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Anti-tumor activities and apoptotic mechanism of ribosome-inactivating proteins

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Chinese Journal of Cancer 2015年第8期34卷 325-334页

作者： Meiqi Zeng Manyin Zheng Desheng Lu Jun Wang Wenqi Jiang Ou Sha School of Medicine Shenzhen University Health Science Center School of Medicine Shenzhen University State Key Laboratory of Oncology in South China Collaborative Innovation Center of Cancer Medicine

Ribosome-inactivating proteins(rips) belong to a family of enzymes that attack eukaryotic ribosomes and potently inhibit cellular protein synthesis.rips possess several biomedical properties,including anti-viral and anti-tumor activities.Multiple rips are known to inhibit tumor cell proliferation through inducing apoptosis in a variety of cancers,such as breast cancer,leukemia/lymphoma,and hepatoma.This review focuses on the anti-tumor activities of rips and their apoptotic effects through three closely related pathways:mitochondrial,death receptor,and endoplasmic reticulum pathways.

关键词：核糖体失活蛋白肿瘤细胞凋亡抗肿瘤活性凋亡机制蛋白质合成生物医学死亡受体 rip

An Analytical Solution for Nearshore Circulation Driven by Focused/Defocused Waves

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China Ocean Engineering 2019年第5期33卷 544-553页

作者： DING Yu-mei SHI Fengyan School of Science Tianjin University of Science and Technology Tianjin 300475 China Center for Applied Coastal Research Department of Civil and Environmental Engineering University of Delaware Newark 19716 USA

An offshore shoal or bar refracts ocean surface waves and causes wave focusing/defocusing on the adjacent beach. Wave focal patterns characterized by alongshore variations in wave height, wave angle, and breaking location induce alongshore non-uniformities of wave setup and nearshore circulation, e.g., rip currents and alongshore currents, in the surfzone. A simplified analytic model for nearshore circulation generated by focused/defocused waves on a planar beach is developed and theoretical solutions are obtained using transport stream function and perturbations in alongshore distributions of wave height and wave angle at the breaker line. The analytic model suggests that alongshore currents are strongly affected by a pair of counter-rotating vortices generated shoreward of the wave focal zone. The vortices are persistent, and their strengths depend on the amplitudes of alongshore variations in wave height and wave angle. The alongshore gradient in wave height tends to intensify the vortices while the convergence of wave angle tends to weaken the vortices. Divergent flows associated with the vortices in the surfzone are intense, strengthening alongshore currents in the downstream of the wave focal zone and weakening alongshore currents or causing flows reversal in the upstream. Alongshore currents are modulated by rip currents associated with the wave focusing/defocusing patterns.

关键词： wave focusing and defocusing nearshore circulation rip current alongshore current analytical solution

State of the art and prospects of structured sensing matrices in compressed sensing

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Frontiers of Computer Science 2015年第5期9卷 665-677页

作者： Kezhi LI Shuang CONG Automatic Complex Communication Networks Signal and Systems Center Royal Institute of Technology (KTH) Stockholm 10044 Sweden Department of Automation University of Science and Technology of China Hefei 230027 China

Compressed sensing （CS） enables people to acquire the compressed measurements directly and recover sparse or compressible signals faithfully even when the sampiing rate is much lower than the Nyquist rate. However, the pure random sensing matrices usually require huge memory for storage and high computational cost for signal reconstruction. Many structured sensing matrices have been proposed recently to simplify the sensing scheme and the hardware implementation in practice. Based on the restricted isometry property and coherence, couples of existing structured sensing matrices are reviewed in this paper, which have special structures, high recovery performance, and many advantages such as the simple construction, fast calculation and easy hardware implementation. The number of measurements and the universality of different structure matrices are compared.

关键词： compressed sensing structured sensing matrices rip coherence

A Pressure Parametric Dark Energy Model

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Communications in Theoretical Physics 2018年第12期69卷 713-720页

作者：王俊超孟新河 Department of Physics Nankai University

In this paper, we propose a new pressure parametric model of the total cosmos energy components in a spatially flat Friedmann-Robertson-Walker(FRW) universe and then reconstruct the model into quintessence and phantom scenarios, respectively. By constraining with the datasets of the type Ia supernova(SNe Ia), the baryon acoustic oscillation(BAO) and the observational Hubble parameter data(OHD), we find that ?_(m0)=0.270_(-0.034)^(+0.039) at the 1σ level and our universe slightly biases towards quintessence behavior. Then we use two diagnostics including Om(a) diagnostic and statefinder to discriminate our model from the cosmology constant cold dark matter(ΛCDM)model. From Om(a) diagnostic, we find that our model has a relatively large deviation from the ΛCDM model at high redshifts and gradually approaches the ΛCDM model at low redshifts and in the future evolution, but they can be easily differentiated from each other at the 1σ level all along. By the statefinder, we find that both of quintessence case and phantom case can be well distinguished from the ΛCDM model and will gradually deviate from each other. Finally,we discuss the fate of universe evolution(named the rip analysis) for the phantom case of our model and find that the universe will run into a little rip stage.

关键词： dark energy model quintessence phantom Om diagnostic statefinder the rip

水稻Osrip基因家族的全基因组鉴定及其表达分析

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沈阳农业大学学报 2023年第4期54卷 385-395页

作者：张琪刘爽胡艳娟王晓雪沈阳农业大学水稻研究所沈阳110161

水稻(Oryza sativa)中rip基因家族编码典型的E3泛素连接酶,在生长发育、逆境响应过程中发挥重要作用。利用水稻基因组数据,采用生物信息学方法鉴定了水稻中的rip基因家族成员,鉴定到6个rip家族基因,命名为Osrip1~6,其编码区长度在906~10... 详细信息

水稻(Oryza sativa)中rip基因家族编码典型的E3泛素连接酶,在生长发育、逆境响应过程中发挥重要作用。利用水稻基因组数据,采用生物信息学方法鉴定了水稻中的rip基因家族成员,鉴定到6个rip家族基因,命名为Osrip1~6,其编码区长度在906~1086 bp之间,分布在5条染色体上,内含子数量为2~3个。水稻中rip基因被分为3个亚家族,每个亚家族的内含子数量、基因结构、motif基本一致。蛋白结构域分析结果表明,在水稻中,rip家族的所有成员均含有SINA和RING结构域。共线性分析显示,水稻与玉米存在最多的共线对,与拟南芥不存在共线对。对启动子顺式作用元件分析发现,rip基因启动子区有多个非生物胁迫响应元件、光响应元件及激素响应元件。另外,还分析rip基因家族在不同组织器官、不同发育时期及昼夜节律的表达模式,结果表明在根、茎及花器官中表达水平较高;Osrip6在播种后83 d表达水平最高,而其他成员在播种后48~69 d的表达处于较高水平;昼夜表达的分析结果显示,在光照后10 h该基因家族成员的表达水平较高。在ABA、JA激素和干旱胁迫、盐胁迫处理下,Osrip1~5表达水平上调,Osrip6在JA、盐胁迫和甘露醇模拟干旱胁迫时表达被抑制。对水稻Osrip基因家族进行了全面的分析,为进一步揭示Osrip基因的生物学功能奠定基础。

关键词：水稻 rip 基因家族进化分析表达分析

Analysis of orthogonal multi-matching pursuit under restricted isometry property

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Science China Mathematics 2014年第10期57卷 2179-2188页

作者： DAN Wei School of Mathematics and Statistics Guangdong University of Finance & Economics

Orthogonal multi-matching pursuit(OMMP)is a natural extension of orthogonal matching pursuit(OMP)in the sense that N(N≥1)indices are selected per iteration instead of 1.In this paper,the theoretical performance of OMMP under the restricted isometry property(rip)is presented.We demonstrate that OMMP can exactly recover any K-sparse signal from fewer observations y=φx,provided that the sampling matrixφsatisfiesδKN-N+1+(K/N)^(1/2)θKN-N+1,N<1.Moreover,the performance of OMMP for support recovery from noisy observations is also discussed.It is shown that,for l_2 bounded and l_∞bounded noisy cases,OMMP can recover the true support of any K-sparse signal under conditions on the restricted isometry property of the sampling matrixφand the minimum magnitude of the nonzero components of the signal.

关键词：匹配追踪等距性正交采样矩阵 OMP rip 信号性能

Construction of Luffin A Immunotoxin and Its in vitro Inhibition Against Human Melanoma Cell M_(21)

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Chinese Science Bulletin 1994年第11期39卷 950-953页

作者：高闻达张茹平曹蕙婷季瑞华张祖传 Shanghai Institute of Biochemistry Academia Sinica Shanghai 200031 PRC

1 Introduction In recent years, significant progress has been made in applying immunotoxin (IT)in the therapy of leukemia and marrow transplantation. By 1990, several ITs havebeen put into clinical trials under the pe... 详细信息

关键词： Luffin A rip anti-human melanoma McAb immunotoxin human melanoma cell.

面向工业喷墨打印的rip软硬件协同优化方法研究

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面向工业喷墨打印的RIP软硬件协同优化方法研究

作者：樊荣江南大学

学位级别：硕士

工业喷墨打印是一种高效、灵活、成本低廉的数字印刷技术,广泛应用于陶瓷、纺织服装、广告包装等领域。其中,栅格化图像处理(Raster Image Processing,rip)是工业喷墨印刷系统中不可或缺的组成部分,它的主要功能是将适合计算机处理和显... 详细信息

工业喷墨打印是一种高效、灵活、成本低廉的数字印刷技术,广泛应用于陶瓷、纺织服装、广告包装等领域。其中,栅格化图像处理(Raster Image Processing,rip)是工业喷墨印刷系统中不可或缺的组成部分,它的主要功能是将适合计算机处理和显示的数据格式转换为适合喷墨打印的数据格式。rip的处理速度和输出质量直接影响打印速度和产品质量,因此其性能的优劣直接决定了工业喷墨印刷的生产效率和经济效益。由于喷墨打印装备的分辨率相比显示器的分辨率具有数量级的提升,所以尽管不同的rip软件所处理的对象和具体步骤存在差异,但通过插值提升分辨率的数据放大操作是rip软件均需进行的基本处理。目前业界主流的rip缩放算法存在精度、速度难以兼顾的问题,本文对此开展了三方面工作:提出了一种基于卷积神经网络的数据缩放双层模型。双层模型分为特征提取层和上采样层,提出了反卷积核大小等于放大倍数的策略用来解决上采样重叠子问题;确定特征提取层和上采用层中间通道数为16时,处理效果与计算量综合最佳。将该算法与线性插值中的三次卷积插值进行比较,本文对8种公开数据集在放大倍数为3、4、5、6倍时进行了平均PSNR的比较,结果表明双层模型比三次卷积插值结果表明双层模型比三次卷积插值分别高出0.78、0.64、0.52、0.51,处理时间与三次卷积插值相近。提出了一种基于行缓冲的双层模型FPGA加速方法。本文针对双层模型进行优化设计,原本数据缩放需要全部数据,本文设计实现了一种可使数据按照行展开的优化方法,使得数据能够按照局部数据进行计算。同时分别对卷积层、反卷积层以及整体进行优化设计,对参数量化进行测试,设计出一种双层模型加速器。在测试文件图像大小为180×320、放大倍数为6倍情况下,与未优化对比,最后卷积层加速159倍、反卷积层加速153.5倍、整体加速高达233倍,总处理时间为0.04s。分别基于PYNQ-Z1和VCU128 FPGA平台,实现了软硬件协同的双层模型加速器异构计算系统。由于良好的规模可扩展性,在资源更多的平台上可以获得更高的性能,例如,使用VCU128板卡进行数据放大处理测试速度能够满足0.2464m2/s,满足了工业喷墨打印的速度要求。

关键词： rip 放大卷积双层模型 FPGA

利用核糖体印迹测序技术探究真核生物翻译过程中的新型调控方式

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利用核糖体印迹测序技术探究真核生物翻译过程中的新型调控方式

作者：宋爽云南大学

学位级别：硕士

蛋白质翻译过程是中心法则的关键步骤之一。翻译分为起始、延伸、终止和回收四个阶段,最终合成与m RNA上开放阅读框核酸序列对应的蛋白质序列。经典的翻译调控研究通常只针对某一个或几个基因,缺乏在基因组层面上的认识。近年来开发出... 详细信息

蛋白质翻译过程是中心法则的关键步骤之一。翻译分为起始、延伸、终止和回收四个阶段,最终合成与m RNA上开放阅读框核酸序列对应的蛋白质序列。经典的翻译调控研究通常只针对某一个或几个基因,缺乏在基因组层面上的认识。近年来开发出来的核糖体印迹测序技术(ribosome profiling或Ribo-seq)能在全转录组水平上考察生物体内翻译状况。通过对核糖体保护片段进行高通量测序,能够获得核糖体在转录本上的精确位置,进而揭示翻译速率、解码状态等多维度信息。本论文利用来自酿酒酵母、秀丽线虫、小鼠和人的高分辨率Ribo-seq数据展开多维度生物信息学分析,发现了两种新颖的调控方式。一、翻译起始停滞。过去认为在起始密码子形成80S翻译复合体后会立刻进入延伸阶段从而合成多肽,因此对翻译起始阶段调控的研究主要集中在核糖体装配、核糖体检索和起始密码子的选择等方面。以秀丽线虫为模式,我们分析一组从饥饿到正常状态的Ribo-seq数据发现:在起始密码子处存在一个翻译起始检查点,称为核糖体起始停滞(ribosome initiation pausing或rip)。该检查点可调控80S核糖体是否立即进入翻译延伸阶段解码m RNA。最近的研究表明RAS致癌信号可以通过改变rip而促进恶性翻译和癌症的发生。我们这一发现则表明无论是病理条件或是正常细胞状态下,rip都是翻译的调节靶点。二、密码子重复介导的程序性核糖体移码。过去的研究中发现程序性核糖体移码现象大多发生在病毒和逆转座子中,而真核生物内源基因中鲜少报道。密码子重复指3个及以上相同密码子形成的重复,在真核生物基因组内广泛存在。本实验室前期研究利用双荧光素酶报告系统发现密码子重复本身能够介导程序性核糖体移码的发生(CRIF),但不清楚真核生物内源基因内是否会发生。本文根据出芽酵母、秀丽线虫、小鼠和人高分辨率Ribo-seq数据设计了一种算法(CRIF-Ribo Finder)来预测内源蛋白质编码基因的CRIF。结果发现:(1)CRIF能够在体内普遍发生并且具有明确的移码方向;(2)在人中一部分CRIF的发生受到micro RNA的调控;(3)CRIF产生的移码蛋白具有功能性;(4)CRIF可能在真核生物中保守存在。经双荧光素酶实验发现CRIF-Ribo Finder的CRIF位点预测准确率为75%,这些发现颠覆了对程序性核糖体移码的传统认知,扩展了对常规蛋白质编码方式和基因功能的理解。综上所述,本研究利用多物种的高分辨率Ribo-seq数据,通过算法设计首次发现了真核生物翻译起始阶段的核糖体起始停滞检查点,以及翻译延伸阶段的CRIF信号,从而大大扩展了对真核生物翻译过程中调控方式的认知,为进一步研究蛋白质翻译调控的生物学功能奠定了基础。

关键词： Ribo-seq rip CRIF 翻译调控方式