Reading Frames

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  • 文章类型: Journal Article
    家庭医学的故事情节是一个由12部分组成的系列主题链接的迷你论文,并附有插图,探索家庭医学的许多方面,正如美国和世界其他地方的个别家庭医生和医学教育工作者所解释的那样。在\'I中:构建家族医学史,值,和观点\',作者发表了以下主题:“家庭医学故事情节注释”,\'家庭医学-通才专业\',\'家庭医学\'s成就-一杯半满评估\',\'家庭医学\'未来50年-向填补我们的眼镜\',\“家庭医学的四个持久真理\”,\'名称很重要\',“家庭医学”和“医疗生态”。\'愿读者在这些文章中找到很多值得思考的食物。
    Storylines of Family Medicine is a 12-part series of thematically linked mini-essays with accompanying illustrations that explore the many dimensions of family medicine, as interpreted by individual family physicians and medical educators in the USA and elsewhere around the world. In \'I: framing family medicine-history, values, and perspectives\', the authors address the following themes: \'Notes on Storylines of Family Medicine\', \'Family medicine-the generalist specialty\', \'Family medicine\'s achievements-a glass half full assessment\', \'Family medicine\'s next 50 years-toward filling our glasses\', \'Four enduring truths of family medicine\', \'Names matter\', \'Family medicine at its core\' and \'The ecology of medical care.\' May readers find much food for thought in these essays.
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  • 文章类型: Journal Article
    背景:反合成是药物发现中的一项关键任务,旨在找到合成给定靶分子的可行途径。许多现有方法将此任务框为图生成问题。具体来说,这些方法首先确定反应中心,并相应地破坏目标分子以产生合成子。通过将原子依次添加到合成图上或通过直接添加适当的离去基团来产生反应物。然而,这两种策略都有局限性。添加原子导致长的预测序列,这增加了生成的复杂性,虽然添加离开组只考虑训练集中的那些,这导致了糟糕的概括。
    结果:在本文中,我们提出了一种新颖的端到端图生成模型,用于逆向预测,依次识别反应中心,产生合成子,并向合成子添加基序以产生反应物。鉴于化学上有意义的基序介于原子的大小和离去基团之间,与添加原子相比,我们的模型实现了更低的预测复杂度,并且表现出比添加离去基团更好的性能。我们在基准数据集上评估了我们提出的模型,并表明它明显优于以前的最新模型。此外,在基准数据集上,我们进行了消融研究,以调查我们提出的模型的每个组成部分对整体性能的贡献.实验结果证明了我们的模型在预测反合成途径方面的有效性,并表明其作为药物发现中有价值的工具的潜力。
    方法:所有代码和数据可在https://github.com/szu-ljh2020/MARS获得。
    BACKGROUND: Retrosynthesis is a critical task in drug discovery, aimed at finding a viable pathway for synthesizing a given target molecule. Many existing approaches frame this task as a graph-generating problem. Specifically, these methods first identify the reaction center, and break a targeted molecule accordingly to generate the synthons. Reactants are generated by either adding atoms sequentially to synthon graphs or by directly adding appropriate leaving groups. However, both of these strategies have limitations. Adding atoms results in a long prediction sequence that increases the complexity of generation, while adding leaving groups only considers those in the training set, which leads to poor generalization.
    RESULTS: In this paper, we propose a novel end-to-end graph generation model for retrosynthesis prediction, which sequentially identifies the reaction center, generates the synthons, and adds motifs to the synthons to generate reactants. Given that chemically meaningful motifs fall between the size of atoms and leaving groups, our model achieves lower prediction complexity than adding atoms and demonstrates superior performance than adding leaving groups. We evaluate our proposed model on a benchmark dataset and show that it significantly outperforms previous state-of-the-art models. Furthermore, we conduct ablation studies to investigate the contribution of each component of our proposed model to the overall performance on benchmark datasets. Experiment results demonstrate the effectiveness of our model in predicting retrosynthesis pathways and suggest its potential as a valuable tool in drug discovery.
    METHODS: All code and data are available at https://github.com/szu-ljh2020/MARS.
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  • 文章类型: Journal Article
    在自动化环轧过程中,无法对动态环件进行实时参数测量,无法及时调整轧制工艺参数。考虑到环件成形的影响,搭建了视觉测量平台,提出了一种基于机器视觉的非接触实时测量方法。本文改进了亚像素级边缘提取算法,以提取圆形滚动件的边缘数据信息。根据圆形轧制件的特点,提出了一种RG-Hough变换方法来拟合检测到的边缘数据信息。结合摄像机标定确定像素与实际尺寸之间的转换关系,以获得环件的参数。环形零件的测量值(OD:462.12mm;ID:315.53mm)用于验证我们方法的有效性。我们的测量误差为±0.25mm,平均速度可高达104ms/帧。本研究可为环件的智能控制提供有力的技术支持。
    Real time parameter measurement cannot be carried out to dynamic ring parts during automation ring rolling processes so that rolling process parameters cannot be adjusted in time. Considering effects of shaping of ring rolling parts, a visual measurement platform was set up and a machine vision-based non-contact real -time measurement method was put forward. This article improves the subpixel level edge extraction algorithm to extract edge data information of circular rolling pieces. Based on the characteristics of circular rolling pieces, an RG-Hough transform method is proposed to fit the detected edge data information. The conversion relationship between pixel and actual sizes were determined in combination with the camera calibration to gain parameters of ring rolling parts. Measurements of ring parts (OD: 462.12mm; and ID: 315.53mm) were applied to verify the effectiveness of our method. Our measurement error is ±0.25mm and our average speed can be up to 104ms/frame. Our study can provide powerful technical supports for intelligent control of ring rolling pieces.
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  • 文章类型: Journal Article
    先前的研究已经广泛调查了为什么用户在网上传播错误信息,而对分享事实核查背后的动机关注较少。本文报告了一项由四个国家/地区进行的调查实验,该实验评估了确认和反驳框架对参与在线事实检查的影响。受访者随机收到语义相同的内容,确认准确的信息(\“正确的p\”)或驳斥错误信息(\“错误的不是p\”)。尽管语义对等,确认帧比反驳帧引起更高的参与度。此外,确认框架减少了自我报告的与两极分化相关的负面情绪。这些发现对于设计旨在扩大事实检查暴露并减少情感两极分化的政策干预措施至关重要。特别是在与健康相关的错误信息和有害言论等关键领域。
    Previous research has extensively investigated why users spread misinformation online, while less attention has been given to the motivations behind sharing fact-checks. This article reports a four-country survey experiment assessing the influence of confirmation and refutation frames on engagement with online fact-checks. Respondents randomly received semantically identical content, either affirming accurate information (\"It is TRUE that p\") or refuting misinformation (\"It is FALSE that not p\"). Despite semantic equivalence, confirmation frames elicit higher engagement rates than refutation frames. Additionally, confirmation frames reduce self-reported negative emotions related to polarization. These findings are crucial for designing policy interventions aiming to amplify fact-check exposure and reduce affective polarization, particularly in critical areas such as health-related misinformation and harmful speech.
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  • 文章类型: Journal Article
    针对一组n个差动驱动移动机器人,提出了一种基于移动框架的链条形成策略。考虑到编队中的两个连续机器人,机器人Ri和Ri+1。旨在使机器人Ri+1遵循延迟的轨迹,τ时间单位,领导者机器人Ri。这样,跟随机器人Ri+1在编队中成为机器人Ri+2的领导机器人,以此类推。有了这个编队政策,两个连续机器人之间的尾随距离根据Ri领导者机器人的速度而变化。移动框架位于车辆的车身上,以这样的方式确定机器人Ri相对于位于Ri+1机器人上的框架的位置。该策略依赖于以下事实:一般领导者机器人R1描述了由有界线性v1(t)和角ω1(t)速度生成的任何轨迹。对于字符串中的其余车辆,该策略考虑了通过估计领导者机器人Ri的延迟轨迹而获得的跟随机器人Ri+1的期望轨迹。在知道Ri机器人的实际和过去输入速度的情况下获得该期望的估计轨迹。为了正式证明编队策略的趋同,获得描述编队中任何一对连续车辆之间相对姿态的时间变化的方程,并提出了一种基于局部测量的反馈律,以获得机器人Ri+1对延迟轨迹的收敛性,τ时间单位,机器人Ri先前描述的轨迹。Lyapunov技术被认为是这个事实。通过数值模拟和实时实验来评估链形成解决方案的有效性,该实验显示出足够的收敛性。
    A chain formation strategy based on mobile frames for a set of n differential drive mobile robots is presented. Considering two consecutive robots in the formation, robots Ri and Ri+1. It is intended that robot Ri+1 follows the delayed trajectory, τ units of time, of the leader robot Ri. In this way, the follower robot Ri+1 becomes the leader robot for robot Ri+ 2 in the formation and so on. With this formation policy, the trailing distance between two consecutive robots varies accordingly to the velocity of the Ri leader robot. Mobile frames are located on the body of the vehicles, in such a way that the position of robot Ri is determined with respect to the frame located on Ri+1 robot. The strategy relies on the fact that the general leader robot R1 describes any trajectory generated by bounded linear v1(t) and angular ω1(t) velocities. For the remaining vehicles in the string, the strategy considers a desired trajectory for the follower robot Ri+1 obtained by an estimation of the delayed trajectory of the leader robot Ri. This desired estimated trajectory is obtained under the knowledge of the actual and past input velocities of the Ri robot. To formally prove the convergence of the formation strategy, the equations describing the time variation of the relative posture between any pair of consecutive vehicles in the formation are obtained, and a feedback law based on local measurements is proposed to get the convergence of robot Ri+1 to the delayed trajectory, τ units of time, of the trajectory previously described by robot Ri. Lyapunov techniques are considered for this fact. The effectiveness of the chain formation solution is evaluated by means of numerical simulations and real time experiments showing an adequate convergence.
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  • 文章类型: Journal Article
    在经历结构变形时,DNA经历其内部碱基对之间相互作用的变化,对传统的弹性方法提出了挑战。为了解决这个问题,本文提出了离散临界状态(DCS)模型。该模型将表面离散框架理论与规范理论和Landau相变理论相结合,以研究DNA的结构变形。相变,和手性。值得注意的是,DCS模型考虑了DNA内部的相互作用,并使用统一的物理和几何参数制定了一个整体方程。通过采用离散框架,我们推导出沿着DNA螺旋轴的物理量的进化,包括测地曲率,测地扭转,和其他人。我们的发现表明,与Z-DNA相比,B-DNA具有明显更低的自由能密度。这与实验观察一致。这项研究表明,碱基对的方向主要由螺旋平面内的测地曲线决定,与碱基对的方向紧密对齐。此外,测地曲线在微观水平上对碱基对的排列有深远的影响,并通过宏观水平的自由能考虑有效地调节DNA的构型和几何形状。
    While undergoing structural deformation, DNA experiences changes in the interactions between its internal base pairs, presenting challenges to conventional elastic methods. To address this, we propose the Discrete Critical State (DCS) model in this paper. This model combines surface discrete frame theory with gauge theory and Landau phase transition theory to investigate DNA\'s structural deformation, phase transitions, and chirality. Notably, the DCS model considers both the internal interactions within DNA and formulates an overall equation using unified physical and geometric parameters. By employing the discrete frame, we derive the evolution of physical quantities along the helical axis of DNA, including geodesic curvature, geodesic torsion, and others. Our findings indicate that B-DNA has a significantly lower free energy density compared to Z-DNA, which is in agreement with experimental observations. This research reveals that the direction of base pairs is primarily governed by the geodesic curve within the helical plane, aligning closely with the orientation of the base pairs. Moreover, the geodesic curve has a profound influence on the arrangement of base pairs at the microscopic level and effectively regulates the configuration and geometry of DNA through macroscopic-level free energy considerations.
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  • 文章类型: Journal Article
    上游开放阅读框(uORF)是真核mRNAs的常见特征。上游ORF以各种方式管理主要的ORF翻译,但是,简而言之,它们要么过滤掉扫描核糖体,要么通过泄漏扫描或重新开始允许下游翻译开始。先前的报道同意eIF4G2,一种长期已知但研究不足的eIF4G1同源物,可以拯救下游的翻译,但不同意eIF4G2促进的是泄漏扫描还是重新启动。这里,我们研究了一种独特的人类mRNA,该mRNA编码两种高度保守的蛋白质(具有未知功能的POLGARF和POLG,线粒体DNA聚合酶的催化亚基)在调节性uORF下游的重叠阅读框中。我们表明,uORF使POLGARF和POLGmRNA的翻译都依赖于eIF4G2。机械上,eIF4G2增强了泄漏扫描和重新启动,似乎核糖体可以在重新启动的早期步骤中获得eIF4G2。这强调了eIF4G2作为多功能扫描监护人的作用,它取代eIF4G1以促进核糖体运动,但不促进核糖体与mRNA的连接。
    Upstream open reading frames (uORFs) are a frequent feature of eukaryotic mRNAs. Upstream ORFs govern main ORF translation in a variety of ways, but, in a nutshell, they either filter out scanning ribosomes or allow downstream translation initiation via leaky scanning or reinitiation. Previous reports concurred that eIF4G2, a long-known but insufficiently studied eIF4G1 homologue, can rescue the downstream translation, but disagreed on whether it is leaky scanning or reinitiation that eIF4G2 promotes. Here, we investigated a unique human mRNA that encodes two highly conserved proteins (POLGARF with unknown function and POLG, the catalytic subunit of the mitochondrial DNA polymerase) in overlapping reading frames downstream of a regulatory uORF. We show that the uORF renders the translation of both POLGARF and POLG mRNAs reliant on eIF4G2. Mechanistically, eIF4G2 enhances both leaky scanning and reinitiation, and it appears that ribosomes can acquire eIF4G2 during the early steps of reinitiation. This emphasizes the role of eIF4G2 as a multifunctional scanning guardian that replaces eIF4G1 to facilitate ribosome movement but not ribosome attachment to an mRNA.
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  • 文章类型: Journal Article
    我用一个受创伤的青少年的临床例子来谈论移情经历如何创造分析工作发生的框架。在与对象的关系的外部边界之外,内部框架,转变过程的子宫,已创建。分析师的等待能力对于创造和塑造移情体验的转变至关重要,which,喜欢玩,成为发生时发生的框架的矩阵。当创伤经历在移情中找到自己的位置并开始整合时,青少年在会议中变得更加真实和真实。
    I use the clinical example of a traumatized adolescent to talk about how a transference experience creates the frame where the analytic work occurs. Out of the external boundaries of the relationships with an object, the internal frame, the womb of transformation processes, is created. The analyst\'s capacity to wait is essential for the transformation that creates and shapes the transference experience, which, like playing, becomes the matrix of the frame where it happens as it happens. As the traumatic experiences find their place in the transference and begin to be integrated, the adolescent becomes more present and real in the session.
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  • 文章类型: Journal Article
    谷歌提出了一种新的TCP拥塞控制算法(CCA),瓶颈带宽和往返传播时间(BBR)为拥塞控制开辟了新的领域。BBR尝试在Kleinrock的操作点附近操作,以避免在瓶颈处形成过多的队列,并最佳地使用链路带宽。BBR通过测量瓶颈带宽和最小往返时间(RTT)来创建网络路径的模型,以最大化传输速率并最小化延迟。BBRv2是BBR的更新版本,它解决了原始BBR(BBRv1)的许多缺点,例如协议间公平性,RTT公平性,和过度的重新传输。然而,BBRv2在其在IEEE802.Ilac(Wi-Fi5)网络中的操作中具有某些限制。默认BBRv2限制了Wi-Fi5的吞吐量,并且观察到延迟增加。这是因为Wi-Fi5帧聚合逻辑未被充分利用并且较少的帧被发送到Wi-Fi5接口。在本文中,我们提出了BBR-n(BBR新),它比Wi-Fi5网络中的通用BBRv2提供更好的吞吐量。使用Flent在物理测试床上进行实时实验,以确认BBR-n与通用BBRv2相比实现了两倍的吞吐量,并且与纯基于损耗的变体(例如Cubic和Reno)相比,网络中的延迟减少了。
    Google proposed a new TCP congestion control algorithm (CCA), Bottleneck Bandwidth and Round-trip propagation time (BBR) which has opened up new dimensions in congestion control. BBR tries to operate near Kleinrock\'s operating point to avoid excessive queue formation at the bottleneck and to use the link bandwidth optimally. BBR creates a model of the network path by measuring the bottleneck bandwidth and minimum round-trip time (RTT) to maximize the delivery rate and minimize latency. BBR v2 is an updated version of BBR which addresses many shortcomings of the original BBR (BBR v1) such as interprotocol fairness, RTT fairness, and excessive retransmissions. However, BBR v2 has certain limitations in its operation in IEEE 802.11ac (Wi-Fi 5) networks. The default BBR v2 limits the throughput of Wi-Fi 5 and an increased latency has been observed. This is because the Wi-Fi 5 frame aggregation logic is underutilized and fewer frames are being sent to the Wi-Fi 5 interface. In this paper, we have proposed BBR-n (BBR new) which provides better throughput than the generic BBR v2 in the Wi-Fi 5 networks. Real-time experiments were performed over a physical testbed using Flent to confirm that BBR-n achieves over double throughput as compared to generic BBR v2 and reduced latency in networks as compared to pure loss-based variants such as Cubic and Reno.
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  • 文章类型: Journal Article
    蛋白质合成的最关键步骤之一是信使RNA(mRNA)和转移RNA(tRNA)的偶联易位,这是将mRNA阅读框提前一个密码子所需的。在真核生物中,易位加速,其保真度由伸长因子2(eEF2)1,2保持。目前,仅报道了一些真核核糖体易位的快照3-5。在这里,我们报告了与mRNA组成的完整易位模块结合的延伸真核核糖体的十种高分辨率低温电子显微镜(cryo-EM)结构,肽基tRNA和脱酰基tRNA,其中七个还含有核糖体结合,自然修饰的eEF2。这项研究概述了mRNA-tRNA2生长的肽模块通过核糖体的进展,从eEF2转位酶适应的最早状态到该过程的最后阶段,并显示了一个复杂的相互作用网络,防止了平移阅读框架的滑动。我们证明了真核易位的准确性如何依赖于80S核糖体的真核生物特异性元件,eEF2和tRNA。我们的发现揭示了抗真菌eEF2结合抑制剂翻译阻滞的机制,sordarin.我们还建议由二苯甲酰胺施加的空间约束环境,eEF2中保守的真核翻译后修饰,不仅可以稳定正确的Watson-Crick密码子-反密码子相互作用,还可以揭示错误的肽基-tRNA,因此有助于提高真核生物蛋白质合成的准确性。
    One of the most critical steps of protein synthesis is coupled translocation of messenger RNA (mRNA) and transfer RNAs (tRNAs) required to advance the mRNA reading frame by one codon. In eukaryotes, translocation is accelerated and its fidelity is maintained by elongation factor 2 (eEF2)1,2. At present, only a few snapshots of eukaryotic ribosome translocation have been reported3-5. Here we report ten high-resolution cryogenic-electron microscopy (cryo-EM) structures of the elongating eukaryotic ribosome bound to the full translocation module consisting of mRNA, peptidyl-tRNA and deacylated tRNA, seven of which also contained ribosome-bound, naturally modified eEF2. This study recapitulates mRNA-tRNA2-growing peptide module progression through the ribosome, from the earliest states of eEF2 translocase accommodation until the very late stages of the process, and shows an intricate network of interactions preventing the slippage of the translational reading frame. We demonstrate how the accuracy of eukaryotic translocation relies on eukaryote-specific elements of the 80S ribosome, eEF2 and tRNAs. Our findings shed light on the mechanism of translation arrest by the anti-fungal eEF2-binding inhibitor, sordarin. We also propose that the sterically constrained environment imposed by diphthamide, a conserved eukaryotic posttranslational modification in eEF2, not only stabilizes correct Watson-Crick codon-anticodon interactions but may also uncover erroneous peptidyl-tRNA, and therefore contribute to higher accuracy of protein synthesis in eukaryotes.
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