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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 | Overexpression of a dominant-negative mutant of SIRT1 in mouse heart causes cardiomyocyte apoptosis and early-onset heart failure显示文摘SIRT1,a mammalian ortholog of yeast silent information regulator 2(Sir2),is an NAD+-dependent protein deacetylase that plays a critical role in the regulation of vascular function.The current study aims to investigate the functional significance of deacetylase activity of SIRT1 in heart.Here we show that the early postnatal hearts expressed the highest level of SIRT1deacetylase activity compared to adult and aged hearts.We generated transgenic mice with cardiac-specific expression of a dominant-negative form of the human SIRT1(SIRT1H363Y),which represses endogenous SIRT1 activity.The transgenic mice displayed dilated atrial and ventricular chambers,and died early in the postnatal period.Pathological,echocardiographic and molecular phenotype confirmed the presence of dilated cardiomyopathy.Terminal deoxynucleotidyl transferase-mediated dUTP nick-end-labeling analysis revealed a greater abundance of apoptotic nuclei in the hearts of transgenic mice.Furthermore,we show that cardiomyocyte apoptosis caused by suppression of SIRT1 activity is,at least in part,due to increased p53acetylation and upregulated Bax expression.These results indicate that dominant negative form of SIRT1(SIRT1H363Y)overexpression in mouse hearts causes cardiomyocyte apoptosis and early-onset heart failure,suggesting a critical role of SIRT1 in preserving normal cardiac development during the early postnatal period. | MU WenLi ZHANG QingJun TANG XiaoQiang FU WenYan ZHENG Wei LU YunBiao LI HongLiang WEI YuSheng LI Li SHE ZhiGang CHEN HouZao LIU DePei | 2014 | Science China(Life Sciences)2014，57，9： | 12 |
| 3 | A microporous surface containing Si3N4/Ta microparticles of PEKK exhibits both antibacterial and osteogenic activity for inducing cellular response and improving osseointegration显示文摘As an implantable biomaterial,polyetherketoneketone(PEKK)exhibits good mechanical strength but it is biologically inert while tantalum(Ta)possesses outstanding osteogenic bioactivity but has a high density and elastic modulus.Also,silicon nitride(SN)has osteogenic and antibacterial activity.In this study,a microporous surface containing both SN and Ta microparticles on PEKK(STP)exhibiting excellent osteogenic and antibacterial activity was created by sulfonation.Compared with sulfonated PEKK(SPK)without microparticles,the surface properties(roughness,surface energy,hydrophilicity and protein adsorption)of STP significantly increased due to the SN and Ta particles presence on the microporous surface.In addition,STP also exhibited outstanding antibacterial activity,which inhibited bacterial growth in vitro and prevented bacterial infection in vivo because of the presence of SN particles.Moreover,the microporous surface of STP containing both SN and Ta particles remarkably induced response(e.g.,proliferation and differentiation)of rat bone mesenchymal stem(rBMS)cells in vitro.Furthermore,STP significantly improved new bone regeneration and osseointegration in vivo.Regarding the induction of cellular response in vitro and improvement of osseointegration in vivo,the microporous surface containing Ta was better than the surface with SN particles.In conclusion,STP with optimized surface properties activated cellular responses in vitro,enhanced osseointegration and prevented infection in vivo.Therefore,STP possessed the dual biofunctions of excellent osteogenic and antibacterial activity,showing great potential as a bone substitute. | Xinglong Hu Shiqi Mei Fan Wang Songchao Tang Dong Xie Chao Ding Wenli Du Jun Zhao Lili Yang Zhaoying Wu Jie Wei | 2021 | Bioactive Materials2021，6，10： | 6 |
| 4 | The Effect of Home-Based Cardiac Rehabilitation on Functional Capacity,Behavior,and Risk Factors in Patients with Acute Coronary Syndrome in China显示文摘Aim:To investigate the effect of home-based cardiac rehabilitation on functional capacity,health behavior,and risk factors in patients with acute coronary syndrome in China.Methods:Eighty patients with acute coronary syndrome were enrolled in this prospective randomized controlled study.Patients in the cardiac rehabilitation group(n=52)received home-based cardiac rehabilitation with a heart manual and a home exercise video for 3 months and patients in the control group(n=28)received only routine secondary prevention.The 6-min walk distance,laboratory test results,healthy behavior(questionnaire),quality of life(12-item Short Form Health Survey),anxiety(7-item Generalized Anxiety Disorder Questionnaire),and depression(9-item Patient Health Questionnaire)were evaluated at the beginning and after treatment for 3 months.Results:Compared with baseline data,52 patients who participated in cardiac rehabilitation had longer 6-min walk distance(515.26±113.74 m vs 0.445.30±97.92 m,P<0.0002),higher proportions of“always exercise”(78.26% vs.28%,P<0.05),“always limit food with sugar”(65.22% vs 12%,P<0.05),“always eat fruits 200–400 g every day”(82.61% vs.4%,P<0.05).and“always eat vegetables 300–500 g every day”(21.74%vs.12%,P<0.06)after treatment for 3 months.The low-density lipoprotein cholesterol control rate(52.17% vs.28%,P<0.05)and the systolic blood pressure control rate(100%vs.68%,P<0.05)were also signifi cantly increased after treatment for 3 months in the cardiac rehabilitation group.No signifi cant increase was found in the control group after treatment for 3 months.No cardiac-event related to home exercise was reported in both groups.Conclusion:Home-based cardiac rehabilitation is a feasible and available cardiac rehabilitation mode in China. | Rongjing Ding Jianchao Li Limin Gao Liang Zhu Wenli Xie Xiaorong Wang Qin Tang Huili Wang Dayi Hu | 2017 | Cardiovascular Innovations and Applications2017，，B02： | 5 |
| 5 | Identification of Chromosomes from Multiple Rice Genomes Using a Universal Molecular Cytogenetic Marker System显示文摘为染色体鉴定开发可靠技术为细胞发生的研究是批评的,特别为有一个大数字和小尺寸的染色体的染色体。当分子的 cytologicalmarkers 为许多有机体被开发了,用细菌的人工的染色体(用绳子拖的平底渡船) 的 Anefficient 途径克隆。此处,我们在场一套 chromosomal arm-specificmolecular cytological 标记源于定序的米饭染色体的充实基因的区域。所有这些标记能在 Oryzasativa L 的 pachytene 染色体上产生很强壮的信号。(AA 染色体) 什么时候用作荧光原位杂交(鱼) ,探查。我们进一步探查了那些标记到 O 的 pachytene 染色体。punctata (BB 染色体) 和 O。依照药方(CCgenome ) 并且相关 pachytene 染色体上的也得到的很强壮的信号。从三个不同米饭染色体的相关染色体上的每个标记的信号位置是漂亮大部分桌子,它使我们能在各种各样的米饭染色体之中识别不同染色体。我们也为两 O 构造了核型。punctata 和 O。依照药方分别地,由 10 个 pachytene 房间的分析与 BB 和 CC 染色体由这些 chromosomal 抛锚了手臂特定的标记…… | Xiaomin Tang Weidong Bao Wenli Zhang Zhukuan Cheng | 2007 | Journal of Integrative Plant Biology2007，49，6： | 4 |
| 6 | ASB3 knockdown promotes mitochondrial apoptosis via activating the interdependent cleavage of Beclin1 and caspase-8 in hepatocellular carcinoma显示文摘Apoptosis and autophagy are distinct cellular processes that can be highly interconnected. The cross talk between the two processes is indispensable in determining the overall cell fate. Although the apoptosis-promoting effect of caspases has been demonstrated, the roles of autophagy-related proteins and even autophagy itself in regulating apoptosis remain poorly understood. In our present study, we found that downregulation of ubiquitin E3 ligase ASB3 led to enhanced mitochondrial apoptosis as well as autophagy, which synergistically promoted cell death in hepatocellular carcinoma(HCC). We observed the activation of caspase-8 and decrease of autophagy protein Beclin1 in apoptotic cells that were depleted of ASB3. Beclin1 was mainly cleaved by activated caspase-8 and active Beclin1 initiated mitochondrial apoptosis via locating its C-terminal fragment to mitochondria. In addition, knocking down of Beclin1 markedly blocked the apoptosis, indicating its essential role in the process.Notably, our study indicated that enhanced autophagy level might be involved in the activation of caspase-8 and promote the apoptosis. Taken together, our results demonstrated that ASB3 can regulate mitochondrial pathway of apoptosis by controlling caspase-8 mediated cleavage of Beclin1 in HCC. Therefore, ASB3 may potentially serve as a novel target for HCC therapy,especially when combined with autophagy agonist. | Wenli Zhang Fuchen Liu Zhihui Che Mengmeng Wu Zihui Tang Jie Liu Dongqin Yang | 2019 | Science China(Life Sciences)2019，62，12： | 3 |
| 7 | Curcumin ameliorates hippocampal neuron damage induced by human immunodeficiency virus-1显示文摘Our previous studies have shown that infection with the gp120 V3 loop can cause human immunodeficiency virus-1 associated neurocognitive disorders. Curcumin has been shown to improve these effects to some degree, but the precise mechanisms remain unknown. The present study analyzed the neuroprotective effect and mechanism of curcumin in relation to hippocampal neurons. Results showed that 1 nmol/L gp120 V3 loop suppressed the growth of synapses. After administration of 1 μmol/L curcumin, synaptic growth improved. Curcumin is neuroprotective against gp120 V3 loop-induced neuronal damage by inhibiting the activation of L-type calcium currents, relieving intracellular Ca2+ overload, promoting Bcl-2 expression, and inhibiting Bax activation. The effect of curcumin was identical to nimodipine, suggesting that curcumin has the same neuroprotective effects against gp120 V3 loop-induced neuronal damage. | Hongmei Tang Rui Pan Wenli Fang Yanyan Xing Dexi Chen Xiaobao Chen Yuanyuan Yu Junbing Wang Zheng Gong Guoyin Xiong Jun Dong | 2013 | Neural Regeneration Research2013，8，15： | 3 |
| 8 | Performance monitoring of non-gaussian chemical processes with modes-switching using globality-locality preserving projection显示文摘 | Xin Peng Yang Tang Wenli Du Feng Qian | 2017 | Frontiers of Chemical Science and Engineering2017，11，3： | 2 |
| 9 | A new method for aroducing high melt strength polypropylene with reactive extrusion显示文摘 | Hongxia Tang Wenli Dai Baiquan Chen | 2008 | Polym Eng Sci2008，48，： | 1 |
| 10 | Preparation of ammonium diuranate particles by external gelation process of uranium in INET显示文摘 | Zhou Xiangwen Ma Jingtao Hao Shaochang Zhao Xingyu Wang Yang Deng Changsheng Liang Tongxiang Guo Wenli Tang Yaping Tang Chunhe | 2012 | Nuclear Engineering and Design2012，，： | 1 |
| 11 | Wheat-RegNet:An encyclopedia of common wheat hierarchical regulatory networks显示文摘Dear Editor,Common wheat(Triticum aestivum,2n=6×=42,AABBDD)is the staple crop worldwide.Elucidating the gene regulatory network provides essential information for mechanism studies and targeted manipulation of gene activity for breeding.However,it is a challenging task given the extremely large(16 Gb)and complicated allohexaploid genome of common wheat.Integrating multi-omics data is a compelling approach to construct the hierarchical regulatory network. | Tengfei Tang Shilong Tian Haoyu Wang Xiaotong Lv Yilin Xie Jinyi Liu Meiyue Wang Fei Zhao Wenli Zhang Hao Li Yijing Zhang | 2023 | Molecular Plant2023，16，2： | 1 |
| 12 | Numerical simulation of the effect of hydrogen addition fraction on catalytic micro-combustion characteristics of methane-air 显示文摘 | Yan Yunfei Tang Weimin Zhang Li Pan Wenli Yang Zhongqing Chen Yanrong Lin Jiying | 2014 | International Journal of Hydrogen Energy2014，39，： | 1 |
| 13 | 显示文摘 | Mao Xingyu Gao Wenli Tang Jiangchen | 2004 | J Magn Magn Mater2004，271，： | 1 |
| 14 | Human apo-SRP72 and SRP68/72 complex structures reveal the molecular basis of protein translocation显示文摘co 翻译的指向或插入能分泌并且膜蛋白质进 endoplasmic 蜂窝胃(嗯) 一个关键生物过程被信号识别粒子(SRP ) 调停。在优核质, SRP68-SRP72 (SRP68/72 ) heterodimer 在蛋白质 translocation 起一个必要作用。然而,二最大的 SRP 蛋白质, SRP68 和 SRP72 的结构的信息,被限制,特别关于他们的相互作用。此处,我们在 2.91 点报导人的 apo-SRP72 和 SRP68/72 建筑群的第一水晶结构吗?并且 1.7?分辨率分别地。SRP72 的 SRP68 有约束力的领域包含四次不正常的 tetratricopeptide 重复(TPR ) 和一顶灵活 C 终端帽子。Apo-SRP72 在答案主要作为 dimers 存在。为了绑在 SRP68, SRP72 homodimer disassociates,和不可缺少的 C 终端帽子,经历一个显著 conformational 变化帮助 SRP68/72 heterodimer 的形成。SRP68 的 A 23 残余多肽为到通过它的不平常地恐水病、扩大的表面的 SRP72 的紧密的绑定是足够的。结构,生物物理,并且 mutagenesis 分析表明联系癌症的变化破坏 SRP68-SRP72 相互作用和他们的合作本地化与嗯在哺乳动物的房间。结果在调停 SRP 的蛋白质 translocation 加亮 SRP68-SRP72 相互作用的必要角色并且为疾病诊断, pathophysiology,和药设计提供一个结构的基础。 | Yina Gao Qi Zhang Yue Lang Yang Liu Xiaofei Dong Zhenhang Chen Wenli Tian Jun Tang Wei Wu Yufeng Tong Zhongzhou Chen | 2017 | Journal of Molecular Cell Biology2017，9，3： | 1 |
| 15 | Multiple defects of cell cycle checkpoints in U937-ASPI3K, an U937 cell mutant stably expressing anti-sense ATM gene cDNA显示文摘 | Zhou Jianfeng Liu Wenli Sun Lan Sun Hanying Tang Yi | 2000 | Journal of Tongji Medical University2000，，4： | 1 |
| 16 | Interaction between Chlorella vulgaris and bacteria:interference and resource competition显示文摘Research of interaction mechanism between Chlorella vulgaris and two bacterial strains(Z-QD08 and Z-QS01)were conducted under laboratory conditions.Growth rates of bacteria and C.vulgaris were tested under co-culture conditions to evaluate the effects of concentrations of C.vulgaris and bacteria on their interactions.To test whether the availability of inorganic nutrients,vitamins and trace metals affects the interactions between C.vulgaris and bacteria,experiments were performed with or without the culture medium filtrate of C.vulgaris or bacteria.The results showed that the growth of C.vulgaris was promoted at low concentrations of bacteria(5×106cells/ml),and expressed a positive correlation with the bacteria density,whereas opposite trend was observed for treatments with high bacteria density(10×106cells/ml and 20×106cells/ml).The growth rate of bacteria decreased with the increasing concentrations of C.vulgaris.The growth of bacteria Z-QD08 was inhibited by C.vulgaris through interference competition,while the mechanism for interaction between bacteria Z-QS01 and C.vulgaris was resource competition.The influence of cell density on the interaction between microalgae and bacteria was also discussed.These experiments confirm some elements of published theory on interactions between heterotrophic bacteria and microalgae and suggest that heterotrophic bacteria play an important role in the development of blooms in natural waters. | QU Liang WANG Renjun ZHAO Peng CHEN Ruinan ZHOU Wenli TANG Liuqing TANG Xuexi | 2014 | Acta Oceanologica Sinica2014，33，1： | 1 |
| 17 | A New Method for Producing High Melt Strength Polypropylene with Reactive Extrusion 显示文摘 | Tang Hongxia Dai Wenli Chen Baiquan | 2008 | Polym Eng Sci2008，48，7： | 1 |
| 18 | Thermal and chemical effects of hydrogen addition on catalytic micro-combustion of methane–air显示文摘 | Yunfei Yan Weimin Tang Li Zhang Wenli Pan Liya Li | 2014 | International Journal of Hydrogen Energy2014，，33： | 1 |
| 19 | Band gaps and nonlinear defect modes in one-dimensional photonic crystals with anisotropic single-negative metamaterials显示文摘 | Tang Tingting Liu Wenli Gao Xiuying | 2011 | Optics and Laser Technology2011，43，6： | 1 |
| 20 | Multiple defects of cell cycle checkpoints in U937-ASPI3K, an U937 cell mutant stably expressing anti-sense ATM gene cDNA显示文摘 | Zhou Jianfeng Liu Wenli Sun Lan Sun Hanying Tang Yi | 2000 | Journal of Tongji Medical University2000，，4： | 1 |
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