The effective geometry Monte Carlo algorithm: Applications to molecular communication

In this work, we address the systematic biases and random errors stemming from finite step sizes encountered in diffusion simulations. We introduce the Effective Geometry Monte Carlo (EG-MC) simulation algorithm which modifies the geometry of the receiver. We motivate our approach in a 1D toy model and then apply our findings to a spherical absorbing receiver in a 3D unbounded environment. We show that with minimal computational cost the impulse response of this receiver can be precisely simulated using EG-MC. Afterwards, we demonstrate the accuracy of our simulations and give tight constraints on the single free parameter in EG-MC. Finally, we comment on the range of applicability of our results. While we present the EG-MC algorithm for the specific case of molecular diffusion, we believe that analogous methods with effective geometry manipulations can be utilized to approach a variety of problems in other branches of physics such as condensed matter physics and cosmological large scale structure simulations.     

GaInP/GaAs/Ge三结太阳电池不同能量质子辐照损伤模拟

以GaInP/GaAs/Ge三结太阳电池为研究对象,开展了能量为0.7, 1, 3, 5, 10 MeV的质子辐照损伤模拟研究,建立了三结太阳电池结构模型和不同能量质子辐照模型,获得了不同质子辐照条件下的I-V曲线,光谱响应曲线,结合已有实验结果验证了本文模拟结果,分析了三结太阳电池短路电流、开路电压、最大功率、光谱响应随质子能量的变化规律,利用不同辐照条件下三结太阳电池最大输出功率退化结果,拟合得到了三结太阳电池最大输出功率随位移损伤剂量的退化曲线.研究结果表明,质子辐照会在三结太阳电池中引入位移损伤缺陷,使得少数载流子扩散长度退化幅度随质子能量的减小而增大,从而导致三结太阳电池相关电学参数的退化随质子能量的减小而增大.相同辐照条件下,中电池光谱响应退化幅度远大于顶电池光谱响应退化幅度,中电池抗辐照性能较差,同时中电池长波范围内光谱响应的退化幅度比短波范围更大,表明中电池相关电学参数的退化主要来源于基区损伤.     

Development of low concentrated solar photovoltaic system with lead acid battery as storage device

Energy storage system powered by renewable energies is a viable option to meet energy requirement without addition of carbon footprints to the environment. This study involves development of theoretical and computational models for a solar photovoltaic (PV) system coupled with a lead acid battery. The study commenced with selection of most appropriate lead acid battery and PV system for installation in a representative location in Riyadh, Kingdom of Saudi Arabia. Various technical and economic parameters were assessed and calculated by computational approach. The optimized lead acid battery was integrated with low concentration solar PV panels (CPV) followed by a feasibility study. Theoretical model was developed for the integrated system to calculate various parameters of the CPV and lead acid battery. Technical and economic assessment of this coupled unit was calculated using a theoretical approach. The developed model was then subjected to computational approach for verification and validation analysis of the integrated system. The detailed assessment of batteries and integrated system show the applicability of this system in Riyadh region. The research will be extended to develop energy storage systems for remote areas using lead acid batteries.     

稳定分层湍流中逆梯度输运的关联分析研究

本文采用关联分析方法研究了稳定温度分层湍流中的结构特性、输运特性，以及热量、动量逆梯度输运现象的尺度效应及其参数演化．首先采用大涡模拟方法对稳定分层湍流中的结构特性和输运特性进行了分析，将逆梯度输运发生的时间尺度作为已知条件，结合关联量分析方法在波数空间中的解析解，对逆梯度输运现象的尺度效应进行了分析研究．结果发现，稳定分层强度较大的流动中发生垂向热量及动量逆梯度输运现象，发生的结构尺度与关联分析所发现垂向热量、动量逆梯度输运的波数形成了呼应．随着分层强度增加，热量、动量的输运强度均受抑制，与逆梯度输运关联的流场结构尺度减小，同样的效应也发生在流场结构向下游演化的过程中．     

基于NICE-OHMS技术进行大气压气样直接检测的理论分析

噪声免疫腔增强光外差分子光谱技术(NICE-OHMS)是目前世界上最灵敏的激光吸收光谱技术,其在低压环境中具有极高的探测灵敏度。然而当测量样品处于大气压时,NICE-OHMS系统的探测灵敏度会大幅下降。主要原因之一是大气压下获取最大NICE-OHMS信号幅度的条件与低气压下不同。通过对大气压NICE-OHMS理论进行分析,分析了影响信号幅度的参数,并通过数值模拟来寻找最佳的实验条件。本文着重讨论影响信号的主要参数包括光学腔腔长L,调制系数β,探测相位θ。其中,由于在NICE-OHMS中使用DeVoe-Brewer技术将调制频率ν_m锁定到Fabry-Parot(FP)腔的自由光谱区(FSR)。因此FP腔的腔长决定了ν_m,同时还作用于信号幅度S■。模拟结果显示,当腔长增大时,由于ν_m随之减小,载波和边带的光谱成分相互重叠部分增大,因此线型函数的幅度逐渐减小。而吸收信号幅度随着腔长的增加而逐渐增加,色散信号幅度先增大后减小,并且在腔长等于8 cm时达到最大值。调制系数β会影响频率调制后激光载波和边带的幅度大小,并且影响信号线型。随着腔长的增加,最大信号幅度对应的β值也随之增加。在相同腔长下,色散信号的最佳β值小于吸收信号,更容易使用电光调制器实现。最后分析了参数的可实现性,分析了不同种类激光器的频率调谐能力,压电陶瓷的扫描宽度等。以乙炔气体为例,大气压下NICE-OHMS的谱线半宽达到~3 GHz,而光谱覆盖范围大于10 GHz。分布反馈式半导体激光器(DFB)与外腔二极管激光器(ECDL)的频率调谐范围可以达到30 GHz以上,但是由于激光线宽宽,得到的PDH锁定性能欠佳。回音壁模式激光器(WGM)和掺饵光纤激光器(EDFL)线宽为百Hz量级,是目前高灵敏NICE-OHMS系统中常用的光源。但是WGM目前可以实现了5 GHz的激光频率调谐范围,而EDFL的外部电压可控制的调谐范围仅为3 GHz。使用精细度为55000的腔进行模拟,调制系数β=1,腔长大于8 cm时,可使用WGM激光器实现,腔长大于25 cm时,可以使用EDFL激光器实现。而对于在设计光学腔中常用的伸缩长度为25μm的PZT,随着腔长的增加,对应的腔模频移范围逐渐减小,在腔长为典型的40 cm时,扫描范围大于12 GHz。     

Effect of additive length and chemistry on the morphology of blends of conjugated thiophenes and fullerene derivative acceptor molecules

Small molecule additives have been shown to increase the device efficiency of conjugated polymer (donor) and fullerene derivative (acceptor) based organic solar cells by modifying the morphology of the device active layer. In this paper we conduct a systematic study of how additives affect the donor‐acceptor morphology using molecular dynamics simulations of blends of thiophene‐based oligomers, mimicking poly(3‐dodecylthiophene) (P3DDT) or poly(2,2′:5′,2”‐3,3”‐didocyl‐terthiophene) (PTTT), and fullerene derivatives with additives of varying length and chemical functionalization, mimicking experimentally used additives like methyl ester additives, diiodooctane, and alkanedithiols. We find that functionalization of additives with end groups that are attracted to acceptor molecules are necessary to induce increased donor‐acceptor macrophase separation. In blends where acceptors intercalate between oligomer alkyl side chains, functionalized additives decrease acceptor intercalation. Functionalized additives with shorter alkyl segments increase acceptor macrophase separation more than additives with same chemical functionalization but longer alkyl segments. © 2015 Wiley Periodicals, Inc. J. Polym. Sci., Part B: Polym. Phys. 2015 , 53, 1046–1057     

Influence of packing on the vibrations of homogeneous bundles of C60 peapods

The non-resonant Raman spectra of homogeneous bundles of C₆₀ peapods (C₆₀ inserted in single-walled carbon nanotubes) are calculated in the framework of spectral moment method, together with a bond-polarizability model. The evolutions of the low wavenumber range of the Raman spectrum of homogeneous bundles of C₆₀ peapods as a function of the nanotube diameter and the size of bundles are discussed. The effect of the C₆₀ filling factor is investigated in detail. The results are compared to experimental Raman data measured on various samples of C₆₀ peapods.     

Computational Analysis Reveals a Critical Point Mutation in the N-Terminal Region of the Signaling Lymphocytic Activation Molecule Responsible for the Cross-Species Infection with Canine Distemper Virus

Infection of hosts by morbilliviruses is facilitated by the interaction between viral hemagglutinin (H-protein) and the signaling lymphocytic activation molecule (SLAM). Recently, the functional importance of the n-terminal region of human SLAM as a measles virus receptor was demonstrated. However, the functional roles of this region in the infection process by other morbilliviruses and host range determination remain unknown, partly because this region is highly flexible, which has hampered accurate structure determination of this region by X-ray crystallography. In this study, we analyzed the interaction between the H-protein from canine distemper virus (CDV-H) and SLAMs by a computational chemistry approach. Molecular dynamics simulations and fragment molecular orbital analysis demonstrated that the unique His28 in the N-terminal region of SLAM from Macaca is a key determinant that enables the formation of a stable interaction with CDV-H, providing a basis for CDV infection in Macaca. The computational chemistry approach presented should enable the determination of molecular interactions involving regions of proteins that are difficult to predict from crystal structures because of their high flexibility.     

Olive-Derived Triterpenes Suppress SARS COV-2 Main Protease: A Promising Scaffold for Future Therapeutics

SARS CoV-2 pandemic is still considered a global health disaster, and newly emerged variants keep growing. A number of promising vaccines have been recently developed as a protective measure; however, cost-effective treatments are also of great importance to support this critical situation. Previously, betulinic acid has shown promising antiviral activity against SARS CoV via targeting its main protease. Herein, we investigated the inhibitory potential of this compound together with three other triterpene congeners (i.e., ursolic acid, maslinic acid, and betulin) derived from olive leaves against the viral main protease (M^pro) of the currently widespread SARS CoV-2. Interestingly, betulinic, ursolic, and maslinic acids showed significant inhibitory activity (IC₅₀ = 3.22–14.55 µM), while betulin was far less active (IC₅₀ = 89.67 µM). A comprehensive in-silico analysis (i.e., ensemble docking, molecular dynamic simulation, and binding-free energy calculation) was then performed to describe the binding mode of these compounds with the enzyme catalytic active site and determine the main essential structural features required for their inhibitory activity. Results presented in this communication indicated that this class of compounds could be considered as a promising lead scaffold for developing cost-effective anti-SARS CoV-2 therapeutics.