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Dynamics of synthetic yeast chromosome evolution shaped by hierarchical chromatin organization

National science Review 2023年第5期10卷 240-250页

作者： Sijie Zhou Yi Wu Yu Zhao Zhen Zhang Limin Jiang Lin Liu Yan Zhang Jijun Tang Ying-Jin Yuan Frontiers Science Center for Synthetic Biology (Ministry of Education) Tianjin University Key Laboratory of Systems Bioengineering(Ministry of Education) School of Chemical Engineering and TechnologyTianjin University Institute for Systems Genetics NYU Langone Health School of Computer Science and Technology College of Intelligence and ComputingTianjin University Epigenetic Group Frasergen Bioinformatics Co.Ltd. Department of Computer Science University of South Carolina

Synthetic genome evolution provides a dynamic approach for systematically and straightforwardly exploring evolutionary *** Chromosome Rearrangement and Modification by LoxP-mediated Evolution(SCRaMbLE) is an evolutionary system intrinsic to the synthetic yeast genome that can rapidly drive structural ***,we detect over 260 000 rearrangement events after the SCRaMbLEing of a yeast strain harboring 5.5 synthetic yeast chromosomes(synⅡ,synⅢ,synⅤ,circular synⅥ,synⅨR and synⅩ).Remarkably,we find that the rearrangement events exhibit a specific landscape of *** further reveal that the landscape is shaped by the combined effects of chromatin accessibili and spatial contact *** rearrangements tend to occur in 3D spatially proximal and chromatin-accessible *** enormous numbers of rearrangements mediated by SCRaMbLE provide a driving force to potentiate directed genome evolution,and the investigation of the rearrangement landscape offers mechanistic insights into the dynamics of genome evolution.

关键词： synthetic biology genome rearrangement hierarchical chromatin organization synthetic yeast genome SCRaMbLE Saccharomyces cerevisiae

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Requests Satisfaction in a Virtual Web Services System

Requests Satisfaction in a Virtual Web Services System

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2023 International Conference on Decision Aid sciences and Applications, DASA 2023

作者： Bernine, Nassima Nacer, Hassina Adel-Aissanou, Karima Aissani, Djamil University of Bejaia LaMOS Research Unit Operational Research Department Algeria University of Science and Technology 'USTHB' Movep Laboratory Computer Science Department Algiers Algeria University of Bejaia LaMOS Research Unit Computer Science Department Algeria

ISBN: (纸本)9798350342055

This paper defines analytical models for a Web services system, with two stations on tandem queue, for evaluating the request satisfaction involving two exponential servers, each having its own waiting queue. The first waiting queue is unlimited. The arrivals of requests follow a Poisson process, and after service completion, they can either leave the system or join the second line. The obtained model has not a product form;and the only way to obtain its performances is by computing its steady-state probabilities. To this end, we must use balance equations that give us unlimited equations with unlimited unknowns. In this case the only solution is the use of approximation methods. In this paper we use the truncation method to approximate the performances of our model with the performances of a truncated model. We also use the strong stability method to estimate the error of this approximation. Furthermore, we compute the system's response time, and the average number of clients in the system in terms of the arrival rate of clients requests. © 2023 IEEE.

关键词： Websites

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Analysis of Algorithm Comparison Results on Real-World Multi-Objective Problems 13

Analysis of Algorithm Comparison Results on Real-World Multi...

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13th IEEE Congress on Evolutionary Computation, CEC 2024

作者： Pang, Lie Meng Ishibuchi, Hisao Shang, Ke Southern University of Science and Technology Guangdong Provincial Key Laboratory of Brain-inspired Intelligent Computation Department of Computer Science and Engineering Shenzhen518055 China

ISBN: (纸本)9798350308365

Recently, several real-world multi-objective optimization problem suites have been proposed to facilitate the evaluation of the performance of evolutionary multi-objective optimization (EMO) algorithms. In spite of the importance of using real-world problems to evaluate EMO algorithms, their characteristics are not well understood compared to artificial test problems. Thus, there is a need to examine and understand the challenges posed by these real-world problems. In this study, we attempt to explore the characteristics of the most recently proposed real-world application suite (i.e., RWA suite). Six EMO algorithms are evaluated on the RWA suite, including three classic algorithms and three recently-proposed algorithms. Based on the performance comparison results, we systematically analyze the RWA suite in terms of convergence and diversity difficulties. © 2024 IEEE.

关键词： Optimization algorithms

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EFFICIENT SPECTRAL METHODS FOR EIGENVALUE PROBLEMS OF THE INTEGRAL FRACTIONAL LAPLACIAN ONABALLOFANYDIMENSION

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Journal of Computational Mathematics 2024年第4期42卷 1032-1062页

作者： Suna Ma Huiyuan Li Zhimin Zhang Hu Chen Lizhen Chen College of Science Nanjing University of Posts and TelecommunicationsNanjingChina State Key Laboratory of Computer Science/Laboratory of Parallel Computing Institute of SoftwareChinese Academy of SciencesBeijingChina Department of Mathematics Wayne State UniversityDetroitUSA School of Mathematical Sciences Ocean University of ChinaQingdaoChina Beijing Computational Science Research Center BeijingChina

An efficient spectral-Galerkin method for eigenvalue problems of the integral fractional Laplacian on a unit ball of any dimension is proposed in this *** symmetric positive definite linear system is retained explicitly which plays an important role in the numerical *** a sharp estimate on the algebraic system's condition number is established which behaves as N4s with respect to the polynomial degree N,where 2s is the fractional derivative *** regularity estimate of solutions to source problems of the fractional Laplacian in arbitrary dimensions is firstly investigated in weighted Sobolev *** the regularity of eigenfunctions of the fractional Laplacian eigenvalue problem is readily ***,rigorous error estimates of the eigenvalues and eigenvectors are *** experiments are presented to demonstrate the accuracy and efficiency and to validate the theoretical results.

关键词： Integral fractional Laplacian Spectral method Eigenvalue problem Regularity analysis Error estimate

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A low-fabrication-temperature, high-gain chip-scale waveguide amplifier

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science China(Information sciences) 2022年第6期65卷 247-255页

作者： Bo WANG Peiqi ZHOU Xingjun WANG Yandong HE State Key Laboratory of Advanced Optical Communication Systems and Networks Department of ElectronicsSchool of Electronics Engineering and Computer Science Peking University Institute of Microelectronics School of Electronics Engineering and Computer Science Peking University Frontier Science Center for Nano-optoelectronics Peking University Peking University Yangtze Delta Institute of Optoelectronics Peng Cheng Laboratory

The increasing prevalence of integrated on-chip optoelectronic devices has identified serious issues regarding inter-device transmission and coupling losses, highlighting an urgent need for on-chip waveguide amplifiers to compensate for these losses. Compared with other Er-based optical materials, erbium silicate is ideally suited to high-efficiency on-chip amplifiers and lasers because of its extremely high Er3+concentration(1022cm-3). Nevertheless, erbium silicate must be annealed above 1000℃ to crystallize and activate the Er3+, which damages other on-chip optoelectronic components and is not conducive to device ***, we report a low-fabrication-temperature, high-luminescence-efficiency gain material by adding Bi2O3to an erbium-ytterbium silicate mixed film. Our experiments demonstrate that the proposed film crystallizes at 600℃ while the activation of Er3+is also achieved, which is the lowest activation temperature of on-chip waveguide amplifier to our knowledge. This material forms the basis for a new chip-scale waveguide amplifier design, with a theoretical multi-energy-level model of Bi-Er-Yb in the mixed thin films used to analyze its signal enhancement properties. We achieve a peak on-chip gain of 23 dB in a 3.3-mm-long waveguide under the pump and signal powers of 300 mW and 1 μW, respectively. These results highlight the potential of the proposed material for realizing on-chip amplifiers and lasers for large-scale nanophotonic integrated circuits.

关键词： photonic circuit integration low fabrication temperature high gain rare earth material waveguide amplifier

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Non-planar dielectrics derived thermal and electrostatic field inhomogeneity for boosted weather-adaptive energy harvesting

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National science Review 2023年第9期10卷 248-257页

作者： Yi Zhou Tianpeng Ding Yin Cheng Yi Huang Wu Wang Jianmin Yang Lin Xie Ghim Wei Ho Jiaqing He Shenzhen Key Laboratory of Thermoelectric Materials and Department of Physics Southern University of Science and Technology Department of Electrical and Computer Engineering National University of Singapore School of Electronic Science and Engineering State Key Laboratory of Electronic Thin Film and Integrated Devices University of Electronic Science and Technology of China Department of Materials Science and Engineering National University of Singapore Institute of Materials Research and Engineering Agency for ScienceTechnology and Research (A*STAR) GuangdongHong Kong-Macao Joint Laboratory for Photonic-Thermal-Electrical Energy Materials and Devices Southern University of Science and Technology

Weather-adaptive energy harvesting of omnipresent waste heat and rain droplets,though promising in the field of environmental energy sustainability,is still far from practice due to its low electrical output owing to diele ctric structure irrationality and *** we present atypical upcycling of ambient heat and raindrop energy via an all-in-one non-planar energy harvester,simultaneously increasing solar pyroelectricity and droplet-based triboelectricity by two-fold,in contrast to conventional *** delivered non-planar dielectric with high transmittance confines the solar irradiance onto a focal hotspot,offering transverse thermal field propagation towards boosted inhomogeneous polarization with a generated power density of 6.1 mW m-2at 0.2 ***,the enlarged lateral surface area of curved architecture promotes droplet spreading/separation,thus travelling the electrostatic field towards increased *** enhanced pyroelectric and triboelectric outputs,upgraded with advanced manufacturing,demonstrate applicability in adaptive sustainable energy harvesting on sunny,cloudy,night,and rainy *** findings highlight a facile yet efficient strategy,not only for weather-adaptive environmental energy recovery but also in providing key insights for spatial thermal/electrostatic field manipulation in thermo electrics and ferroelectrics.

关键词： non-planar dielectrics heat manipulation pyroelectrics weather-adaptive energy harvesting

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Dual-level Mixup for Graph Few-shot Learning with Fewer Tasks 25

Dual-level Mixup for Graph Few-shot Learning with Fewer Task...

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34th ACM Web Conference, WWW 2025

作者： Liu, Yonghao Li, Mengyu Giunchiglia, Fausto Huang, Lan Li, Ximing Feng, Xiaoyue Guan, Renchu College of Computer Science and Technology Jilin University Changchun China Department of Information Engineering and Computer Science University of Trento Trento Italy Key Laboratory of Symbolic Computation and Knowledge Engineering of the Ministry of Education China

ISBN: (纸本)9798400712746

Graph neural networks have been demonstrated as a powerful paradigm for effectively learning graph-structured data on the web and mining content from it. Current leading graph models require a large number of labeled samples for training, which unavoidably leads to overfitting in few-shot scenarios. Recent research has sought to alleviate this issue by simultaneously leveraging graph learning and meta-learning paradigms. However, these graph meta-learning models assume the availability of numerous meta-training tasks to learn transferable meta-knowledge. Such assumption may not be feasible in the real world due to the difficulty of constructing tasks and the substantial costs involved. Therefore, we propose a SiMple yet effectIve approach for graph few-shot Learning with fEwer tasks, named SMILE. We introduce a dual-level mixup strategy, encompassing both within-task and across-task mixup, to simultaneously enrich the available nodes and tasks in meta-learning. Moreover, we explicitly leverage the prior information provided by the node degrees in the graph to encode expressive node representations. Theoretically, we demonstrate that SMILE can enhance the model generalization ability. Empirically, SMILE consistently outperforms other competitive models by a large margin across all evaluated datasets with in-domain and cross-domain settings. Our anonymous code can be found here. © 2025 Copyright held by the owner/author(s).

关键词： Graph neural networks

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Improving Route-Finding Performance of Dijkstra Algorithm and Maintaining Path Visual Cue Using Douglas-Peucker Algorithm 23

Improving Route-Finding Performance of Dijkstra Algorithm an...

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8th International Conference on Sustainable Information Engineering and Technology, SIET 2023

作者： Pinandito, Aryo Kharisma, Agi Putra Akbar, Muhammad Aminul Information System Department Faculty of Computer Science Universitas Brawijaya Malang Indonesia Media Game and Mobile Technology Laboratory Information System Department Faculty of Computer Science Universitas Brawijaya Malang Indonesia

ISBN: (纸本)9798400708503

Smartphones and their mobile applications have become an inseparable part of modern daily life. One of them is a public transportation app that helps people commute with public transportation. Many public transportation service providers have mobile applications as a companion for their customers to improve their quality of service. The application provides useful information and/or important features regarding their service, such as timetables or route finding for public transit. Such features run a slow algorithm to provide real-time or time-based information to the users. Dijkstra is one example of an algorithm that allows users to find the shortest path from one location to another in a public transit network. However, Dijkstra is categorized as a greedy algorithm because it looks at all possible solutions. It takes longer for Dijkstra to find the optimum solution when the number of points in a network graph is high. This study attempted to improve the overall route-finding processing time and reduce the memory footprint while keeping the visual cue of a route path reasonably consistent by utilizing Douglas-Peucker line simplification algorithm to simplify the path and reduce the number of points that Dijkstra algorithm processes. The result suggested that Douglas-Peucker simplification process took 0.5% additional memory footprint and put 5.13% additional processing time into the overall route-finding processing time. However, it reduces the overall memory footprint and processing time by 72.56% and 80.83%, respectively. The result conveyed a significant improvement in the practical implementation of Douglas-Peucker algorithm to reduce the input for the Dijkstra algorithm in finding the optimal route, thereby improving the overall route-finding performance. © 2023 ACM.

关键词： Transportation routes

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Reshaping the imprinting strategy through the thermo-responsive moiety-derived“deep eutectic solvents”effect

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Chinese Chemical Letters 2024年第1期35卷 441-445页

作者： Huihuang Xiong Yiqun Wan Yong Fan Mengjia Xu Aiping Yan Yushan Zhang Qifei Jiang Hao Wan State Key Laboratory of Food Science and Technology Nanchang UniversityNanchang 330047China School of Chemistry and Chemical Engineering Nanchang UniversityNanchang 330031China Jiangxi Province Key Laboratory of Modern Analytical Science Nanchang UniversityNanchang 330031China Department of Computer Science University of California IrvineIrvine 92697United States

As a new concept having emerged in last few years,the“deep eutectic solvents”(DESs)effect integrated into the imprinting technology inevitably exposes design limitations of stimuli-responsive molecularly imprinted polymers(MIPs),as well as inadequate analysis of the adsorption performance of ***,a simple yet defined N-isopropylacrylamide/(3-acrylamidopropyl)trimethylammonium chloride(NIPAM/APTMAC)binary DESs system was proposed to prepare intelligent MIPs with ***,magnetic and thermo-responsive MIPs based on functional monomers-derived DESs(TMDESs-MIPs1)were synthesized,revealing DESs effect-regulated affinity/kinetics for the enhanced adsorption capability,eco-friendly thermo-regulated elution for high release efficiency,and simple magnetic separation,along with superior selectivity to rhein(RH)and good regeneration ***-DESs-MIPs1 were utilized to extract RH from Cassiae semen samples coupled with high performance liquid chromatography(HPLC),yielding satisfactory recoveries(79.47%−110.82%)and low limits of detection(LOD)(16.67μg/L).Another two kinds of MIPs adopting the thermo-responsive moiety-derived DESs effect strategy further demonstrated great applicability of such intelligent MIPs for analyses of complicated samples.

关键词： Deep eutectic solvents Molecularly imprinted polymers Magnetic Thermo-responsive Thermo-regulated elution

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Marine water quality index classification and prediction using machine learning framework

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International Journal of Water 2022年第1期15卷 21-38页

作者： Karuppanan, Komathy Funded Research Laboratory Department of Computer Science and Engineering Academy of Maritime Education and Training Chennai600097 India

Quality of marine water has a direct impact on the evolution of the ocean ecosystem, which aggravates the survival of marine organisms and animals. Additionally, the ballast water, carried in ships drawn from the open sea/ocean, may lead to bio-invasion if the quality of the water is unchecked and released into another sea/ocean. The ballast water treatment methods may sometime alter the physicochemical properties, which might be harmful to receiving water region. The objective of this paper is, therefore, to propose a new method for the estimation of marine water quality from the physiochemical and biological properties of the marine water and then a suitable computational architecture supporting machine learning techniques to assist in classifying and predicting the marine water quality. The proposed framework has evaluated various classification models to select the best-fit algorithm for this application through model training and optimising. The finalised model called stacking classifier was then recommended for ballast water quality prediction with 100% accuracy, which could be deployed prior to the ballast water exchange. Copyright © 2022 Inderscience Enterprises Ltd.

关键词： Water quality

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