of Chongqing Bosai Mining Company,China,working in a manganese mining of Guyana,had unexplained fever,and two of them died.We obtained lung and brain tissues as well as the blood samples from the two deceased cases(patient No.1 and 2),and bronchoscopy lavages and cerebrospinal fluid samples from one severe case(patient No.3),respectively.All samples were tested by pathological examination,high-throughput sequencing,and real-time PCR.Pathological detection showed the presence of spore-like structures in the lung tissue of patient No.1,indicating a fungal infection in this patient.Nanopore sequencing identified the existing of H.capsulatum in the lung tissue sample within 13 h.Next-generation sequencing identified specific fragments of H.capsulatum in all of the samples tested(lung,brain and blood serum from the deceased cases,and plasma from the severe case).Real-time PCR assays did not reveal any viral infection related to transmission from bat feces.We conclude that H.capsulatum was the causative pathogen of this disease cluster based on epidemiologic,clinical,pathological and nucleic acid evidence. | Ji Wang Weimin Zhou Hua Ling Xiaoping Dong Yi Zhang Jiandong Li Yong Zhang Jingdong Song William J.Liu Yang Li Ruiqing Zhang Wei Zhen Kun Cai Shuangli Zhu Dongyan Wang Jinbo Xiao Yigang Tong Wenli Liu Lihua Song Wei Wu Yang Liu Xiang Zhao Ruihuan Wang Sheng Ye Jing Wang Roujian Lu Baoying Huang Fei Ye Wenwen Lei Rongbao Gao Qi Shi Cao Chen Jun Han Wenbo Xu George F.Gao Xuejun Ma Guizhen Wu | 2019 | Biosafety and Health2019，1，3： | 3 |
| 10 | Disruption of iron homeostasis and resultant health effects upon exposure to various environmental pollutants:A critical review显示文摘Environmental pollution has become one of the greatest problems in the world, and the concerns about environmental pollutants released by human activities from agriculture and industrial production have been continuously increasing. Although intense efforts have been made to understand the health effects of environmental pollutants, most studies have only focused on direct toxic effects and failed to simultaneously evaluate the long-term adaptive, compensatory and secondary impacts on health. Burgeoning evidence suggests that environmental pollutants may directly or indirectly give rise to disordered element homeostasis, such as for iron. It is crucially important to maintain concerted cellular and systemic iron metabolism. Otherwise, disordered iron metabolism would lead to cytotoxicity and increased risk for various diseases, including cancers. Thus, study on the effects of environmental pollutants upon iron homeostasis is urgently needed. In this review, we recapitulate the available findings on the direct or indirect impacts of environmental pollutants, including persistent organic pollutants(POPs), heavy metals and pesticides, on iron homeostasis and associated adverse health problems. In view of the unanswered questions, more efforts are warranted to investigate the disruptive effects of environmental pollutants on iron homeostasis and consequent toxicities. | Wenli Guo Jie Zhang Wenjun Li Ming Xu Sijin Liu | 2015 | Journal of Environmental Sciences2015，27，8： | 3 |
| 11 | A Wide Base Line Multiple Camera System for High Performance 3D Video and Free Viewpoint Video显示文摘 | LIU Yebin DAI Qionghai XU Wenli | 2009 | Chinese Journal of Electronics2009，18，2： | 3 |
| 12 | Solving chemical dynamic optimization problems with ranking-based differential evolution algorithms显示文摘Dynamic optimization problems(DOPs) described by differential equations are often encountered in chemical engineering. Deterministic techniques based on mathematic programming become invalid when the models are non-differentiable or explicit mathematical descriptions do not exist. Recently, evolutionary algorithms are gaining popularity for DOPs as they can be used as robust alternatives when the deterministic techniques are invalid. In this article, a technology named ranking-based mutation operator(RMO) is presented to enhance the previous differential evolution(DE) algorithms to solve DOPs using control vector parameterization. In the RMO, better individuals have higher probabilities to produce offspring, which is helpful for the performance enhancement of DE algorithms. Three DE-RMO algorithms are designed by incorporating the RMO. The three DE-RMO algorithms and their three original DE algorithms are applied to solve four constrained DOPs from the literature. Our simulation results indicate that DE-RMO algorithms exhibit better performance than previous non-ranking DE algorithms and other four evolutionary algorithms. | Xu Chen Wenli Du Feng Qian | 2016 | Chinese Journal of Chemical Engineering2016，24，11： | 3 |
| 13 | The microbial metallogeny of weathering crust REE deposits in South China显示文摘VERY little is known about the roles of microorganisms in the metallogeny of weathering crust REE deposits, although there has been much literature on REE behavior in weathering conditions. The present note deals with the microorganisms in 4 weathering profiles of an REE deposit and their roles in migration and accumulation of REE in weathering conditions. 1 Cultivation and identification of microorganisms Under strict sterilization, samples were collected from various parts of 4 weathering profiles of granites in a weathering crust REE deposit in South China. The samples were then cultivated for microorganisms with ordinary agars as culture media and then the cultivated microorganisms were dyed and identifiedunder a microscope. The sampled positions and cultivated numbers of microbial colonies are shown | CHEN Binghui~(1,2), WANG Zhimei~3, HUANG Limei~3, WU Fuhai~3, CHEN Jingde~2 and XU Wenlie~2 1. Department of Earth Sciences, Nanjing University, Nanjing 210093, China 2. Department of Earth Sciences, Zhongshan University, Guangzhou 510275, China 3. Guangdong Pharmaceutical College, Guangzhou 510244, China | 1999 | Chinese Science Bulletin1999，44，S2： | 3 |
| 14 | Dispersion Performance of Methanol-Diesel Emulsified Fuel Prepared by High Gravity Technology显示文摘A new continuous process for preparing methanol-diesel emulsified fuel with an Impinging Stream-Rotating Packed Bed is proposed. The droplet size of dispersed phase(methanol) of the emulsified fuel has a significant effect on the combustion of methanol-diesel emulsified fuel. In this paper, the methanol-diesel emulsified fuel uses diesel as the continuous phase and methanol as the dispersed phase. The Sauter mean diameter of the dispersed phase of methanol-diesel emulsified fuel was characterized with microphotography and arithmetic method. The experimental result showed that the Sauter mean diameter of the dispersed phase, which was decreased with the augmentation of the high gravity factor, liquid flow rate and emulsifier dosage, was inversely proportional to the methanol content. The Sauter mean diameter of the dispersed phase can be controlled and adjusted in the range of 12—40 μm through the change of operating conditions. The correlative expressions of the Sauter mean diameter of emulsified fuel were obtained and the calculated values agreed well with the experimental values. | Jiao Weizhou Li Jing Liu Youzhi Zhang Qiaoling Liu Wenli Xu Chengcheng Guo Liang | 2014 | China Petroleum Processing & Petrochemical Technology2014，16，1： | 2 |
| 15 | Efficient Leave-One-Out Strategy for Supervised Feature Selection显示文摘Feature selection is a key task in statistical pattern recognition.Most feature selection algorithms have been proposed based on specific objective functions which are usually intuitively reasonable but can sometimes be far from the more basic objectives of the feature selection.This paper describes how to select features such that the basic objectives,e.g.,classification or clustering accuracies,can be optimized in a more direct way.The analysis requires that the contribution of each feature to the evaluation metrics can be quantitatively described by some score function.Motivated by the conditional independence structure in probabilistic distributions,the analysis uses a leave-one-out feature selection algorithm which provides an approximate solution.The leave-oneout algorithm improves the conventional greedy backward elimination algorithm by preserving more interactions among features in the selection process,so that the various feature selection objectives can be optimized in a unified way.Experiments on six real-world datasets with different feature evaluation metrics have shown that this algorithm outperforms popular feature selection algorithms in most situations. | Dingcheng Feng Feng Chen Wenli Xu | 2013 | Tsinghua Science and Technology2013，18，6： | 2 |
| 16 | Ultrasensitive flexible broadband photodetectors achieving pA scale dark current显示文摘Organolead halide perovskite is a newly emerging low-cost,solution-processable material with a broadband absorption from the ultraviolet(UV)to visible(Vis)region,which has attracted a great deal of interest in high-performance optoelectronic devices.However,some practicable applications need a cover of UV–Vis–NIR region for photoelectric conversion,a task that remains a significant challenge for further extending the absorption toward the near-infrared radiation(NIR)region.Here,to the best of our knowledge,we prove for the first time an ultrasensitive flexible broadband photodetector based on porous organolead perovskitephthalocyanine heterostructure,which combines the synergetic properties of high UV–Vis absorbance of perovskite with enhanced NIR absorption for triclinic lead phthalocyanine.The photosensitivity of the as-prepared devices reaches up to 10^(4) at a low intensity of 10mWcm^(−2),which is among the largest values reported for broadband photodetectors.Significantly,performed at room temperature,the device achieves a pA scale dark current along with an ultrafast response speed of less than 0.6 ms for as-adopted full spectra.Our results provide an easy and promising route to develop low-cost,flexible and highly sensitive UV–Vis–NIR photodetectors. | Xiao Luo Feiyu Zhao Lili Du Wenli Lv Kun Xu Yingquan Peng Ying Wang Feiping Lu | 2017 | npj Flexible Electronics2017，1，1： | 2 |
| 17 | A natural variation of an SVP MADS-box transcription factor in Triticum petropavlovskyi leads to its ectopic expression and contributes to elongated glume显示文摘Dear Editor,Triticum petropavlovskyi,commonly known as Xinjiang rice wheat,is a unique hexaploidy wheat grown in the Xinjiang area.T.petropavlovskyi is marked by its elongated glume(Eg)trait,which is controlled by gene P1pet located on chromosome 7A(Wang et al.,2002;Watanabe and Imamura,2002).The origin of T.petropavlovskyi has been disputed.It is generally accepted that P1pet was introduced from tetraploid polish wheat(T.polonicum)via a hybridization with hexaploid common wheat(T.aestivum)(Akond et al.,2008;Chen et al.,2016). | Jin Xiao Yan Chen Yifan Lu Zhipeng Liu Dongmei Si Tao Xu Li Sun Zongkuan Wang Chunxia Yuan Haojie Sun Xu Zhang Mingxing Wen Luyang Wei Wenli Zhang Haiyan Wang Xiue Wang | 2021 | Molecular Plant2021，14，9： | 2 |
| 18 | Nonlinear analysis on singularity of multi-rigid-body systems with one-point frictional contact 显示文摘 | Wenli Yao Jian Xu | 2007 | International Journal of Nonlinear Sciences and Numerical Simulation2007，8，4： | 1 |
| 19 | Onlinediscriminative object tracking with local sparse representation显示文摘 | WANG Qing CHEN Feng XU Wenli | 2012 | IEEE Workshop on the Applications of Computer Vision2012，12，4： | 1 |
| 20 | Adaptive sliding-mode guidance of a homing missile 显示文摘 | Zhou Di Mu Chundi Xu Wenli | 1999 | Journal of Guidance Control and Dynamics1999，22，4： | 1 |
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