Article
Biology
Shyam Marjit, Trinav Bhattacharyya, Bitanu Chatterjee, Ram Sarkar
Summary: This paper proposes a meta-heuristic approach called SAGA, which combines simulated annealing and genetic algorithm to identify informative genes from high-dimensional datasets. SAGA outperforms other algorithms by utilizing a clustering-based population generation and a score-based filter approach.
COMPUTERS IN BIOLOGY AND MEDICINE
(2023)
Article
Computer Science, Artificial Intelligence
Kaipu Wang, Xinyu Li, Liang Gao, Peigen Li, Surendra M. Gupta
Summary: In this paper, a parallel partial disassembly line balancing model is established, and a new genetic simulated annealing algorithm is proposed to optimize the model, which can improve the disassembly efficiency and economic benefits. The proposed algorithm shows superior performance in practical applications.
APPLIED SOFT COMPUTING
(2021)
Article
Computer Science, Information Systems
Md Shahidul Islam, Md Rafiqul Islam
Summary: In this paper, the authors investigated the RNA structure prediction problem with pseudoknots. They used genetic algorithm, simulated annealing, and their combination to predict RNA secondary structure. Through comparisons on five datasets, the combination of genetic algorithm and simulated annealing demonstrated the best performance.
JOURNAL OF KING SAUD UNIVERSITY-COMPUTER AND INFORMATION SCIENCES
(2022)
Article
Mathematics
Ibrahim Attiya, Laith Abualigah, Samah Alshathri, Doaa Elsadek, Mohamed Abd Elaziz
Summary: This paper presents a novel dynamic Jellyfish Search Algorithm using a Simulated Annealing and disruption operator, called DJSD, which effectively improves the search performance and addresses the issue of local optima. Experimental results show that the proposed method achieves promising results in various benchmark functions and real-world applications.
Article
Mathematics
Khalid Abdulaziz Alnowibet, Salem Mahdi, Mahmoud El-Alem, Mohamed Abdelawwad, Ali Wagdy Mohamed
Summary: This paper presents a hybrid gradient simulated annealing algorithm for constrained optimization problems, with a new penalty function approach to handle constraints. The proposed algorithm, GHMSA, shows promising results in terms of quality, efficiency, convergence rate, and robustness, outperforming other state-of-the-art meta-heuristic algorithms.
Article
Engineering, Multidisciplinary
Cong Liu, Fangqing Zhang, Hong Zhang, Zanxi Shi, Hanqing Zhu
Summary: A large number of prefabricated components are used in housing construction. The assembly sequence of these components plays a crucial role in the construction process. This study introduces a mechanical assembly process evaluation index and combines it with a simulated annealing genetic algorithm to accurately and efficiently search for the optimal assembly sequence.
ALEXANDRIA ENGINEERING JOURNAL
(2023)
Article
Construction & Building Technology
Jiajie Li, Zhenghong Tian, Xiao Sun, Yuanshan Ma, Hengrui Liu
Summary: This paper develops a device and proposes a method to determine the working state of a vibrator based on the input current changes of the internal vibrator drive motor when inserting and pulling out concrete. The collected current is processed and filtered, and a dual-threshold method is used to determine the working state. The current difference threshold is calculated using a genetic simulated annealing optimizing fuzzy clustering method. The accuracy and universality of the proposed method and device are verified through on-site application.
CASE STUDIES IN CONSTRUCTION MATERIALS
(2022)
Article
Mathematics
Vincent F. Yu, Grace Aloina, Hadi Susanto, Mohammad Khoirul Effendi, Shih-Wei Lin
Summary: Municipal waste management is a challenging issue, especially in developing countries. This research proposes a new model to determine depot locations and vehicle routes for waste collection in each region, considering government policy requirements, and aims to fulfill the collection needs at a minimum cost. The effectiveness of the proposed method is demonstrated through numerical examples using actual data.
Article
Computer Science, Artificial Intelligence
Ming Zheng, Tong Li, Liping Sun, Taochun Wang, Biao Jie, Weiyi Yang, Mingjing Tang, Changlong Lv
Summary: Imbalanced data is a common phenomenon that standard classification algorithms struggle to effectively handle. This study proposed algorithms to automatically determine sampling ratios based on a genetic algorithm, which outperformed random sampling methods across multiple standard classification algorithms.
KNOWLEDGE-BASED SYSTEMS
(2021)
Article
Agricultural Engineering
Jianfeng Zou, Hangli Hu, Md Maksudur Rahman, Dominic Yellezuome, Fang He, Xingguang Zhang, Junmeng Cai
Summary: Biomass pyrolysis is an important method for converting biomass into fuels and chemicals for sustainability and carbon neutralization. This study proposed a hybrid optimization method to accurately determine the parameters of the distributed activation energy model and successfully reproduced experimental data.
INDUSTRIAL CROPS AND PRODUCTS
(2022)
Article
Chemistry, Multidisciplinary
Shuo Liu, Hao Wang, Yong Cai
Summary: This study addresses the multiobjective optimization problem of irregular objects in the field of aquatic product processing by developing a simulated annealing algorithm. The algorithm's mutation strategy was optimized, and its effectiveness was demonstrated through experiments.
APPLIED SCIENCES-BASEL
(2021)
Article
Computer Science, Information Systems
Ting Wang, Peng Shao, Shanhui Liu, Guangquan Li, Fuhao Yang
Summary: This paper proposes a Multi-Mechanism Particle Swarm Optimization (HGSPSO) algorithm that optimizes the position update formula and dynamically updates inertia weights to accelerate convergence and help particles jump out of local extrema. Experimental results show that this algorithm outperforms five comparison algorithms in all evaluation metrics and assessment schemes.
Article
Energy & Fuels
Bo -Han Wu, Ran-Hong Xie, Li-Zhi Xiao, Jiang-Feng Guo, Guo -Wen Jin, Jian-Wei Fu
Summary: In this research, an integrated classification method based on PCA-SAGA-FCM was proposed for the unsupervised classification of tight sandstone reservoirs. By reducing the dimension of evaluation parameters using PCA, and performing reservoir classification using SAGA-FCM, the proposed method demonstrated strong stability and high accuracy compared to the FCM algorithm. The results of the reservoir integrated classification matched well with the lithologic profile, indicating the reliability of the classification method.
Article
Computer Science, Information Systems
Zenab Elgamal, Aznul Qalid Md Sabri, Mohammad Tubishat, Dina Tbaishat, Sharif Naser Makhadmeh, Osama Ahmad Alomari
Summary: This research investigates the feature selection problem in medical datasets and proposes an improved Reptile Search Algorithm (IRSA) to solve the problem. It compares IRSA with other optimization algorithms and evaluates their performance on 20 medical datasets. The results show that IRSA outperforms other algorithms on the majority of the datasets.
Article
Engineering, Chemical
Yan Zhang, Ya-Jun Wang, Yong Zhang, Tong Yu
Summary: In this paper, a novel PV fuzzy MPPT algorithm based on an adaptive genetic simulated annealing-optimized BP neural network is proposed. The algorithm utilizes adaptive genetic algorithm and simulated annealing to optimize the BP neural network for improving the maximum power point tracking of photovoltaic cells.
Article
Chemistry, Physical
Yuhei Tachi, Sota Sato, Makoto Yoneya, Makoto Fujita, Yuko Okamoto
CHEMICAL PHYSICS LETTERS
(2019)
Article
Chemistry, Multidisciplinary
Yoshitake Sakae, John E. Straub, Yuko Okamoto
JOURNAL OF COMPUTATIONAL CHEMISTRY
(2019)
Article
Biophysics
Naohiro Nishikawa, Yoshitake Sakae, Takuya Gouda, Yuichiro Tsujimura, Yuko Okamoto
BIOPHYSICAL JOURNAL
(2019)
Article
Multidisciplinary Sciences
Yukihiro Itoh, Yusuke Nakashima, Shuichiro Tsukamoto, Takashi Kurohara, Miki Suzuki, Yoshitake Sakae, Masayuki Oda, Yuko Okamoto, Takayoshi Suzuki
SCIENTIFIC REPORTS
(2019)
Article
Multidisciplinary Sciences
Yuhei Tachi, Yuko Okamoto, Hisashi Okumura
SCIENTIFIC REPORTS
(2019)
Article
Chemistry, Multidisciplinary
Yoshitake Sakae, Bin W. Zhang, Ronald M. Levy, Nanjie Deng
JOURNAL OF COMPUTATIONAL CHEMISTRY
(2020)
Article
Chemistry, Physical
Daiki Matsubara, Yuko Okamoto
JOURNAL OF CHEMICAL PHYSICS
(2020)
Article
Biochemistry & Molecular Biology
Kohei Noda, Yuhei Tachi, Yuko Okamoto
ACS CHEMICAL NEUROSCIENCE
(2020)
Article
Biochemistry & Molecular Biology
Ana-Nicoleta Bondar, Hirokazu Mishima, Yuko Okamoto
BIOCHIMICA ET BIOPHYSICA ACTA-GENERAL SUBJECTS
(2020)
Article
Chemistry, Physical
Takuya Hayashi, Chizuru Muguruma, Yuko Okamoto
Summary: By utilizing a simulation protocol that combines the replica-exchange Wang-Landau algorithm and multicanonical replica-exchange method, the authors estimated the residual entropy of Ice Ih, which showed consistency with various previous studies. Additionally, they highlighted the significance of the uniformity of a random number generator in Monte Carlo simulations.
JOURNAL OF CHEMICAL PHYSICS
(2021)
Article
Chemistry, Physical
Hiromune Wada, Yuko Okamoto
Summary: In this study, we proposed a method to extend the fast weight determination scheme to two-dimensional space, considering both temperature and pressure. By self-updating weight parameters, a uniform random walk in the entire temperature-pressure space was achieved.
Article
Chemistry, Multidisciplinary
Yoshitake Sakae, Takeshi Kawasaki, Yuko Okamoto
Summary: This study focused on the concentration dependency of fibril-forming peptides, showing that density fluctuation, beta-structures, and oligomers of KFFE fragments increased in high concentration environments, indicating a likelihood of protein aggregation.
Article
Chemistry, Physical
Setsuko Nakagawa, Akihiro Kimura, Yuko Okamoto
Summary: The study proposes a polarizable molecular block (PMB) model for accurately evaluating intramolecular polarization in flexible and highly ionized macromolecules such as DNA. The model divides a large molecule into several molecular blocks, optimizing the atomic charges and polarizabilities of each block, and includes induced dipole-charge and dipole-dipole interactions while excluding interactions within blocks. Various damping functions are evaluated, with simple scaling showing the highest stability. The PMB model was successfully validated using trinucleotide duplexes and has the potential to develop high-quality polarizable force fields.
JOURNAL OF PHYSICAL CHEMISTRY B
(2022)
Review
Biophysics
Yuko Okamoto
BIOPHYSICS AND PHYSICOBIOLOGY
(2019)
Article
Physics, Fluids & Plasmas
Takuya Hayashi, Yuko Okamoto
Article
Chemistry, Multidisciplinary
Michal Novotny, Matus Dubecky, Frantisek Karlicky
Summary: This paper investigates the accuracy of different DFT-based computational approaches in calculating the equilibrium lattice constants and exfoliation energy of hexagonal boron nitride (h-BN). The results are compared with experiments and reference QMC calculations to evaluate the accuracy of these computational methods.
JOURNAL OF COMPUTATIONAL CHEMISTRY
(2024)
Article
Chemistry, Multidisciplinary
Luigi Crisci, Federico Coppola, Alessio Petrone, Nadia Rega
Summary: The charge transfer dynamics in asymmetrically substituted indenotetracene molecules upon photo-excitation were investigated using real-time time-dependent density functional theory simulations. The study found that the electron-donating character of the substituents affects the overall electronic energy spacing and ultrafast charge transfer dynamics.
JOURNAL OF COMPUTATIONAL CHEMISTRY
(2024)
Article
Chemistry, Multidisciplinary
Vasilii Korotenko, Hendrik Zipse
Summary: The stability of various radicals and molecules has been studied using different theoretical methods, and good correlations between theoretical calculations and experimental results have been found. The effects of hydrogen bonding interactions on the stability of oxygen-centered radicals have also been investigated.
JOURNAL OF COMPUTATIONAL CHEMISTRY
(2024)
Article
Chemistry, Multidisciplinary
Oleg Egorov, Michael Rey, Dominika Viglaska, Andrei V. Nikitin
Summary: In this work, the rovibrational energy levels of four isotopologues of methylene were calculated using a new accurate ab initio potential energy surface. The accuracy of the calculations was improved by considering scalar relativistic effects, DBOC, and high-order electronic correlations. For the first time, all available experimental rovibrational transitions were reproduced with high accuracy, without any empirical corrections.
JOURNAL OF COMPUTATIONAL CHEMISTRY
(2024)
