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BSAlign:A Library for Nucleotide Sequence Alignment

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Genomics, Proteomics & Bioinformatics 2024年第2期22卷 135-142页

作者： Haojing shao Jue Ruan Shenzhen Branch Guangdong Laboratory of Lingnan Modern AgricultureGenome Analysis Laboratory of the Ministry of Agriculture and Rural AffairsAgricultural Genomics Institute at ShenzhenChinese Academy of Agricultural SciencesShenzhen 518120China

Increasing the accuracy of the nucleotide sequence alignment is an essential issue in genomics *** classic dynamic programming(DP)algorithms(e.g.,Smith–Waterman and Needleman–Wunsch)guarantee to produce the optimal result,their time complexity hinders the application of large-scale sequence *** optimization efforts that aim to accelerate the alignment process generally come from three perspectives:redesigning data structures[e.g.,diagonal or striped Single Instruction Multiple Data(SIMD)implementations],increasing the number of parallelisms in SIMD operations(e.g.,difference recurrence relation),or reducing search space(e.g.,banded DP).However,no methods combine all these three aspects to build an ultra-fast *** this study,we developed a Banded Striped Aligner(BSAlign)library that delivers accurate alignment results at an ultra-fast speed by knitting a series of novel methods together to take advantage of all of the aforementioned three perspectives with highlights such as active F-loop in striped vectorization and striped move in banded *** applied our new acceleration design on both regular and edit distance pairwise *** achieved 2-fold speed-up than other SIMD-based implementations for regular pairwise alignment,and 1.5-fold to 4-fold speed-up in edit distance-based implementations for long *** is implemented in C programing language and is available at https://***/ruanjue/bsalign.

关键词： Pairwise alignment Edit distance Striped vectorization Banded dynamic programming F evaluation

Thermodynamic nature of black holes in coexistence region

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Science China(Physics,Mechanics & Astronomy) 2024年第5期67卷 27-32页

作者： shao-Wen Wei Yu-Xiao Liu Lanzhou Center for Theoretical Physics Key Laboratory of Theoretical Physics of Gansu Provinceand Key Laboratory of Quantum Theory and Applications of Mo ELanzhou UniversityLanzhou 730000China Institute of Theoretical Physics&Research Center of Gravitation Lanzhou UniversityLanzhou 730000China

Studying the system state of coexistence regions will peek into to reveal microscopic interactions between different phases of a thermodynamic ***,there is no effective method to study thermodynamic nature of the coexistence black hole regions for the failure of the equation of *** at these coexistence states,in this work,we develop a general approach by introducing two new ratio *** first one is the ratio of the horizon radii of the saturated coexistence small and large black holes,and the second one measures that of the small black hole molecule number to the total molecule *** demonstrate that the first parameter can serve as an order parameter to characterize the first-order phase *** study also shows that the black hole state in the coexistence region is uniquely determined by these two introduced parameters bounded between 0 and *** results are quite significant in the analytical study of phase transition and the microscopic nature of black hole in the coexistence regions.

关键词： transition. state. thermodynamic

Multicolored Bipartite Ramsey Numbers of Large Cycles

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Acta Mathematicae Applicatae Sinica 2024年第2期40卷 347-357页

作者： shao-qiang LIU Yue-jian PENG College of Mathematics and Statistics Hanshan Normal UniversityChaozhou 521041China School of Mathematics Hunan UniversityChangsha 410082China

For an integer r≥2 and bipartite graphs Hi,where 1≤i≤r,the bipartite Ramsey number br(H1,H2,…,Hr)is the minimum integer N such that any r-edge coloring of the complete bipartite graph KN;N contains a monochromatic subgraph isomorphic to Hi in color i for some 1≤i≤*** show that if r≥3;α1,α2>0,αj+2≥[(j+2)!-1]Σi=1^(j+1)α1 for j=1,2…r-2,then br(C2[α1n],C2[α2n],…,C2[αrn]=(Σ=j=1^(r)a j+o(1))n.

关键词： ramsey number bipartite ramsey number regularity lemma

Distributional and behavioral responses of the wintering Oriental Storks to drought in China’s largest freshwater lake

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Avian Research 2024年第2期15卷 187-195页

作者： Fucheng Yang Mingqin shao Jianying Wang College of Life Science Jiangxi Normal UniversityNanchang330022China

Extreme droughts are increasing in frequency and severity globally as a result of climate *** understanding of species’responses to drought is crucial for their conservation,especially in regions experi-encing increased *** numerous studies have investigated birds’responses to drought,the emphasis has primarily been on *** can significantly alter the wetland environments that waterbirds inhabit,but the response of waterbirds to drought remains *** this study,we surveyed the distri-bution and behavior of Oriental Storks(Ciconia boyciana)in Poyang Lake,which is the largest freshwater lake in *** indicate that drought-induced catchment areas at the lowest water level limited the total popu-lation size of Oriental Storks in the ***-lakes with large catchment areas at the lowest water level demonstrated a capacity to support a larger population of wintering Oriental *** time,Oriental Storks exhibited a gradual concentration in Changhu Lake,characterized by larger catchments,after resource depletion in sub-lakes with smaller ***,the duration of Oriental Storks’vigilance and moving be-haviors decreased significantly compared with that observed before the *** the drought,Oriental Storks increased their foraging efforts,as evidenced by increased presence in deeper water and reaching their heads and necks into deeper water to forage,higher search rates,but lower foraging *** accordance with area-restricted search theory,reductions in habitat quality resulting from drought,including extensive fish die-offs,forced Oriental Storks to increase their foraging *** a specific water area in sub-lakes during droughts can preserve resource availability,which is crucial for the conservation of Oriental ***-menting measures such as water level control and micro-modification of lake bottoms in sub-lakes might mitigate the impact of drought on the pisc

关键词： Climate change Extreme drought Foraging behavior Oriental stork Poyang lake

Effect of the interval between two shocks on ejecta formation from the grooved aluminum surface

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Defence Technology（防务技术） 2024年第3期33卷 147-159页

作者： Mingyang Xu Jianli shao Weidong Song Enling Tang School of Equipment Engineering Shenyang Ligong UniversityShenyang 110159China State Key Laboratory of Explosion Science and Technology Beijing Institute of TechnologyBeijing 100081China

This work focuses on the effect of the interval between two shocks on the ejecta formation from the grooved aluminum(Al_(1100))surface by using smoothed particle hydrodynamics numerical *** unsupported shocks are obtained by the plate-impact between sample and two flyers at interval,with a peak pressure of approximately 30 GPa for each *** the shock interval varies from 2.11 to 7.67 times the groove depth,the bubble velocity reduces to a constant,and the micro jetting factor R_(J) from spike to bubble exhibits a non-monotonic change that decreases initially and then *** a shock interval of 3.6 times the groove depth,micro jetting factor R_(J) from spike to bubble reaches its minimum value of approximately ***,the micro jetting factor R_(F) from spike to free surface decreases linearly at first,and stabilizes around 0.25 once the shock interval surpasses 4.18 times the groove *** the shock interval is less than 4.18 times the groove depth,the unloading wave generated by the breakout of the first shock wave is superimpose with the unloading part of the second shock wave to form a large tensile area.

关键词： Ejecta Microjet Two shocks Interval Smoothed particle hydrodynamics

Elliptical encirclement control capable of reinforcing performances for UAVs around a dynamic target

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Defence Technology（防务技术） 2024年第2期32卷 104-119页

作者： Fei Zhang Xingling shao Yi Xia Wendong Zhang National Key Laboratory for Electronic Measurement Technology School of Instrument and ElectronicsNorth University of ChinaTaiyuan030051China

Most researches associated with target encircling control are focused on moving along a circular orbit under an ideal environment free from external ***,elliptical encirclement with a time-varying observation radius,may permit a more flexible and high-efficacy enclosing solution,whilst the non-orthogonal property between axial and tangential speed components,non-ignorable environmental perturbations,and strict assignment requirements empower elliptical encircling control to be more challenging,and the relevant investigations are still *** this line,an appointed-time elliptical encircling control rule capable of reinforcing circumnavigation performances is developed to enable Unmanned Aerial Vehicles(UAVs)to move along a specified elliptical path within a predetermined reaching *** remarkable merits of the designed strategy are that the relative distance controlling error can be guaranteed to evolve within specified regions with a designer-specified convergence ***,wind perturbations can be online counteracted based on an unknown system dynamics estimator(USDE)with only one regulating parameter and high computational *** tool demonstrates that all involved error variables are ultimately limited,and simulations are implemented to confirm the usability of the suggested control algorithm.

关键词： Elliptical encirclement Reinforced performances Wind perturbations UAVs

Supercritical CO_(2) Cycles for Nuclear-Powered Marine Propulsion:Preliminary Conceptual Design and Off-Design Performance Assessment

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Journal of Thermal Science 2024年第1期33卷 328-347页

作者： LI Zhaozhi SHI Mingzhu shao Yingjuan ZHONG Wenqi Key Laboratory of Energy Thermal Conversion and Control of Ministry of Education School of Energy and EnvironmentSoutheast UniversityNanjing 210096China

Using the efficient,space-saving,and flexible supercritical carbon dioxide(sCO_(2)) Brayton cycle is a promising approach for improving the performance of nuclear-powered *** purpose of this paper is to design and compare sCO_(2) cycle power systems suitable for nuclear-powered *** the characteristics of nuclear-powered ships,this paper uses different indicators to comprehensively evaluate the efficiency,cost,volume,and partial load performance of several nuclear-powered sCO_(2) *** load-following strategies are also designed and *** results show that the partial cooling cycle is most suitable for nuclear-powered ships because it offers both high thermal efficiency and low volume and cost,and can maintain relatively high thermal efficiency at partial ***,the new load-following strategy that adjusts the turbine speed can keep the compressor away from the surge line,making the cycle more flexible and efficient compared to traditional inventory and turbine bypass strategies.

关键词： supercritical CO_(2)cycle nuclear marine propulsion off-design performance

Distributed Multicircular Circumnavigation Control for UAVs with Desired Angular Spacing

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Defence Technology（防务技术） 2024年第1期31卷 429-446页

作者： Shixiong Li Xingling shao Wendong Zhang Qingzhen Zhang National Key Laboratory for Electronic Measurement Technology School of Instrument and ElectronicsNorth University of ChinaTaiyuan 030051China School of Automation Science and Electrical Engineering Beihang UniversityBeijing 100086China

This paper addresses a multicircular circumnavigation control for UAVs with desired angular spacing around a nonstationary *** defining a coordinated error relative to neighboring angular spacing,under the premise that target information is perfectly accessible by all nodes,a centralized circular enclosing control strategy is derived for multiple UAVs connected by an undirected graph to allow for formation behaviors concerning the moving ***,to avoid the requirement of target’s states being accessible for each UAV,fixed-time distributed observers are introduced to acquire the state estimates in a fixed-time sense,and the upper boundary of settling time can be determined offline irrespective of initial properties,greatly releasing the burdensome communication ***,with the aid of fixed-time distributed observers,a distributed circular circumnavigation controller is derived to force all UAVs to collaboratively evolve along the preset circles while keeping a desired angular *** is inferred from Lyapunov stability that all errors are demonstrated to be *** are offered to verify the utility of proposed protocol.

关键词： Angular spacing Distributed observer Multicircular circumnavigation Moving target UAVs

Neural network modeling and prediction of HfO2 thin film properties tuned by thermal annealing

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High Power Laser Science and Engineering 2024年第2期12卷 79-86页

作者： Min Gao Chaoyi Yin Jianda shao Meiping Zhu School of Microelectronics Shanghai UniversityShanghaiChina Laboratory of Thin Film Optics Key Laboratory of Materials for High Power LaserShanghai Institute of Optics and Fine MechanicsChinese Academy of SciencesShanghaiChina Center of Materials Science and Optoelectronics Engineering University of Chinese Academy of SciencesBeijingChina Hangzhou Institute for Advanced Study University of Chinese Academy of SciencesHangzhouChina

Plasma-enhanced atomic layer deposition (PEALD) is gaining interest in thin films for laser applications, and post-annealing treatments are often used to improve thin film properties. However, research to improve thin film properties is often based on an expensive and time-consuming trial-and-error process. In this study, PEALD-HfO2 thin film samples were deposited and treated under different annealing atmospheres and temperatures. The samples were characterized in terms of their refractive indices, layer thicknesses and O/Hf ratios. The collected data were split into training and validation sets and fed to multiple back-propagation neural networks with different hidden layers to determine the best way to construct the process–performance relationship. The results showed that the three-hidden-layer back-propagation neural network (THL-BPNN) achieved stable and accurate fitting. For the refractive index, layer thickness and O/Hf ratio, the THL-BPNN model achieved accuracy values of 0.99, 0.94 and 0.94, respectively, on the training set and 0.99, 0.91 and 0.90, respectively, on the validation set. The THL-BPNN model was further used to predict the laser-induced damage threshold of PEALD-HfO2 thin films and the properties of the PEALD-SiO2 thin films, both showing high accuracy. This study not only provides quantitative guidance for the improvement of thin film properties but also proposes a general model that can be applied to predict the properties of different types of laser thin films, saving experimental costs for process optimization.

关键词： laser-induced damage threshold laser thin film neural network plasma-enhanced atomic layer deposition