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Computational methods for identifying enhancer-promoter interactions

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Quantitative Biology 2023年第2期11卷 122-142页

作者： Haiyan Gong zhengyuan chen Yuxin Tang Minghong Li Sichen Zhang Xiaotong Zhang Yang chen School of Computer and Communication Engineering BeijingAdvanced Innovation Center for Materials Genome EngineeringUniversity of Science and Technology BeijingBeijing 100083China State Key Laboratory of Medical Molecular Biology Department of Biochemistry and Molecular BiologyInstitute of Basic Medical SciencesSchool of Basic MedicineChinese Academy of Medical SciencesPeking Union Medical CollegeBeijing 100005China Shunde Innovation School University of Science and Technology BeijingFoshan 528399China

Background:As parts of the cis-regulatory mechanism of the human genome,interactions between distal enhancers and proximal promoters play a crucial ***,promoters,and enhancer-promoter interactions(EPIs)can be detected using many sequencing technologies and computation ***,a systematic review that summarizes these EPI identification methods and that can help researchers apply and optimize them is still ***:In this review,we first emphasize the role of EPIs in regulating gene expression and describe a generic framework for predicting enhancer-promoter ***,we review prediction methods for enhancers,promoters,loops,and enhancer-promoter interactions using different data features that have emerged since 2010,and we summarize the websites available for obtaining enhancers,promoters,and enhancer-promoter interaction ***,we review the application of the methods for identifying EPIs in diseases such as ***:The advance of computer technology has allowed traditional machine learning,and deep learning methods to be used to predict enhancer,promoter,and EPIs from genetic,genomic,and epigenomic *** the past decade,models based on deep learning,especially transfer learning,have been proposed for directly predicting enhancer-promoter interactions from DNA sequences,and these models can reduce the parameter training time required of bioinformatics *** believe this review can provide detailed research frameworks for researchers who are beginning to study enhancers,promoters,and their interactions.

关键词： enhancer promoter enhancer-promoter interaction machine learning deep learning

Entropy-modulated and interlayer-doped transition metal layered oxides enable high-energy-density sodium-ion capacitors

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Nano Research 2024年第10期17卷 8785-8793页

作者： Tiansheng Wang Yadong Li zhengyuan chen Qingshan Liu Jian Lang Langyuan Wu Wendi Dong Zhengyu Ju Hongsen Li Xiaogang Zhang Guihua Yu College of Physics Qingdao UniversityQingdao 266071China Jiangsu Key Laboratory of Materials and Technologies for Energy Storage College of Materials Science and TechnologyNanjing University of Aeronautics and AstronauticsNanjing 210016China Materials Science and Engineering Program and Walker Department of Mechanical Engineering The University of Texas at AustinAustin 78712USA

In recent years,sodium-ion capacitors have attracted attention due to their cost-effectiveness,high power density and similar manufacturing process to lithium-ion ***,the utilization of oxide electrodes in traditional sodium-ion capacitors restricts their further advancement due to the inherent low operating voltage and electrolyte consumption based on their energy storage *** address these challenges,we incorporated Zn,Cu,Ti,and other elements into Na_(0.67)Ni_(0.33)Mn_(0.67)O_(2) to synthesize P2-type Na_(0.7)Ni_(0.28)Mn_(0.6)Zn_(0.05)Cu_(0.02)Ti_(0.05)O_(2) with a modulated entropy and pillaring *** the synergistic interplay between the interlayer pillar and the entropy modulation within the layers,the material exhibits exceptional toughness,effectively shielding it from detrimental phase transitions at elevated voltage *** a result,the material showcases outstanding kinetic properties and long-term cycling stability across the voltage *** integrating these materials with hierarchical porous carbon nanospheres to form a"rocking chair"sodium-ion capacitor,the hybrid full device delivers a high energy density(171 Wh·kg^(-1))and high power density(5245 W·kg^(-1)),as well as outstanding cycling stability(77% capacity retention after 3000 cycles).This work provides an effective material development route to realize simultaneously high energy and power for next-generation sodium-ion capacitors.

关键词： sodium-ion capacitors entropy modulation high power density long-term cycling layered oxide

Time calibration of barrel TOF system at BESIII

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Radiation Detection Technology and Methods 2024年第2期8卷 1264-1271页

作者： zhengyuan chen Shengsen Sun Huaimin Liu Ziyan Deng Gang Li Shuopin Wen Guang Zhao Institute of High Energy Physics Chinese Academy of Sciences Beijing100049China University of Chinese Academy of Sciences Beijing100049China

Purpose In the BESIII experiment,a conventional least square method is currently used to calibrate the time-of-flight(TOF)system,aiming to achieve optimal time ***,it is intricate for conventional methods to handle electronics saturation and boundary effect which affect the time *** A novel method based on machine learning techniques for time calibration of barrel TOF system is implemented in this *** and conclusion With the application of boosted decision tree(BDT)algorithm,the overall time resolution of barrel TOF is found to be 64 *** with conventional method,a notable improvement in time resolution is achieved in the boundary range of the scintillator bar using BDT method.

关键词： Time calibration Boosted decision trees Time of flight BESIII

The Impact of Digital Economy on Total Factor Productivity of China’s Service Industry

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Journal of Finance Research 2021年第2期5卷 90-101页

作者： Chunyan Liang zhengyuan chen Academy of Humanities and Social Sciences Jiangsu University of Science and TechnologyZhenjiangJiangsu212000China

As a kind of integrated economy,digital economy has an important impact on the economic growth and production and lifestyle of multiple countries and regions,and plays a significant role in promoting the reconstruction of the international economic *** an important industry of China’s national economy,the service industry is crucial to China’s economic *** paper measures the development level of digital economy in provinces and cities through constructing digital economy index system,uses super efficiency SBM-Malmquist model to measure total factor productivity of service industry,and tests the influence effect of digital economy on total factor productivity of Chinese service ***,the optimization path of digital economy on China’s service industry is proposed.

关键词： Digital economy Total factor productivity of service industry Super-efficiency SBM-Malmquist

一种基于RSS的改进的可见光定位系统（英文）

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中国科学技术大学学报 2017年第2期47卷 188-194页

作者：曾勉龚晨徐正元中国科学院无线光通信重点实验室中国科学技术大学信息科学与技术学院安徽合肥230026

提出了一种基于RSS(received signal strength)的改进的可见光定位算法,并且通过实验验证了该算法.为了消除相邻LED光信号的干扰,相邻灯采用时分的模式发送信号.首先,通过仿真和实验结果分析了基于朗伯模型的RSS定位算法,然后提出了一... 详细信息

提出了一种基于RSS(received signal strength)的改进的可见光定位算法,并且通过实验验证了该算法.为了消除相邻LED光信号的干扰,相邻灯采用时分的模式发送信号.首先,通过仿真和实验结果分析了基于朗伯模型的RSS定位算法,然后提出了一种改进的定位算法.通过实验结果和仿真结果证明,该定位算法在实用定位系统中的定位误差可达到厘米级别,并且该定位算法的鲁棒性更好、算法复杂度更低,更适合于实际工程应用.

关键词：可见光定位 RSS(received signal strength) 室内定位

现阶段推进我国金融精准扶贫的对策研究——基于贵州省的实践探索

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中国海洋大学学报（社会科学版） 2018年第4期 97-102页

作者：陈正源中共贵州省委讲师团理论与当代杂志社贵州贵阳550002

金融精准扶贫是推进脱贫攻坚的重要一环,是金融系统必须要高度重视并具体实施的一项重要工作。近年来,贵州省积极推进金融精准扶贫工作,在实践中创新发展,出台了一系列金融精准扶贫的具体措施,有力地推动了全省脱贫攻坚的顺利开展,为贵... 详细信息

金融精准扶贫是推进脱贫攻坚的重要一环,是金融系统必须要高度重视并具体实施的一项重要工作。近年来,贵州省积极推进金融精准扶贫工作,在实践中创新发展,出台了一系列金融精准扶贫的具体措施,有力地推动了全省脱贫攻坚的顺利开展,为贵州扶贫开发试验区建设提供了有力的金融支持,为精准扶贫的贵州方略和贵州模式做出了积极的贡献,实践中要加强金融基础设施建设、大力推动金融改革创新、发展绿色金融、依托前沿科技发展金融事业,为金融领域推进精准扶贫,建立长效机制作出积极的探索,为贵州与全国同步建成全面小康社会奠定坚实的金融基础。

关键词：脱贫攻坚精准扶贫绿色金融金融扶贫

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新阶段巩固提升脱贫攻坚成果的几点思考

漳州职业技术学院学报 2021年第1期23卷 62-66页

作者：陈正源中共贵州省委讲师团习思想研究室贵州贵阳550028

在同步推进脱贫攻坚战和全面建成小康社会之后,我国又踏入了开启社会主义现代化建设新征程的起步之年,各项工作永远在路上,带领人民创造幸福生活,不断满足人民日益增长的美好生活需要,是中国共产党始终不渝的奋斗目标。脱贫攻坚的“成... 详细信息

在同步推进脱贫攻坚战和全面建成小康社会之后,我国又踏入了开启社会主义现代化建设新征程的起步之年,各项工作永远在路上,带领人民创造幸福生活,不断满足人民日益增长的美好生活需要,是中国共产党始终不渝的奋斗目标。脱贫攻坚的“成色”如何,将直接影响农村经济社会的高质量发展和乡村振兴目标的实现,要高度重视巩固提升脱贫成果的系列工作,为接续推进农业农村现代化建设工作打下坚实的发展基础。

关键词：人民中心精准脱贫高质量发展乡村振兴

基于CRM的障碍物碰撞风险评估软件设计与实现

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移动信息 2023年第3期45卷 158-161页

作者：陈正源中国民用航空飞行学院广汉分院四川德阳618300

基于国际民航组织文件ICAO9274对ILS碰撞风险模型(CollisionRiskModel,CRM)进行的研究分析,文中设计与开发了一个符合文件规范、标准的、不限地形与飞机机型的计算机场周边障碍物的碰撞风险评估桌面应用软件。

关键词： CRM 碰撞风险模型障碍物碰撞碰撞风险评估

芦荟炒制品中总黄酮提取工艺优化及抗氧化活性研究

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食品与机械 2023年第10期39卷 175-183页

作者：曾令琴郭江涛刘杰陈正远徐佳红贵州中医药大学药学院贵州贵阳550025

目的:优化芦荟炒制品中总黄酮提取工艺,并探讨其抗氧化活性。方法:采用单因素试验和响应面法优化提取工艺,运用紫外分光光度法测定不同产地芦荟生品与炒制品中总黄酮含量,通过DPPH·、ABTS^(+)·、·OH及FRAP法研究其抗氧化活性,并通过P... 详细信息

目的:优化芦荟炒制品中总黄酮提取工艺,并探讨其抗氧化活性。方法:采用单因素试验和响应面法优化提取工艺,运用紫外分光光度法测定不同产地芦荟生品与炒制品中总黄酮含量,通过DPPH·、ABTS^(+)·、·OH及FRAP法研究其抗氧化活性,并通过Pearson相关系数分析总黄酮得率与抗氧化活性的相关性。结果:芦荟炒制品中总黄酮的最佳提取工艺为浸泡时间3 h、超声时间15 min、乙醇体积分数60%、料液比1∶10(g/mL)。炒制后,芦荟中总黄酮含量有所提高,8个产地芦荟生品与炒制品总黄酮对4种自由基均具有一定的清除作用,且与其浓度呈正相关,具有良好的抗氧化活性。相关性分析表明抗氧化能力与总黄酮得率均呈显著相关性。结论:优选的芦荟炒制品中总黄酮提取工艺合理可行,且具有较强的抗氧化活性。

关键词：芦荟炒制品总黄酮提取工艺响应面优化抗氧化活性

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