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TransCell:In Silico Characterization of Genomic Landscape and Cellular Responses by Deep Transfer Learning

Genomics, Proteomics & Bioinformatics 2024年第2期22卷 157-170页

作者： shan-ju yeh Shreya Paithankar Ruoqiao Chen Jing Xing Mengying Sun Ke Liu Jiayu Zhou Bin Chen Department of Pediatrics and Human Development Michigan State UniversityGrand RapidsMI 49503USA Department of Pharmacology and Toxicology Michigan State UniversityGrand RapidsMI 49503USA Department of Computer Science and Engineering Michigan State UniversityEast LansingMI 48824USA

Gene expression profiling of new or modified cell lines becomes routine today;however,obtaining comprehensive molecular characterization and cellular responses for a variety of cell lines,including those derived from underrepresented groups,is not trivial when resources are *** gene expression to predict other measurements has been actively explored;however,systematic investigation of its predictive power in various measurements has not been well ***,we evaluated commonly used machine learning methods and presented TransCell,a two-step deep transfer learning framework that utilized the knowledge derived from pan-cancer tumor samples to predict molecular features and *** these models,TransCell had the best performance in predicting metabolite,gene effect score(or genetic dependency),and drug sensitivity,and had comparable performance in predicting mutation,copy number variation,and protein ***,TransCell improved the performance by over 50%in drug sensitivity prediction and achieved a correlation of 0.7 in gene effect score ***,predicted drug sensitivities revealed potential repurposing candidates for new 100 pediatric cancer cell lines,and predicted gene effect scores reflected BRAF resistance in melanoma cell ***,we investigated the predictive power of gene expression in six molecular measurement types and developed a web portal(http://***/transcell/)that enables the prediction of 352,000 genomic and cellular response features solely from gene expression profiles.

关键词： Genomics Transcriptomics Cancer dependency Drug repurposing Transfer learning

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Simultaneous range and radial velocity estimation with a single narrowband LFM pulse

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Journal of Systems Engineering and Electronics 2012年第3期23卷 372-377页

作者： Chunmao yeh Jian Yang Xiuming shan Yingning Peng Department of Electronic Engineering Tsinghua UniversityBeijing 100084E R.China

The mismatch effect induced by the radial motion of a target is analyzed for linear frequency modulated （LFM） signals. Then, a novel integrated processing scheme is proposed to re- solve the delay-Doppler coupling effect in LFM pulse compression. Therefore the range and radial velocity of the target can be si- multaneously estimated with a narrowband LFM pulse. Finally, numerical simulation results demonstrate the effectiveness and good performance of the proposed method.

关键词： delay-Doppler coupling motion estimation linear fre- quency modulated (LFM) pulse extended filtering.

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刺芒柄花素对白细胞介素1β诱导软骨细胞损伤影响的机制

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中国组织工程研究 2025年第12期29卷 2484-2491页

作者：单继新叶锐彬巨少华王强成都体育学院附属体育医院正骨科四川省成都市610041

背景:刺芒柄花素是一种异黄酮类化合物,广泛存在于红车轴草、黄芪、鸡血藤中,具有抑制氧化应激、炎症因子释放及细胞凋亡的作用。目的:探讨刺芒柄花素对白细胞介素1β诱导软骨细胞损伤的影响及机制。方法:①收集骨关节炎患者及单纯半月... 详细信息

背景:刺芒柄花素是一种异黄酮类化合物,广泛存在于红车轴草、黄芪、鸡血藤中,具有抑制氧化应激、炎症因子释放及细胞凋亡的作用。目的:探讨刺芒柄花素对白细胞介素1β诱导软骨细胞损伤的影响及机制。方法:①收集骨关节炎患者及单纯半月板损伤患者的软骨组织,采用实时定量PCR检测miR-135b-5p表达。②体外培养人软骨细胞,分9组培养:正常对照组不进行任何处理,培养48 h;白细胞介素1β组加入白细胞介素1β处理48 h;白细胞介素1β+刺芒柄花素低浓度组加入25μmol/L刺芒柄花素处理24 h后加入白细胞介素1β处理48 h;白细胞介素1β+刺芒柄花素中浓度组加入50μmol/L刺芒柄花素处理24 h后加入白细胞介素1β处理48 h;白细胞介素1β+刺芒柄花素高浓度组加入100μmol/L刺芒柄花素处理24 h后加入白细胞介素1β处理48 h;白细胞介素1β+miR NC组转染miR NC 6 h后加入白细胞介素1β处理48 h;白细胞介素1β+miR-135b-5p组转染miR-135b-5p模拟物6 h后加入白细胞介素1β处理48 h;白细胞介素1β+刺芒柄花素高浓度+anti-miR-NC组转染anti-miR-NC 6 h后加入100μmol/L刺芒柄花素处理24 h,再加入白细胞介素1β处理48 h;白细胞介素1β+刺芒柄花素高浓度+anti-miR-135b-5p组转染anti-miR-135b-5p 6 h后加入100μmol/L刺芒柄花素处理24 h,再加入白细胞介素1β处理48 h。处理结束后进行相关检测。结果与结论:①骨关节炎患者软骨组织中miR-135b-5p表达低于单纯半月板损伤患者(P<0.05)。②与正常对照组比较,白细胞介素1β组软骨细胞miR-135b-5p表达、增殖活力、超氧化物歧化酶活性、Ⅱ型胶原蛋白、Bcl-2蛋白表达均降低(P<0.05),细胞凋亡率、乳酸脱氢酶活性、丙二醛水平、促炎因子水平、基质金属蛋白酶13蛋白、Bax蛋白表达均升高(P<0.05);刺芒柄花素可抑制白细胞介素1β对软骨细胞造成的损伤,并且呈现浓度依赖性。转染miR-135b-5p模拟物可提升白细胞介素1β组miR-135b-5p表达,抑制白细胞介素1β对软骨细胞造成的损伤;转染anti-miR-135b-5p可降低白细胞介素1β+刺芒柄花素高浓度组miR-135b-5p表达,抑制刺芒柄花素发挥软骨细胞作用。③结果表明,刺芒柄花素对白细胞介素1β诱导软骨细胞损伤的保护作用可能与调控miR-135b-5p表达有关。

关键词：刺芒柄花素 miR-135b-5p 软骨细胞氧化应激炎症细胞增殖细胞凋亡

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Dynamic Recrystallization Behavior of Bimodal Size SiCpReinforced Mg Matrix Composite during Hot Deformation

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Acta Metallurgica Sinica(English Letters) 2016年第6期29卷 527-537页

作者： Cui-ju Wang Kun-Kun Deng shan-shan Zhou Wei Liang shanxi Key Laboratory of Advanced Magnesium-based Materials College of Materials Science and EngineeringTaiyuan University of Technology

The（submicron＋micron） bimodal size Si Cp-reinforced Mg matrix composite was compressed at the temperature of 270–420 °C and strain rate of 0.001–1 s^-1. Then, dynamic recrystallization（DRX） behavior of the composite was investigated by thermodynamic method and verified by microstructure analysis. Results illustrated that the composite possess the lower critical strain and higher DRX ratio as compared to monolithic Mg alloys during hot deformation process. The predicted DRX ratio increased with the proceeding of compression, which was well consistent with the experimental value. Results from thermodynamic calculation suggested that the occurrence of DRX could be promoted by Si Cp, which would be further proved by microstructure analysis. Formation of particle deformation zone around micron Si Cp played a significant role in promoting DRX nucleation. Nevertheless, the distribution of submicron Si Cp was increasingly uniform with the proceeding of compression, which could fully restrain grain growth. Therefore, the corporate effects of micron and submicron Si Cp on DRX contributed to the improvement of DRXed ratio and the refinement of grain size for the composite during compression process.

关键词： Magnesium matrix composite Deformation Dynamic recrystallization Microstructure Thermodynamic analysis

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Remarks on g-functions on H^n

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Acta Mathematica Sinica,English Series 2007年第1期23卷 7-16页

作者： Ming ju LIU shan Zhen LU LMIB and Department of Mathematics Beihang University Beijing 100083 P. R. China Department of Mathematics Beijing Normal University Beijing 100875 P. R. China

In this paper, the authors study some properties of Littlewood-Paley g-functions gψ（f）,Lusin area functions Sψ,α（f） and Littlewood-Paley gψ^＊,λ（f） functions defined on H^n, where α,λ 〉 0 and ψ, f are s... 详细信息

关键词： Square integrable function Weight Herz spaces

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3D processing map for hot working of extruded AZ80 magnesium alloy

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Rare Metals 2017年第1期36卷 10-17页

作者： ju-Qiang Li juan Liu Zhen-shan Cui National Engineering Research Center for Die and Mold CAD School of Materials Science and Engineering Shanghai Jiao Tong University Shanghai 200030 China shanghai Key Laboratory of Advanced High-Temperature Materials and Precision Forming Shanghai Jiao Tong University Shanghai 200030 China

The hot deformation behavior of extruded AZ80 magnesium alloy was investigated using compression tests in the temperature range of 250–400 °C and strain rate range of 0.001–1.000 s–1. The 3D power dissipation map was developed to evaluate the hot deformation mechanisms and determine the optimal processing parameters. Two domains of dynamic recrystallization were identified from the 3D power dissipation map, with one occurring in the temperature and strain rate range of 250–320 °C and 0.001–0.010 s–1and the other one occurring in the temperature and strain rate range of 380–400 °C and 0.001–0.003 s–1. In order to delineate the regions of flow instability, Prasad’s instability criterion, Murty’s instability criterion and Gegel’s stability criteria were employed to develop the 3D instability maps. Through microstructural examination, it is found that Prasad’s and Murty’s instability criteria are more effective than Gegel’s stability criteria in predicting the flow instability regions for extruded AZ80 alloy. Further, the 3D processing maps were integrated into finite element simulation and the predictions of the simulation are in good agreement with the experimental results.

关键词： Magnesium alloy Processing map Dynamic recrystallization Flow instability Finite element simulation

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A Comparative Study of Numerical Models for Wave Propagation and Setup on Steep Coral Reefs

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China Ocean Engineering 2019年第4期33卷 424-435页

作者： ZHANG shan-ju ZHU Liang-sheng ZOU Kai South China University of Technology School of Civil Engineering and Transportation

Complex factors including steep slopes, intense wave breaking, large bottom friction and remarkable wave setup should be considered while studying wave propagation over coral reefs, and how to simulate wave propagation and setup on coral reefs efficiently has become a primary focus. Several wave models can be used on coral reefs as have been published, but further testing and comparison of the reliability and applicability of these models are needed. A comparative study of four numerical wave models (i.e., FUNWAVE-TVD, Coulwave, NHWAVE and ZZL18) is carried out in this paper. These models’ governing equations and numerical methods are compared and analyzed firstly to obtain their differences and connections;then the simulation effects of the four wave models are tested in four representative laboratory experiments. The results show that all four models can reasonably predict the spectrum transformation. Coulwave, NHWAVE and ZZL18 can predict the wave height variation more accurately;Coulwave and FUNWAVE-TVD tend to underestimate wave setup on the reef top induced by spilling breaker, while NHWAVE and ZZL18 can predict wave setup relatively accurately for all types of breakers;NHWAVE and ZZL18 can predict wave reflection by steep reef slope more accurately. This study can provide evidence for choosing suitable models for practical engineering or establishing new models.

关键词： coral reefs steep slope Boussinesq equations wave propagation and setup wave breaking numerical simulation comparative study

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Hot Deformation Stability of Extruded AZ61 Magnesium Alloy Using Different Instability Criteria

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Acta Metallurgica Sinica(English Letters) 2015年第11期28卷 1364-1372页

作者： ju-Qiang Li juan Liu Zhen-shan Cui National Engineering Research Center for Die and Mold CAD School of Materials Science and EngineeringShanghai Jiao Tong University

The hot deformation stability of extruded AZ61 magnesium alloy was investigated by means of hot com- pression tests at the temperature range of 250-400 ℃ and strain rate range of 0.001-1 s^-1. The 3D instability maps considering the effect of strain were developed to delineate the regions of unstable flow on the basis of Jonas＇s, Semiatin＇s, Prasad＇s, Murty＇ s, Gegel＇s and Alexander＇s criteria. Since non-uniform deformation occurs due to the initial microstructure inhomogeneity, the friction, etc., finite element simulations were performed to determine the position of the specimens which can mostly represent the preset deformation parameter. Detailed microstructural investigation on such position was carried out to examine the validity of the instability maps, and the results indicate that for extruded AZ61 magnesium alloy：（1） Jonas＇s and Semiatin＇s criteria conservatively predict the instability regions; （2） Gegel＇s and Alexander＇s criteria inadequately predict the instability regions; （3） Prasad＇s and Murty＇s criteria provide more effective predictions of the instability regions than Jonas＇s, Semiatin＇s, Gegel＇s and Alexander＇s criteria,

关键词： Magnesium alloy Hot deformation stability Finite element simulation Microstructure

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Performance evaluation and optimization design of photoelectric pyrometer detection optical system

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Defence Technology（防务技术） 2020年第2期16卷 401-407页

作者： Xue-yan Han Ke-wei Huan shan-ju Sheng School of Science Changchun University of Science and TechnologyChangchun 130022China

The measurement and control of high temperature play very important roles in national defense,military,scientific experiments,industrial and agricultural *** pyrometer is one of the important radiation thermometers for non-contact temperature *** has an important application in the field of high temperature measurement,and its performance directly affects the accuracy of temperature *** improving the design of the detection optical system of the photoelectric pyrometer,the imaging performance of the photoelectric pyrometer can be improved effectively,and the temperature measurement accuracy can be *** this paper,the temperature measurement principle of photoelectric pyrometer,the wo rking principle of the detection optical system and the composition of the system are *** optical components that affect the imaging of the optical system of the photoelectric pyrometer are *** optical pyrometer detection optical system is simulated by ZEMAX software,based on the analysis results,the Modulation Transfer Function(MTF)and the spot Diagram are used as the main evaluation criteria to optimize the design of the objective lens of the photoelectric pyrometer detection optical *** imaging performance of the photoelectric pyrometer detection optical system and the accuracy of temperature measurement of the photoelectric pyrometer are improved by optimization design of the detection optical system.

关键词： Photoelectric pyrometer Detection optical system ZEMAX MTF Spot diagram

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A new approach of using Lorentz force to study single-asperity friction inside TEM

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Journal of Materials Science & Technology 2021年第25期84卷 43-48页

作者： Huanhuan Lu Zhangjie Wang Di Yun ju Li Zhiwei shan Center for Advancing Materials Performance from the Nanoscale(CAMP-Nano)and Hysitron Applied Research Center in China(HARCC) State Key Laboratory for Mechanical Behavior of MaterialsXi’an Jiaotong UniversityXi’an710049People’s Republic of China School of Nuclear Science and Technology Xi’an Jiaotong UniversityXi’an710049People’s Republic of China Department of Nuclear Science and Engineering and Department of Materials Science and Engineering Massachusetts Institute of TechnologyCambridgeMA02139USA

Taking advantage of the magnetic field inside transmission electron microscope(TEM),a unique Lorentzforce-actuated method for quantitative friction tests was developed via a commercial electromechanical *** this approach,a submicron-sized silver asperity sliding on a tungsten flat punch was actuated by Lorentz force due to electrical current through the punch,with the normal force imposed by the built-in transducer of the *** friction force was determined by tracking the elastic deflection of the fabricated cantilever from in situ *** correlating the friction behavior with the microstructural evolution near the silver-tungsten interface,we revealed that even when the relative motion commenced with the plastic deformation of the silver asperity,the interface can still sustain the further increasing static friction *** following the arrival of the maximum static friction force,the sliding occurred at the interface,indicating the transition from static to dynamic *** work enriches our understanding of the underlying physics of the dynamic friction process for metallic friction behavior.

关键词： friction deformation silver

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