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CircPlant:An Integrated Tool for circRNA Detection and Functional Prediction in Plants

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Genomics, Proteomics & Bioinformatics 2020年第3期18卷 352-358页

作者： Peijing Zhang Yongjing Liu Hongjun chen Xianwen Meng Jitong Xue Kunsong chen ming chen Department of Bioinformatics State Key Laboratory of Plant Physiology and BiochemistryCollege of Life SciencesZhejiang UniversityHangzhou 310058China James D.Watson Institute of Genome Sciences Zhejiang UniversityHangzhou 310058China Zhejiang Provincial Key Laboratory of Horticultural Plant Integrative Biology Zhejiang UniversityHangzhou 310058China The State Agriculture Ministry Laboratory of Horticultural Plant Growth Development and Quality ImprovementZhejiang UniversityHangzhou 310058China Zhejiang Laboratory for Systems&Precision Medicine Zhejiang University Medical CenterHangzhou 311121China The State Key Laboratory of Crop Biology Shandong Key College of AgronomyShandong Agricultural UniversityTai’an 271018China

The recent discovery of circular RNAs(circRNAs)and characterization of their functional roles have opened a new avenue for understanding the biology of *** RNAs have been implicated to play important roles in a variety of biological processes,but their precise functions remain largely ***,a few approaches are available for novel circRNA prediction,but almost all these methods are intended for animal *** that the major differences between the organization of plant and mammal genomes cannot be neglected,a plant-specific method is needed to enhance the validity of plant circ RNA *** this study,we present Circ Plant,an integrated tool for the exploration of plant circRNAs,potentially acting as competing endogenous RNAs(ceRNAs),and their potential *** the incorporation of several unique plant-specific criteria,Circ Plant can accurately detect plant circRNAs from high-throughput RNA-seq *** on comparison tests on simulated and real RNA-seq datasets from Arabidopsis thaliana and Oryza sativa,we show that Circ Plant outperforms all evaluated competing tools in both accuracy and *** Plant is freely available at http://***/circplant.

关键词： Circular RNA Plant MicroRNA RNA-seq Identification

A Layer-Based Mesh Generator and Scheme for 3D Printing Simulation

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Computer Modeling in Engineering & Sciences 2019年第8期120卷 363-374页

作者： ming-Hsiao Lee Shou-I chen Wen-Hwa chen Ying Mao National Center for High-performance Computing NARLHsinchu 30013Taiwan China University of Technology TaipeiTaiwan National Tsing Hua University Hsinchu 30013Taiwan

3D Printing,also called Additive Manufacturing,has become a promising manufacturing method to produce parts in various fields as it can produce parts even with very irregular shapes in a relatively shorter process and ***,during the printing process,some problems could decrease the accuracy and quality of the printed parts,such as warpage due to thermal strains,deformation due to inadequate supports,*** finite element method is most commonly adopted to evaluate engineering problems in advance to reduce possible failures;however,the element meshes,needed for analyses,are always irregularly distributed,especially for irregular objects,and cannot match the layer-by-layer growing shapes of the printed parts in the 3D printing *** a proper element mesh,the analysis cannot be *** overcome this problem,a layer-based mesh generator combined with a corresponding scheme for the 3D Printing simulation is proposed and *** the proposed methods,the analysis models can be designed and generated to match the growing shapes,i.e.,layer-by-layer,and used to simulate the layer-by-layer growing behavior in the 3D printing ***,the proposed schemes directly adopt the Stereo-Lithography(STL)formatted geometric data as the geometry model on which the mesh generation and simulation are *** makes them even easier to use since the STL geometry format is a De facto standard format used in the 3D printing *** simulation cases have been conducted to demonstrate the effectiveness and efficiency of these proposed schemes.

关键词： 3D printing mesh generator layer-by-layer layer-based

Business Process Dynamic Reengineering Technology Based on Mode

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Journal of Beijing Institute of Technology 2019年第2期28卷 344-355页

作者： ming Ding Shuling Zhang chen Zhang School of Information and Technology Northwest UniversityXi'an 710127China Xi'an Aeronautics Computing Technique Research Institute Xi'an 710119China School of Computer Science and Technology Xidian UniversityXi’an 710071China

To ensure the efficiency and quality of complex business process design,a mode-based dynamic business process reengineering approach is proposed in this ***,the composition of business process is divided into five *** process modes from three levels of mission,content and resource are defined,and the transition relationships between modes are ***,the architecture model of business process is defined based on the architecture analysis and design language(AADL).The dynamic reengineering framework and implementation procedure are ***,the AADL architecture models are analyzed and verified to evaluate the business process performance,and a blueprint for reengineering is *** the guidance of the blueprint,the detailed design and development of attributes such as business processes,activities,resources and cost are *** studies are presented to validate that the mode analysis and dynamic reengineering approach based on the AADL architecture is able to improve the efficiency,reliability and reusability of business process design.

关键词： business process mode architecture analysis and design language dynamic reengineering

瑞马唑仑对鼻内镜手术老年患者术中脑氧饱和度及术后认知功能的影响

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中国新药与临床杂志 2024年第2期43卷 143-148页

作者：陈琴琴胡茜陈秋红刘博文杨文明张学康南昌大学附属口腔医院、江西省口腔生物医学重点实验室、江西省口腔疾病临床医学研究中心江西南昌330006 南昌大学第一附属医院江西南昌330006

目的探讨瑞马唑仑对鼻内镜手术老年患者术中脑氧饱和度及术后认知功能的影响。方法选择拟行鼻内镜手术的老年患者60例,随机均分为2组。对照组给予丙泊酚2.0mg·kg^(-1)诱导,丙泊酚4~6mg·kg^(-1)·h^(-1)维持,试验组给予瑞马唑仑0.3mg·... 详细信息

目的探讨瑞马唑仑对鼻内镜手术老年患者术中脑氧饱和度及术后认知功能的影响。方法选择拟行鼻内镜手术的老年患者60例,随机均分为2组。对照组给予丙泊酚2.0mg·kg^(-1)诱导,丙泊酚4~6mg·kg^(-1)·h^(-1)维持,试验组给予瑞马唑仑0.3mg·kg^(-1)诱导,瑞马唑仑0.2~0.3mg·kg^(-1)·h^(-1)维持,2组其他麻醉诱导和维持给药相同。采用硝酸甘油0.5~2.0g·kg^(-1)·min^(-1)静脉泵注,使平均动脉压(MAP)维持在50~65mmHg,手术结束后停止泵注。术中监测局部脑氧饱和度(rcSO_(2)),并在麻醉诱导前、拔管后和术后1h检测血清S100β和白细胞介素(IL)-6浓度。应用蒙特利尔认知评估量表(MoCA)评估患者认知功能,检测血流动力学指标,观察术后苏醒质量。结果术前1d、术后1d和7d,2组MoCA评分比较均无显著差异(P>0.05);且术后1d和7d,2组术后认知功能障碍(POCD)发生率比较无显著差异(P>0.05)。与对照组比较,试验组降压后的rcSO_(2)显著增高(P0.05),且均未发生明显不良反应。结论瑞马唑仑可减少老年鼻内镜手术患者术中S100β及IL-6的产生,并在一定程度上改善脑氧饱和度,但对POCD的发生无明显影响。

关键词：瑞马唑仑老年人认知功能障碍鼻内镜手术脑氧饱和度

Investigation of matrix effects in the MC-ICP-MS induced by Nb, W, and Cu: Isotopic case studies of iron and copper

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Chinese Journal Of Geochemistry 2013年第1期32卷 1-6页

作者： SUN jian ZHU Xiangkun TANG Suohan chen Yuelong Laboratory of Isotope Geology MLR State Key Laboratory of Continental Dynamics Institute of Geology CAGS School of Earth Sciences and Resources China University of Geosciences

Some elements normally occur at trace levels while the majority of natural geological materials may be exceedingly enriched in some special cases, such as the Bayan Obo ore deposit where REE and Nb are extremely enriched. These elements may not be removed completely during purification. Therefore, matrix effects will be caused during stable isotope ratio measurement in the MC-ICP-MS. Experiments have shown that the established methods of chromatographic separation of Cu, Fe, and Zn using AG MP-1 Anion Exchange Resin cannot make ef-fective separation of Nb, W, and Cu from Fe using 20 mL 6 M HCl. It is also observed that the elution curves of W and Cu overlap at working conditions and thus W is present in measurable amounts in some sample solutions. Matrix effects in the MC-ICP-MS induced by Nb, W, and Cu during Fe isotope ratio measurements and by W during Cu isotope ratio measurements were thus investigated by examining their changes in delta values between doped and undoped standards. The results show that the effects of the matrix elements Nb, W, or Cu on Fe isotope ratio measurements are minimal in the case of m(Nb)/m(Fe)<0.005, m(W)/m(Fe)<0.01, or m(Cu)/m(Fe)<0.6. This finding, combined with the extremely low levels of W and Cu, and the fact that nearly 90% of Nb can be removed during purification, demonstrates that the methods of chromatographic separation of Fe established before are suitable for Bayan Obo ore samples and that the methods can be simplified when Cu elution is unnecessary. The effects of the matrix element W on Cu isotope determinations are minimal in the case of m(W)/m(Cu)<0.7. Therefore, W exerts no significant effect on the measurements of Cu isotopes for the majority of natural geological materials.

关键词：同位素比值基体效应 Cu Nb 诱导阴离子交换树脂铁比率测量

Primary graft dysfunction after liver transplantation

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Hepatobiliary & Pancreatic Diseases International 2014年第2期13卷 125-137页

作者： Xiao-Bo chen ming-Qing Xu Department of Liver and Vascular Surgery West China Hospital Sichuan University

BACKGROUND: Primary graft dysfunction (PGD) causes complications in liver transplantation, which result in poor prognosis. Recipients who develop PGD usually experience a longer intensive care unit and hospital stay and have higher mortality and graft loss rates compared with those without graft dysfunction. However, because of the lack of universally accepted definition, early diagnosis of graft dysfunction is difficult. Additionally, numerous factors affect the allograft function after transplantation, making the prediction of PGD more difficult. The present review was to analyze the literature available on PGD and to propose a *** SOURCE: A search of PubMed (up to the end of 2012) for English-language articles relevant to PGD was performed to clarify the characteristics, risk factors, and possible treatments or interventions for ***: There is no pathological diagnostic standard; many documented definitions of PGD are different. Many factors such as donor status, procurement and transplant process and recipient illness may affect the function of graft, and ischemia reperfusion injury is considered the direct cause. Potentia managements which are helpful to improve graft function were investigated. Some of them are ***: Our analyses suggested that the definition of PGD should include one or more of the following variables: (1)bilirubin ≥10 mg/dL on postoperative day 7; (2) internationa normalized ratio ≥1.6 on postoperative day 7; and (3) alanine aminotransferase or aspartate aminotransferase >2000 IU/L within 7 postoperative days. Reducing risk factors may decrease the incidence of PGD. A majority of the recipients could recover from PGD; however, when the graft progresses intoprimary non-function, the patients need to be treated with retransplantation.

关键词： graft function primary graft dysfunction initial poor function primary non-function liver transplantation

基于河网水动力模型的水系连通性对水环境质量的影响分析研究

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中国农村水利水电 2024年第3期 96-104页

作者：夏文文王晨波邓宇陈黎明刘承磊汤云高江苏省环境监测中心江苏南京210019 江苏省太湖水质监测中心站江苏南京210019 南京水利科学研究院水文水资源及水利工程科学国家重点实验室江苏南京210029 南京尚清环境技术有限公司江苏南京210022 江苏省生态环境监测监控有限公司江苏南京210019

平原河网地区地势平坦流速较缓,水体抗污染能力弱,改善水系连通性对水环境质量提升至关重要。以水系连通性较差的盛泽镇跃进联圩为研究对象,通过开展引调水试验,构建圩区河网水动力模型,探索圩区水利工作调度运行规则、河网水系连通方... 详细信息

平原河网地区地势平坦流速较缓,水体抗污染能力弱,改善水系连通性对水环境质量提升至关重要。以水系连通性较差的盛泽镇跃进联圩为研究对象,通过开展引调水试验,构建圩区河网水动力模型,探索圩区水利工作调度运行规则、河网水系连通方法以及相应的水环境变化规律。研究以水龄作为水系连通性的一种时间尺度参量,建立了跃进联圩水动力-水质-水龄的河网水环境模型,模拟了5种引调水方案下,圩内水系连通性及水质改善情况,并构建了压力、状态与响应的引调水连通效果评估体系,实现了对水系连通性变化与水环境改善水平的定量分析。结果表明:从水体交换时长来看,研究区域主要河道水体交换时间在5天以内,水体连通性越好的河道,水龄越短;从水质指标变化来看,调水实验中圩内的水环境氨氮变化最为明显,对引调水响应度高,模拟结果显示水龄与氨氮浓度变化趋势基本一致,水体连通性越好,水龄越短,有利于氨氮的削减;从引调水方案来看,单一调度方式对圩内水系连通性改善能力有限,特别是在河网内水体流动性弱的区域,同时使得圩区内水体流动性差异增大,更容易造成河网内水系连通性以及水质的空间分布差异,形成局部的滞水区或死水区。因此,采用多源引水与多区域排水相配合的调度方式,可以加强水系连通性,改善水环境质量。

关键词：平原河网水系连通水龄效果评估

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Effect of the second-throat on the performance of supersonic-supersonic ejectors

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Science China(Technological Sciences) 2012年第9期55卷 2530-2537页

作者： chen jian WANG ZhenGuo WU JiPing XU WanWu Science and Technology on Scramjet Laboratory National University of Defense TechnologyChangsha 410073China

The pressure matching and recovery performances of the second-throat supersonic-supersonic ejector have been performed experimentally and numerically in the current *** pictures of flow structure in former part of the mixing chamber with varied stagnation pressure ratio of the primary and secondary flows have been taken,and the maximum compression ratios have been ***,the relevant numerical simulations have been *** obtained results show that the pressure matching performance of the second-throat supersonic-supersonic ejector is weaker than that of the constant area one,and the pressure recovery performance of the former is better than that of the *** the ejectors tested in this paper,the stagnation pressure ratios of the second-throat supersonic-supersonic ejector at the limiting condition are approximately 10% lower than those of the constant area one when the contraction angle of the mixing chamber is 4°,and the maximum compression ratio is 12%-30% *** the contraction angle of the mixing chamber is 6°,the pressure matching performance of the second-throat supersonic-supersonic ejector declines sharply,and the pressure recovery performance remains almost the *** the contraction angle of the mixing chamber is 8°,the supersonic-supersonic ejection phenomenon does not take place any longer.

关键词： ejector second-throat pressure matching pressure recovery

Parallel lightpath provisioning under wavelength continuity constraint in multi-domain optical networks based on hierarchical path computation element

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Science China(Information Sciences) 2013年第3期56卷 160-168页

作者： SUN jian WANG ZongWei chen Zhen PENG YunFeng School of Communication and Information Engineering University of Electronic Science and Technology of China School of Computer and Communication Engineering University of Science and Technology Beijing

Inter-domain path provision under a wavelength continuity constraint(WCC),including path computation and resource reservation procedures,is a major challenge in multi-domain wavelength division multiplexing(WDM) optical networks,because of the requirement for confidentiality between the *** on the hierarchical path computation element(PCE) architecture,this work proposed a path establishment scheme under a WCC to provide a fast inter-domain path establishment solution and decrease the influence of the *** hierarchical PCE architecture consists of a single parent PCE serving as the arbitrator and multiple child PCEs responsible for the child *** cooperation between the parent PCE and the child PCEs,both inter-domain path computation and inter-domain wavelength reservation can be processed in parallel to accelerate and optimize WCC lightpath provisioning and thus to reduce the blocking *** effectiveness of this solution has been evaluated through *** simulation results show that the proposed solution can achieve lower computation and reservation delays and thus lead to lower blocking probabilities on the multi-domain WCC paths.

关键词： multi-domain optical networks path computation resource reservation WCC hierarchical PCE