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| 1 | Large-field high-resolution two-photon digital scanned light-sheet microscopy显示文摘 | Weijian Zong Jia Zhao Xuanyang Chen Yuan Lin Huixia Ren Yunfeng Zhang Ming Fan Zhuan Zhou Heping Cheng Yujie Sun Liangyi Chen | 2015 | Cell Research2015，25，2： | 12 |
| 2 | Super-resolution fluorescence-assisted diffraction computational tomography reveals the threedimensional landscape of the cellular organelle interactome显示文摘The emergence of super-resolution(SR)fluorescence microscopy has rejuvenated the search for new cellular substructures.However,SR fluorescence microscopy achieves high contrast at the expense of a holistic view of the interacting partners and surrounding environment.Thus,we developed SR fluorescence-assisted diffraction computational tomography(SR-FACT),which combines label-free three-dimensional optical diffraction tomography(ODT)with two-dimensional fluorescence Hessian structured illumination microscopy.The ODT module is capable of resolving the mitochondria,lipid droplets,the nuclear membrane,chromosomes,the tubular endoplasmic reticulum,and lysosomes.Using dual-mode correlated live-cell imaging for a prolonged period of time,we observed novel subcellular structures named dark-vacuole bodies,the majority of which originate from densely populated perinuclear regions,and intensively interact with organelles such as the mitochondria and the nuclear membrane before ultimately collapsing into the plasma membrane.This work demonstrates the unique capabilities of SR-FACT,which suggests its wide applicability in cell biology in general. | Dashan Dong Xiaoshuai Huang Liuju Li Heng Mao Yanquan Mo Guangyi Zhang Zhe Zhang Jiayu Shen Wei Liu Zeming Wu Guanghui Liu Yanmei Liu Hong Yang Qihuang Gong Kebin Shi Liangyi Chen | 2020 | Light(Science & Applications)2020，9，1： | 7 |
| 3 | Microblog Burst Keywords Detection Based on Social Trust and Dynamics Model显示文摘Microblog has emerged as a popular medium for providing new sources of information and rapid communications, particularly during burst topics. Burst keywords detection from real-time microblog streams is important for burst topics detection. The exiting algorithms may detect fake burst keywords without taking into account the trustworthiness of the users and human's daily timetable. Our work is the first to combine the trustworthiness of the users with burst keywords detection. We propose a novel approach to detect burst keywords based on social trust and dynamics model. We adapt basic notions of dynamics from physics and model keywords bursts as momentum change of the keywords. On the analogy of physical dynamics model, this approach defines mass as the trustworthiness of user and position as the frequency of keywords. We compute each keyword's burst value by using Moving average convergence/divergence(MACD) and determine whether it is a burst keyword in a given time window. The experimental results on large-scale Sina microblog dataset show that the proposed approach can avoid detecting fake burst keywords. | DONG Guozhong LI Ruiguang YANG Wu WANG Wei GONG Liangyi SHEN Guowei YU Miao LV Jiguang | 2014 | Chinese Journal of Electronics2014，23，4： | 6 |
| 4 | Functional Analysis of Slow Myosin Heavy Chain 1 and Myomesin-3 in Sarcomere Organization in Zebrafish Embryonic Slow Muscles显示文摘Myofibrillogenesis, sarcomere 形成的过程,要求 sarcomeric 蛋白质的靠近的相互作用和 sarcomere 结构的各种各样的部件。肌浆球蛋白厚细丝和 M 线是 sarcomere 的二个关键部件。M 线的 myomesin 蛋白质与肌浆球蛋白和 titin 蛋白质交往并且使,这被建议了厚并且有序的 titin 细丝。然而,在 myofibrillogenesis 和 sarcomere 组织的 myomesin 的功能仍然保持大部分神秘。没有猛烈或击倒的动物模型被报导了阐明在 sarcomere 组织 in vivo 的 myomesin 的角色。在这研究,由在 zebrafish 胚胎使用基因特定的击倒的途径,我们执行了 myomesin-3 和慢肌浆球蛋白的 loss-of-function 分析重链(smyhc1 ) 1 在慢肌肉明确地表示了。我们表明了那废除的 smyhc1 击倒在慢肌肉的 myomesin-3 的 sarcomeric 本地化。相反, myomesin-3 的损失没在厚、薄的细丝以及 M 线和 Z 线结构的 sarcomeric 组织上有效果。一起,这些研究显示那肌浆球蛋白厚细丝为 M 线组织和 myomesin-3 的 M 线本地化被要求。相反, myomesin-3 为在慢肌肉的 sarcomere 组织是非必需的。 | Jin Xu Jie Gao Junling Li Liangyi Xue Kan J. Clark Stephen C. Ekker Shao Jun Du | 2012 | Journal of Genetics and Genomics2012，39，2： | 6 |
| 5 | Graded activation of CRAC channel by binding of different numbers of STIM1 to Orail subunits显示文摘Ca2+ 激活版本的 Ca2+(CRAC ) 隧道毛孔被 STIM1 被 Orai1 和 gated 在细胞内部的 Ca2+ 店弄空以后形成。为了解决分子被要求到多少 STIM1,打开一条 CRAC 隧道,我们与 STIM1 的功能的二双人脚踏车的细胞质的领域熔化了 Orai1 子单元的不同数字(残余 336-485,指定了领域为 S ) 。整个房间的补丁夹钳揭示的这些妄想的分子的记录在四 Orai1 和八个 S 领域的 stoichiometry 最大的到达的那 CRAC 水流。进一步的实验显示二双人脚踏车的 S 领域明确地与一个 Orai1 子单元,和 CRAC 电流的 C 终点交往当更多的 Orai1 子单元能与 S 领域或 STIM1 蛋白质交往,能逐渐地被增加。我们的数据建议一条 CRAC 隧道的那最大的开始要求八个 STIM1 分子,并且支持 CRAC 隧道激活不以一种鈥渁l l-or-none 鈥 ? 方式,但是经历的一个模型经由 STIM1 的不同数字的绑定的分级的进程。 | Zhengzheng Li Lin Liu Yongqiang Deng Wei Ji Wen Du Pingyong Xu Liangyi Chen Tao Xu | 2011 | Cell Research2011，21，2： | 5 |
| 6 | A protocol for structured illumination microscopy with minimal reconstruction artifacts显示文摘The imaging rate of structured illumination microscopy (SIM) reached 188 Hz recently. As the exposure time decreases, the camera detects fewer virtual photons, while the noise level remains the same. As a result, the signal-to-noise ratio (SNR) decreases sharply. Furthermore, the SNR decreases further because of photobleaching and phototoxicity. This decreased quality of SIM raw data may lead to surprising artifacts with various causes, which may confuse a new user of SIM microscopy. We summarize three significant possible sources of severe artifacts in reconstructed super-resolution (SR) images. Ultrafast motion of a biological sample or an uneven illumination pattern is the most difficult to be identified. The estimated parameter could also be incorrect, leading to artifact of regular patterns. Furthermore, rec on struction with the Wiener method generates stochastic artifacts due to the amplification of noise during the deconvolution process. To deal with these problems, we have established a protocol to reconstruct ultrafast SIM raw data obtained in low SNR conditions. First, we checked the quality of the raw data with the ImageJ plugin SIMcheck before rec on struction. Then, a modified parameter estimation method was used to improve the precision of the parameters. Finally, an iterative algorithm was used for SIM reconstruction under low signal-to-noise ratio cond让ions. This procedure effectively suppressed the artifacts in the super-resoluti on images rec on structed from raw data of low signal-to-noise ratio. | Junchao Fan Xiaoshuai Huang Liuju Li Shan Tan Liangyi Chen | 2019 | Biophysics Reports2019，5，2： | 4 |
| 7 | A new type of ERGIC–ERES membrane contact mediated by TMED9 and SEC12 is required for autophagosome biogenesis显示文摘Under stress,the endomembrane system undergoes reorganization to support autophagosome biogenesis,which is a central step in autophagy.How the endomembrane system remodels has been poorly understood.Here we identify a new type of membrane contact formed between the ER-Golgi intermediate compartment(ERGIC)and the ER-exit site(ERES)in the ER-Golgi system,which is essential for promoting autophagosome biogenesis induced by different stress stimuli.The ERGIC-ERES contact is established by the interaction between TMED9 and SEC12 which generates a short distance opposition(as close as 2-5 nm)between the two compartments.The tight membrane contact allows the ERES-located SEC12 to transactivate COPII assembly on the ERGIC.In addition,a portion of SEC12 also relocates to the ERGIC.Through both mechanisms,the ERGIC-ERES contact promotes formation of the ERGIC-derived COPII vesicle,a membrane precursor of the autophagosome.The ERGIC-ERES contact is physically and functionally different from the TFG-mediated ERGIC-ERES adjunction involved in secretory protein transport,and therefore defines a unique endomembrane structure generated upon stress conditions for autophagic membrane formation. | Shulin Li Rui Yan Jialu Xu Shiqun Zhao Xinyu Ma Qiming Sun Min Zhang Ying Li Jun-Jie Gogo Liu Liangyi Chen Sai Li Ke Xu Liang Ge | 2022 | Cell Research2022，32，2： | 3 |
| 8 | Optimization of Protectant, Salinity and Freezing Condition for Freeze-Drying Preservation of Edwardsiella tarda显示文摘Novel preservation condition without ultra-low temperature is needed for the study of pathogen in marine fishes. Freeze-drying is such a method usually used for preservation of terrigenous bacteria. However, studies using freeze-drying method to preserving marine microorganisms remain very limited. In this study, we optimized the composition of protectants during the freeze-drying of Edwardsiella tarda, a fish pathogen that causes systemic infection in marine fishes. We found that the optimal composition of protectant mixture contained trehalose(8.0%), skim milk(12.0%), sodium citrate(2.0%), serum(12.0%) and PVP(2.0%). Orthogonal and interaction analyses demonstrated the interaction between serum and skim milk or sodium citrate. The highest survival rate of E. tarda was observed when the concentration of Na Cl was 10.0, 30.0 and between 5.0 and 10.0 g L^(-1) for preparing TSB medium, E. tarda suspension and protectant mixture, respectively. When E. tarda was frozen at-80℃ or-40℃ for 6 h, its survival rate was higher than that under other tested conditions. Under the optimized conditions, when the protectant mixture was used during freeze-drying process, the survival rate(79.63%–82.30%) of E. tarda was significantly higher than that obtained using single protectant. Scanning electron microscopy(SEM) image indicated that E. tarda was embedded in thick matrix with detectable aggregation. In sum, the protectant mixture may be used as a novel cryoprotective additive for E. tarda. | YU Yongxiang ZHANG Zheng WANG Yingeng LIAO Meijie LI Bin XUE Liangyi | 2017 | Journal of Ocean University of China2017，16，5： | 3 |
| 9 | PbMC1a/1b regulates lignification during stone cell development in pear(Pyrus bretschneideri)fruit显示文摘Programmed cell death(PCD)and secondary cell wall(SCW)thickening in pear fruit are accompanied by the deposition of cellulose and lignin to form stone cells.Metacaspase is an important protease for development,tissue renewal and PCD.The understanding of the molecular mechanism whereby pear(Pyrus)metacaspase promotes PCD and cell wall lignification is still limited.In this study,the Metacaspases gene family(PbMCs)from P.bretschneideri was identified.PbMC1a/1b was associated with lignin deposition and stone cell formation by physiological data,semiquantitative real-time polymerase chain reaction(RT-PCR)and quantitative RT-PCR(qRT-PCR).Relative to wildtype(WT)Arabidopsis,the overexpression of PbMC1a/1b increased lignin deposition and delayed growth,thickened the cell walls of vessels,xylary fibers and interfascicular fibers,and increased the expression of lignin biosynthetic genes.Yeast two-hybrid(Y2H),bimolecular fluorescence complementation(BiFC)and GST pull-down assays indicated that the PbMC1a/1b protein physically interacted with PbRD21.Simultaneously,the transient expression of PbMC1a/1b and PbRD21 led to significant changes in the expression of genes and lignin contents in pear fruits and flesh calli.These results indicate that PbMC1a/1b plays an important role in cell wall lignification,possibly by interacting with PbRD21 to increase the mRNA levels of some lignin synthesis-associated genes and promote the formation of stone cells in pear fruit. | Xin Gong Zhihua Xie Kaijie Qi Liangyi Zhao Yazhou Yuan Jiahui Xu Weikang Rui Katsuhiro Shiratake Jianping Bao Shahrokh Khanizadeh Shaoling Zhang Shutian Tao | 2020 | Horticulture Research2020，7，1： | 3 |
| 10 | 卵巢冠囊肿90例临床分析显示文摘分析了90例卵巢冠囊肿临床资料,结果:发病率占卵巢肿瘤9.4%,发病高峰年龄在40岁左右,绝经后发病占18.9%,大多在左侧,直径3~35cm不等,其中10cm以上者约占1/3,囊壁可有乳头状突起,甚至发展成乳头状囊腺瘤。囊肿扭转占23.3%。误诊率90%左右,分析了误诊原因。临床结合B超检查能提高诊断率。一般行囊肿剔除术,恶变罕见,预后好。 | Wang Liangyi Yang Linzhi Zhou Yunxian et al.(General Hospital of PLA, Beijing100853) | 1995 | 解放军医学杂志1995，20，5： | 3 |
| 11 | Miniature Fluorescence Microscopy for Imaging Brain Activity in Freely-Behaving Animals显示文摘An ultimate goal of neuroscience is to decipher the principles underlying neuronal information processing at the molecular,cellular,circuit,and system levels.The advent of miniature fluorescence microscopy has furthered the quest by visualizing brain activities and structural dynamics in animals engaged in self-determined behaviors.In this brief review,we summarize recent advances in miniature fluorescence microscopy for neuroscience,focusing mostly on two mainstream solutions-miniature single-photon microscopy,and miniature two-photon microscopy.We discuss their technical advantages and limitations as well as unmet challenges for future improvement.Examples of preliminary applications are also presented to reflect on a new trend of brain imaging in experimental paradigms involving body movements,long and complex protocols,and even disease progression and aging. | Shiyuan Chen Ziehen Wang Dong Zhang Aiming Wang Liangyi Chen Heping Cheng Runlong Wu | 2020 | Neuroscience Bulletin2020，36，10： | 2 |
| 12 | Ultrafast,accurate,and robust localization of anisotropic dipoles显示文摘The resolution of single molecule localization imaging techniques largely depends on the precision of localization algorithms.However,the commonly used Gaussian function is not appropriate for anisotropic dipoles because it is not the true point spread function.We derived the theoretical point spread function of tilted dipoles with restricted mobility and developed an algorithm based on an artifi cial neural network for estimating the localization,orientation and mobility of individual dipoles.Compared with fi tting-based methods,our algorithm demonstrated ultrafast speed and higher accuracy,reduced sensitivity to defocusing,strong robustness and adaptability,making it an optimal choice for both two-dimensional and threedimensional super-resolution imaging analysis. | Yongdeng Zhang Lusheng Gu Hao Chang Wei Ji Yan Chen Mingshu Zhang Lu Yang Bei Liu Liangyi Chen Tao Xu | 2013 | Protein & Cell2013，4，8： | 2 |
| 13 | UGGreedy: Influence Maximization for User Group in Microblogging显示文摘We study a new influence maximization problem about how to find a seed set which can maximize the influence spread to a targeted user group in microblogging. To solve this problem, we propose a threestage User group greedy algorithm(UGGreedy) based on user attributes. To reduce network scale, we delete useless user nodes, and rank the rest of users based on user attributes to form a seed candidate set. We employ the seed candidate set to construct a simplified microblogging network graph. We propose a novel influence greedy algorithm based on influence accumulation spread to find the seed set.Experimental results show that UGGreedy can achieve remarkable efficiency on the influence maximization problem for user group in real microblogging networks. | YU Miao YANG Wu WANG Wei SHEN Guowei DONG Guozhong GONG Liangyi | 2016 | Chinese Journal of Electronics2016，25，2： | 2 |
| 14 | Alterations of the Ca2+ signaling pathway in pancreatic beta-cells isolated from db/db mice显示文摘 | Kuo Liang Wen Du Jingze Lu Fei Li Lu Yang Yanhong Xue Bertil Hille Liangyi Chen | 2014 | Protein & Cell2014，5，10： | 2 |
| 15 | Hessian single-molecule localization microscopy using sCMOS camera显示文摘 | Fudong Xue Wenting He Fan Xu Mingshu Zhang Liangyi Chen Pingyong Xu | 2018 | Biophysics Reports2018，4，4： | 2 |
| 16 | Activation of astrocytes by advanced glycation end products: cytokines induction end products:cytokines induction and nitric oxide release 显示文摘 | WangZ LiDD LiangYY | 2002 | Acta Pharmacol Sin2002，23，11： | 1 |
| 17 | Exploring the effectiveness of self- regulated learning in massive open online courses on non- native English speakers 显示文摘 | Chung Liangyi | 2015 | International Journal of Distance Education Technologies2015，，13： | 1 |
| 18 | Effect of fasting on protein metabolism in muscle tissue of Larimichthys crocea revealed by transcriptome and proteome显示文摘The large yellow croaker(Larimichthys crocea)is an important mariculture fish in China.Farmed large yellow croaker undergo periods of fasting to adapt to the environment or to improve meat quality.To better understand the physiological responses of their muscle tissues to fasting stresses,we analyzed the transcriptomes and proteome s of both normally-fed and fasting fish groups and identified 7578 differentially expressed genes(DEGs)and 297 differentially expressed proteins(DEPs)among them.Gene ontology and KEGG analysis showed that the enriched biological pathways were mainly involved in various synthetic and catabolic pathways,especially the protein metabolism.Based on the omics data,nine DEGs related to muscle composition(CAN3,MYL3,and TNNC2),growth(MSTN and MYF5),autophagy(TSC2 and ULK1),and the ubiquitin proteasome pathway(PRS6 B and UCHL3)were examined using qPCR.In response to fasting stress,MYL3 and TNNC2 were significantly downregulated,while genes associated with autophagy and the ubiquitin proteasome pathway were significantly upregulated.In re sponse to fasting stres s,MYL3,TNNC2,and MYF5 positively correlated with muscle growth were significantly downregulated,while inhibiting growth MSTN and genes associated with autophagy and the ubiquitin proteasome pathways were significantly upregulated.These results clarify the effects of fasting on metabolic changes in their muscle components and growth at the molecular level. | Yu ZHANG Weiliang SHEN Juan LI Baoxiao ZHENG Zhengjia LOU Mohammad Aslam HOSAIN Baoying QIAN Liangyi XUE | 2021 | Journal of Oceanology and Limnology2021，39，5： | 1 |
| 19 | 3D Hessian deconvolution of thick light-sheet z-stacks for high-contrast and high-SNR volumetric imaging显示文摘Due to its ability of optical sectioning and low phototoxicity,z-stacking light-sheet microscopy has been the tool of choice for in vivo imaging of the zebrafish brain.To image the zebrafish brain with a large field of view,the thickness of the Gaussian beam inevitably becomes several times greater than the system depth of field(DOF),where the fluorescence distributions outside the DOF will also be collected,blurring the image.In this paper,we propose a 3D deblurring method,aiming to redistribute the measured intensity of each pixel in a light-sheet image to in situ voxels by 3D deconvolution.By introducing a Hessian regularization term to maintain the continuity of the neuron dis-tribution and using a modified stripe removal algorithm,the reconstructed z stack images exhibit high contrast and a high signal-to-noise ratio.These performance characteristics can facilitate subsequent processing,such as 3D neuron registration,segmentation,and recognition. | ZHE ZHANG DONGZHOU GOU FAN FENG RUYI ZHENG KE DU HONGRUN YANG GUANGYI ZHANG HUITAO ZHANG LOUIS TAO LIANGYI CHEN HENG MAO | 2020 | Photonics Research2020，8，6： | 1 |
| 20 | Bifunctionalmesoporous Cu-Al-MCM-41 materials for the simultane-ous catalytic abatement of NOx and VOCs显示文摘 | KARTHIK M LIN Liangyi BAI Hsunling | 2009 | Micro-porous and Mesoporous Materials2009，117，12： | 1 |
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