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| 1 | STAT3 associates with vacuolar H^+-ATPase and regulates cytosolic and lysosomal pH显示文摘 | Bin Liu Johan Palmfeldt Lin Lin Alexandria Colaco Knut K. B, Clemmensen Jinrong Huang Fengping Xu Xin Liu Kenji Maeda Yonglun Luo Marja Jaattela | 2018 | Cell Research2018，28，10： | 5 |
| 2 | Ultra-stable super-resolution fluorescence cryo-microscopy for correlative light and electron cryo-microscopy显示文摘Remarkable progress in correlative light and electron cryo-microscopy(cryo-CLEM) has been made in the past decade. A crucial component for cryo-CLEM is a dedicated cryo-fluorescence microscope(cryo-FM). Here, we describe an ultra-stable superresolution cryo-FM that exhibits excellent thermal and mechanical stability. The temperature fluctuations in 10 h are less than0.06 K, and the mechanical drift over 5 h is less than 200 nm in three dimensions. We have demonstrated the super-resolution imaging capability of this system(average single molecule localization accuracy of ~13.0 nm). The results suggest that our system is particularly suitable for long-term observations, such as single molecule localization microscopy(SMLM) and cryogenic super-resolution correlative light and electron microscopy(csCLEM). | Xiaojun Xu Yanhong Xue Buyun Tian Fengping Feng Lusheng Gu Weixing Li Wei Ji Tao Xu | 2018 | Science China(Life Sciences)2018，61，11： | 3 |
| 3 | Molecular diversity of Thermococcales isolated from Guaymas Basin hydrothermal vents显示文摘Members of Thermococcales are organoheterotrophic hyperthermophilic anaerobes consisting of three genera, Thermococcus, Pyrococcus, and Palaeococcus, among which Thermococcus are the most frequently isolated. In this study, a variety of Thermococcales strains were isolated from the Guaymas Basin hydrothermal vents under different temperatures and pressures. Based on their 16S rRNA gene sequences, all the strains isolated from 85 C or 95 C enrichment cultures at ambient pressure were classified as Thermococcus, while strains isolated from 108 C-30 MPa enrichment cultures belonged to Pyrococcus. The combination of high pressure and high temperature for enrichment was shown to be an efficient method for isolating Pyrococcus strains. Through selecting and analyzing with multiple molecular phylogenetic markers, the isolated Thermococcales strains were found quite diversified including several putative novel species. This demonstrates a vast genetic reservoir of Thermoccoccales in the deep-sea hydrothermal vents, and a fast evolving of the Thermococcales species adapting to the fast changing environment. | LIU Lupeng WANG Fengping XU Jun XIAO Xiang | 2013 | Acta Oceanologica Sinica2013，32，6： | 2 |
| 4 | Molecular phylogeny of methylotrophs in a deep-sea sediment from a tropical west Pacific warm pool 显示文摘 | Wang Peng Wang Fengping Xu Meixiang | 2004 | FEMS Microbiol Ecol2004，47，： | 1 |
| 5 | Analysis of archaeal 16S rDNA from deep-sea sediments sam-ples显示文摘 | Xu Meixiang Wang fengping Xiao Xiang | | 0，，： | 1 |
| 6 | Prediction of adolescent subjective well being: A machine learning approach显示文摘Background Subjective well-being(SWB),also known as happiness,plays an important role in evaluating both mental and physical health.Adolescents deserve specific attention because they are under a great variety of stresses and are at risk for mental disorders during adulthood.Aim The present paper aims to predict undergraduate students1 SWB by machine learning method.Methods Gradient Boosting Classifier which was an innovative yet validated machine learning approach was used to analyse data from 10518 Chinese adolescents.The online survey included 298 factors such as depression and personality.Quality control procedure was used to minimise biases due to online survey reports.We applied feature selection to achieve the balance between optimal prediction and result interpretation.Results The top 20 happiness risks and protective factors were finally brought into the predicting model.Approximately 90%individuals'SWB can be predicted correctly,and the sensitivity and specificity were about 92%and 90%,respectively.Conclusions This result identifies at-risk individuals according to new characteristics and established the foundation for adolescent prevention strategies. | Naixin Zhang Chuanxin Liu Zhixuan Chen Lin An Decheng Ren Fan Yuan Ruixue Yuan Lei Ji Yan Bi Zhenming Guo Gaini Ma Fei Xu Fengping Yang Liping Zhu Gabirel Robert Yifeng Xu Lin He Bo Bai Tao Yu Guang He | 2019 | General Psychiatry2019，32，5： | 1 |
| 7 | Super-resolution of Solar Magnetograms Using Deep Learning显示文摘Currently,data-driven models of solar activity forecast are investigated extensively by using machine learning.For model training,it is highly demanded to establish a large database which may contain observations coming from different instruments with different spatio-temporal resolutions.In this paper,we employ deep learning models for super-resolution(SR)of magnetogram of Michelson Doppler Imager(MDI)in order to achieve the same spatial resolution of Helioseismic and Magnetic Imager(HMI).First,a generative adversarial network(GAN)is designed to transfer characteristics of MDI onto downscaled HMI,getting low-resolution HMI magnetogram in the same domain as MDI.Then,with the paired low-resolution and high-resolution HMI magnetograms,another GAN is trained in a supervised learning way,which consists of two streams,one is for generating high-fidelity image content,the other is explicitly optimized for generating elaborate image gradients.Thus,these two streams work together to guarantee both high-fidelity and photorealistic super-resolved images.Experimental results demonstrate that the proposed method can generate super-resolved magnetograms with perceptual-pleasant visual quality.Meanwhile,the best PSNR,LPIPS,RMSE,comparable SSIM and CC are obtained by the proposed method.The source code and data set can be accessed via http://gffzz188fe103f8f1460as9vnpun0fnxk56w95.ffgz.tsg.suse.edu.cn/filterbank/SPSR. | Fengping Dou Long Xu Zhixiang Ren Dong Zhao Xinze Zhang | 2022 | Research in Astronomy and Astrophysics2022，22，8： | 1 |
| 8 | Key Techniques of the X-ray Inspection Real-time Imaging Pipeline Robot显示文摘This paper presents a robotic system for weld-joint inspection of the big-caliber pipeline, which is developed for the purpose of being utilized as automation platform for X-ray real-time imaging inspection technique (RTIIT). The robot can perform autonomous seeking and locating of weld-seam position in-pipe, and under the control of synchro-follow control technique it can accomplish the technologic task of weld inspection. The robotic system is equipped with a small focal spot and directional beam X-ray tube, so the higher definition image of weld-seam can be obtained. Several key techniques about the robotic system developed are also explained in detail. Its construction is outlined. | 邓宗全 Xu Fengping Zhang Xiaohua Chen Hongjun | 2004 | High Technology Letters2004，10，2： | 1 |
| 9 | The basic helix-loop-helix transcription factor gene,OsbHLH38,plays a key role in controlling rice salt tolerance显示文摘The plant hormone abscisic acid(ABA)is crucial for plant seed germination and abiotic stress tolerance.However,the association between ABA sensitivity and plant abiotic stress tolerance remains largely unknown.In this study,436 rice accessions were assessed for their sensitivity to ABA during seed germination.The considerable diversity in ABA sensitivity among rice germplasm accessions was primarily reflected by the differentiation between the Xian(indica)and Geng(japonica)subspecies and between the upland-Geng and lowland-Geng ecotypes.The upland-Geng accessions were most sensitive to ABA.Genome-wide association analyses identified four major quantitative trait loci containing21 candidate genes associated with ABA sensitivity of which a basic helix-loop-helix transcription factor gene,OsbHLH38,was the most important for ABA sensitivity.Comprehensive functional analyses using knockout and overexpression transgenic lines revealed that OsbHLH38 expression was responsive to multiple abiotic stresses.Overexpression of OsbHLH38 increased seedling salt tolerance,while knockout of OsbHLH38 increased sensitivity to salt stress.A salt-responsive transcription factor,OsDREB2A,interacted with OsbHLH38 and was directly regulated by OsbHLH38.Moreover,OsbHLH38 affected rice abiotic stress tolerance by mediating the expression of a large set of transporter genes of phytohormones,transcription factor genes,and many downstream genes with diverse functions,including photosynthesis,redox homeostasis,and abiotic stress responsiveness.These results demonstrated that OsbHLH38 is a key regulator in plant abiotic stress tolerance. | Fengping Du Yinxiao Wang Juan Wang Yingbo Li Yue Zhang Xiuqin Zhao Jianlong Xu Zhikang Li Tianyong Zhao Wensheng Wang Binying Fu | 2023 | Journal of Integrative Plant Biology2023，65，8： | 0 |
| 10 | Expression profiling of immune cells in systemic lupuserythematosus by single-cell RNA sequencing显示文摘Systemic lupus erythematosus(SLE)is a systemic autoimmune disease characterized by abnormal cellular and humoral immune responses and excessive autoantibody production.The precise pathologic mechanism of SLE remains elusive.The advent of single-cell RNA sequencing(scRNA-seq)enables unbiased analysis of the molecular differences of cell populations at the single-cell level.We used scRNA-seq to profile the transcriptomes of peripheral blood mononuclear cells from an SLE patient compared with a healthy control(HC).A total of 16,021 cells were analyzed and partitioned into 12 distinct clusters.The marker genes of each cluster and the four major immune cell types(B cells,CD4+T cells,CD8+T cells,myeloid cells,and NK cells)were determined.Moreover,several genes involved in antigen processing and presentation through MHCII were highly enriched.GO enrichment analyses revealed abnormal gene expression patterns and signaling pathways in SLE.Of note,pseudotime analysis revealed that there was a different lineage hierarchy in the peripheral blood mononuclear cells(PBMCs)of the SLE patient,indicating that the cell states were substantially altered under disease conditions.Our analysis provides a comprehensive map of the cell types and states of the PBMCs of SLE patients at the single-cell level for a better understanding of the pathogenesis,diagnosis,and treatment of SLE. | XIANLIANG HOU DONGE TANG FENGPING ZHENG MINGLIN OU YONG XU HUIXUAN XU XIAOPING HONG XINZHOU ZHANG WEIER DAI DONGZHOU LIU YONG DAI | 2020 | BIOCELL2020，44，4： | 0 |
| 11 | Association between SLC17A7 gene polymorphisms and venlafaxine for major depressive disorder in a Chinese Han population:a prospective pharmacogenetic case-control study显示文摘Objective: Venlafaxine is a common antidepressant and its therapeutic effect varies among people with different genetic backgrounds. The aim of this study was to investigate whether single nucleotide polymorphisms (SNPs) in theSLC17A7 gene are associated with the treatment outcome of venlafaxine in a Chinese Han population with major depressive disorder.Methods: This prospective pharmacogenetic case-control study that involved genotyping of four SNPs ofSLC17A7 was conducted on 175 major depressive disorder patients of Chinese Han origin, aged 18 to 65 years, participated in the study from April 2005 to September 2006. Comparisons of allele and genotype frequencies of all SNPs were performed between the responder/remission group and the nonresponder/nonremission group. This study was approved by the Institutional Ethics Committee of Sichuan University (approval No. 20151112-265).Results: The allele and genotype frequencies of the four candidate SNPs inSCL17A7 showed no significant difference between responders and nonresponders. Meanwhile, no significant difference was detected in the four investigatedSLC17A7 SNPs between patients who did and did not exhibit remission. Although one of the investigatedSLC17A7 variants (rs1578944) demonstrated a significant association (P=0.022) with a response to venlafaxine after 6 weeks of treatment in the survival analysis, the association was unclear after a Bonferroni multiple comparisons test was conducted.Conclusion: No significant association exists between the four candidate SNPs (rs1043558, rs1320301, rs1578944, and rs74174284) inSLC17A7 and venlafaxine treatment in the Chinese Han population. | Liangile Liu Decheng Ren Fan Yuan Yan Bi Zhenming Guo Gaini Ma Fei Xu Binyin Hou Lei Ji Zhixuan Chen Lin An Naixin Zhang Tao Yu Xingwang Li Fengping Yang Xueli Sun Zaiquan Dong Shunying Yu Zhenghui Yi Yifeng Xu Lin He Shaochang Wu Longyou Zhao Changqun Cai Guang He Yi Shi | 2021 | Journal of Bio-X Research2021，4，3： | 0 |
| 12 | Optimizing the hybridization chain reaction-fluorescence in situ hybridization(HCR-FISH)protocol for detection of microbes in sediments显示文摘Fluorescence in situ hybridization(FISH)is a canonical tool commonly used in environmental microbiology research to visualize targeted cells.However,the problems of low signal intensity and false-positive signals impede its widespread application.Alternatively,the signal intensity can be amplified by incorporating Hybridization Chain Reaction(HCR)with FISH,while the specificity can be improved through protocol modification and proper counterstaining.Here we optimized the HCR-FISH protocol for studying microbes in environmental samples,particularly marine sediments.Firstly,five sets of HCR initiator/amplifier pairs were tested on the laboratory-cultured bacterium Escherichia coli and the archaeon Methano-coccoides methylutens,and two sets displayed high hybridization efficiency and specificity.Secondly,we tried to find the best combination of sample pretreatment methods and HCR-FISH protocol for environmental sample analysis with the aim of producing less false positive signals.Various detachment methods,extraction methods and formulas of hybridization buffer were tested using sediment samples.Thirdly,an image processing method was developed to enhance the DAPI signal of microbial cells against that of abiotic particles,providing a reliable reference for FISH imaging.In summary,our optimized HCR-FISH protocol showed promise to serve as an addendum to traditional FISH for research on environmental microbes. | Zeyu Jia Yijing Dong Heng Xu Fengping Wang | 2021 | Marine Life Science & Technology2021，3，4： | 0 |
| 13 | Cryogenic superresolution correlative light and electron microscopy of vitreous sections显示文摘Fluorescence microscopy and electron microscopy complement each other as the former provides labelling and localisation of specific molecules and target structures while the latter possesses excellent revolving power of fine structure in context.These two techniques can combine as correlative light and electron microscopy(CLEM)to reveal the organisation of materials within the cell.Frozen hydrated sections allow microscopic observations of cellular components in situ in a near-native state and are compatible with superresolution fluorescence microscopy and electron tomography if sufficient hardware and software support is available and a well-designed protocol is followed.The development of superresolution fluorescence microscopy greatly increases the precision of fluorescence annotation of electron tomograms.Here,we provide detailed instructions on how to perform cryogenic superresolution CLEM on vitreous sections.From fluorescence-labelled cells to high pressure freezing,cryoultramicrotomy,cryogenic single-molecule localisation microscopy,cryogenic electron tomography and image registration,electron tomograms with features of interest highlighted by superresolution fluorescence signals are expected to be obtained. | Buyun Tian Maoge Zhou Fengping Feng Xiaojun Xu Pei Wang Huiqin Luan Wei Ji Yanhong Xue Tao Xu | 2022 | Biophysics Reports2022，8，4： | 0 |
| 14 | Identification of KCS gene family and functional analysis of FAE-like genes from Malania oleifera显示文摘KCS(3-ketoacyl-CoA synthase)is the key enzyme catalyzing the first step of very long chain fatty acid(VLCFA)biosynthesis.Studies showed that different KCSs possessed different substrate preference.Malania oleifera are abundance of VLCFAs in its mature seeds,especially the nervonic acid,which is essential for human health.In this study,we identified and characterized 18 KCS genes in M.oleifera genome.Phylogenetic analysis showed that these KCS genes were classified into four subfamilies,including two FAE-like,six KCS-like,eight FDH-like and two CER6.We concentrated on the functional role of two FAE-like genes,Maole003085.T1 and Maole004215.T1 which encoded predicted amino acid residues of 516 and 518 in protein,respectively.Multiple sequence alignment showed that their two proteins contained the known and conserved active sites among FAE-like subfamily.Upon heterologous expression in wild type yeast(Saccharomyces cerevisiae)INVSc1,we found that Maole004215.T1 could produce four new fatty acids including C22:0/C22:1 and C24:0/C24:1,but Maole003085.T1 only produced C22:1.Besides,upon heterologous expression in mutant yeast BY4741-△elo3,we found the Maole003085.T1 could produce C24:0 and C26:0,while the Maole004215.T1 could catalyze the formation of fatty acids C24:0,C26:0 and C28:0.These results showed Maole003085.T1 and Maole004215.T1 had fatty acid elongation activity in yeast,and possessed different substrate preference in the production of different VLCFAs.Interestingly,we found Maole004215.T1 could produce nervonic acid in yeast,which provides molecular basis on the genetic improvement and genic engineering for producing nervonic acid resources by using biotechnological methods. | Huan Dai Yanyu Zhang Pei Jin Fengping Song Wei Xu Aizhong Liu Zuqing Meng Tianquan Yang | 2021 | Oil Crop Science2021，6，1： | 0 |
| 15 | Modeling detector response function of alpha particles for neutron depth profiling显示文摘The energy spreading of recorded ions is influenced by straggling,geometrical acceptance angles and detector energy resolution effects in neutron depth profiling(NDP)and a symmetric Gaussian function model was customarily applied before.In addition,the spectra of mono-energetic alpha particles show a well known asymmetric shape as well when measured by silicon detectors.This article presents a physical model predicting the observed energy spectrum of a sample ion with target nuclides in prearranged depths.It is expressed as the convolution of a Gaussian function with a left-hand double-exponential function.Experiment showed that the predicted ions spectrum derived from the asymmetric model matches the observed energy spectrum.Therefore,the model can be applied to produce matrix for inversion of NDP spectrum. | DOU HaiFeng LI RunDong XU JiaYun YUAN Shu TANG FengPing YANG Xin | 2014 | Science China(Technological Sciences)2014，57，1： | 0 |
| 16 | Interactivemedical image segmentation with self-adaptive confidence calibration显示文摘Interactive medical image segmentation based on human-in-the-loop machine learning is a novel paradigm that draws on human expert knowledge to assist medical image segmentation.However,existing methods often fall into what we call interactive misunderstanding,the essence of which is the dilemma in trading off short-and long-term interaction information.To better use the interaction information at various timescales,we propose an interactive segmentation framework,called interactive MEdical image segmentation with self-adaptive Confidence CAlibration(MECCA),which combines action-based confidence learning and multi-agent reinforcement learning.A novel confidence network is learned by predicting the alignment level of the action with short-term interaction information.A confidence-based reward-shaping mechanism is then proposed to explicitly incorporate confidence in the policy gradient calculation,thus directly correcting the model’s interactive misunderstanding.MECCA also enables user-friendly interactions by reducing the interaction intensity and difficulty via label generation and interaction guidance,respectively.Numerical experiments on different segmentation tasks show that MECCA can significantly improve short-and long-term interaction information utilization efficiency with remarkably fewer labeled samples.The demo video is available at http://gffzzb7e5c6aafd9a44e9s9vnpun0fnxk56w95.ffgz.tsg.suse.edu.cn/mecca-demo-video. | Chuyun SHEN Wenhao LI Qisen XU Bin HU Bo JIN Haibin CAI Fengping ZHU Yuxin LI Xiangfeng WANG | 2023 | Frontiers of Information Technology & Electronic Engineering2023，24，9： | 0 |
| 17 | Solid-liquid flow characteristics and sticking-force analysis of valve-core fitting clearance显示文摘External contamination particles or wear particles corroded by a valve body are mixed into the fluid. As a result, when the fluid enters the fitting clearance of the valve core, it can cause an increase in resistance and lead to sticking failure of the valve core. This paper analyzes solid-liquid flow characteristics in fitting clearances and valve-core sticking based on the Euler-Euler model, using a typical hydraulic valve as an example. The impact of particle concentration and diameter on flow characteristics and valve-core sticking force was analyzed. The highest volume fraction of particles was in the pressureequalizing groove(PEG), with peak values increasing as the particle diameter increased. The sticking force increased with increasing particle concentration. When the particle diameter was 12 μm, the sticking force was the largest, making this the sensitive particle diameter. Particle distribution and valve-core sticking force were compared for oval, rectangular, and triangular PEGs. The fluid-deflection angles in oval and rectangular PEGs were larger, and their values were 32.83° and 39.15°, respectively. The fluid-deflection angle in the triangular PEG was relatively small, less than 50% that of the oval or rectangular PEGs. The particle-volume-fraction peaks in oval, rectangular, and triangular PEGs were 0.0317, 0.0316, and 0.0312, respectively. The sticking forces of oval, rectangular, and triangular PEGs were 4.796, 4.802, and 4.757 N, respectively when the particle diameter was 12 μm. This work provides a reference for design and research aimed at reducing valve-core sticking. | Jin-yuan QIAN Jiaxiang XU Fengping ZHONG Zhenhao LIN Tingfeng HUA Zhijiang JIN | 2023 | Journal of Zhejiang University-Science A(Applied Physics & Engineering)2023，24，12： | 0 |
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