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16th International Conference on Bioinformatics and Biomedical Technology, ICBBT 2024

作者： Kohli, Nikita Tomal, Jabed H. Lin, Wenjun Yan, Yan Program of Data Science Thompson Rivers University KamloopsBC Canada Department of Mathematics and Statistics Thompson Rivers University KamloopsBC Canada School of Computer Science and Technology Algoma University BramptonON Canada School of Computer Science University of Guelph GuelphON Canada

ISBN: (纸本)9798400717666

In the rapidly advancing field of genomics, the identification of Single Nucleotide Polymorphisms (SNPs) plays a crucial role in understanding complex phenotypic *** study introduces "PentaPen", an innovative computational workflow which combines the strengths of five penalized models to achieve improved accuracy in SNP *** compare the performance of PentaPen with existing models, highlighting its advantages in solving problems arising from when the number of predictors exceeds the number of *** model comparison, we provide insights into PentaPen's effectiveness in utilizing all SNPs as input, streamlines data pre-processing, and leverages parallel computation, enabling the workflow a considerable stride in SNP ***, a thorough evaluation and comparison of computational complexities signifies competitive edge of the workflow over individual penalized *** future research directions, we propose applications of PentaPen to plant-specific characteristics and suggest further explorations to assess the robustness of its *** summary, this manuscript presents the genomics community with a tool that combines computational efficiency with high-precision SNP detection, making a strong contribution to the field of genomic research. © 2024 Copyright held by the owner/author(s).

关键词： Genome

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The most tenuous group query

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Frontiers of computer science 2023年第2期17卷 197-208页

作者： Na LI Huaijie ZHU Wenhao LU Ningning CUI Wei LIU Jian YIN Jianliang XU Wang-Chien LEE School of Computer Science and Engineering Sun Yat-Sen UniversityGuangzhou 510006China Laboratory of Big Data Analysis and Processing Guangzhou 510006China School of Artificial Intelligence Sun Yat-Sen UniversityGuangzhou 510006China Department of Computer Science Anhui UniversityHefei 230601China Department of Computer Science Hong Kong Baptist UniversityHong Kong 999077China Department of Computer Science The Pennsylvania State UniversityState College 19019USA

Rtecently a lot of works have been investigating to find the tenuous groups,i.e.,groups with few social interactions and weak relationships among members,for reviewer selection and psycho-educational group ***,the metrics(e.g.,k-triangle,k-line,and k-tenuity)used to measure the tenuity,require a suitable k value to be specified which is difficult for users without background ***,in this paper we formulate the most tenuous group(MTG)query in terms of the group distance and average group distance of a group measuring the tenuity to eliminate the influence of parameter k on the tenuity of the *** address the MTG problem,we first propose an exact algorithm,namely MTGVDIS,which takes priority to selecting those vertices whose vertex distance is large,to generate the result group,and also utilizes effective filtering and pruning *** MTGVDIS is not fast enough,we design an efficient exact algorithm,called MTG-VDGE,which exploits the degree metric to sort the vertexes and proposes a new combination order,namely degree and reverse based branch and bound(DRBB).MTG-VDGE gives priority to those vertices with small *** a large p,we further develop an approximation algorithm,namely MTG-VDLT,which discards candidate attendees with high degree to reduce the number of vertices to be *** experimental results on real datasets manifest that the proposed algorithms outperform existing approaches on both efficiency and group tenuity.

关键词： tenuous group pruning strategy social network group query

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A Hybrid CNN-SVM Approach for Malaria in Blood Cell Detection 2

A Hybrid CNN-SVM Approach for Malaria in Blood Cell Detectio...

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2nd International Conference on Software Engineering and Information Technology, ICoSEIT 2024

作者： Karnyoto, Andrea Stevens Isnan, Mahmud Pardamean, Bens Bina Nusantara University Bioinformatics and Data Science Research Center Jakarta Indonesia Bina Nusantara University Binus Graduate Program - Master of Computer Science Computer Science Department Jakarta Indonesia

ISBN: (纸本)9798350317503

There is still a severe malaria problem worldwide, particularly in regions with limited access to diagnostic tools. It is crucial to develop a system for detecting malaria in blood cells. This paper presents a hybrid Convolutional Neural Network (CNN), and as a classifier, we use a Support Vector Machine (SVM) framework for the automated detection of malaria parasites in blood cell images. The proposed system leverages the strengths of CNNs in feature extraction and representation learning from images, combined with the discriminative power of SVMs for classification. Initially, CNN extracts intricate features from blood cell images, capturing essential patterns indicative of malaria infection. Subsequently, the extracted features are used to train an SVM classifier, enabling accurate discrimination between parasitized and uninfected blood cells. Experimental dataset evaluations were obtained from the Lister Hill National Center for Biomedical Communications website of the National Library of Medicine. The proposed model achieves a better f1-score, outperforming individual CNN or SVM models, around 0.015 compared to individual CNN models and 0.27 compared to individual SVM models. This hybrid CNN-SVM methodology offers a promising solution for accurately and efficiently detecting malaria parasites in blood cell images. © 2024 IEEE.

关键词： Support vector machines

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Implementation of Random Forest Model with Hyperparameter Tuning for Diabetes Mellitus Classification 7

Implementation of Random Forest Model with Hyperparameter Tu...

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7th International Conference of computer and Informatics Engineering, IC2IE 2024

作者： Wulandari, Ajeng Anggreainy, Maria Susan School of Computer Science Bina Nusantara University Computer Science Department Jakarta11530 Indonesia BINUS Graduiate Program Computer Science Bina Nusantara University Computer Science Department Jakarta11530 Indonesia

ISBN: (纸本)9798331505530

This research aims to classify Diabetes Mellitus (DM) using the Random Forest (RF) model by exploring feature selection techniques and hyperparameter tuning. DM is a metabolic disorder in the body due to bodily incompetence produces or delivers the finished hormone insulin causes blood sugar levels to rise above normal. High sugar levels in the bloodstream can cause heart disease, stroke, kidney disease, blindness, nerve damage in the feet, etc. So, diabetes must be detected as early as possible so that sufferers can receive early treatment. One of the machine learning models that can be used to create a diabetes detection model is the random forest (RF) model. The results from RF will be compared with other machine learning models such as K-Nearest Neighbors (KNN), and Extreme Gradient Boosting (XGBoost). The comparison results show that RF model is better and achieves the highest accuracy with an accuracy value of 97%. © 2024 IEEE.

关键词： Diseases

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A multilayer network diffusion-based model for reviewer recommendation

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Chinese Physics B 2024年第3期33卷 700-717页

作者：黄羿炜徐舒琪蔡世民吕琳媛 Institute of Fundamental and Frontier Sciences University of Electronic Science and Technology of ChinaChengdu 611731China Yangtze Delta Region Institute (Huzhou) University of Electronic Science and Technology of ChinaHuzhou 313001China Institute of Dataspace Hefei Comprehensive National Science CenterHefei 230088China Big Data Research Center University of Electronic Science and Technology of ChinaChengdu 611731China School of Computer Science and Engineering University of Electronic Science and Technology of ChinaChengdu 611731China School of Cyber Science and Technology University of Science and Technology of ChinaHefei 230026China

With the rapid growth of manuscript submissions,finding eligible reviewers for every submission has become a heavy *** systems are powerful tools developed in computer science and information science to deal with this ***,most existing approaches resort to text mining techniques to match manuscripts with potential reviewers,which require high-quality textual information to perform *** this paper,we propose a reviewer recommendation algorithm based on a network diffusion process on a scholar-paper multilayer network,with no requirement for textual *** network incorporates the relationship of scholar-paper pairs,the collaboration among scholars,and the bibliographic coupling among *** results show that our proposed algorithm outperforms other state-of-the-art recommendation methods that use graph random walk and matrix factorization and methods that use machine learning and natural language processing,with improvements of over 7.62%in recall,5.66%in hit rate,and 47.53%in ranking *** work sheds light on the effectiveness of multilayer network diffusion-based methods in the reviewer recommendation problem,which will help to facilitate the peer-review process and promote information retrieval research in other practical scenes.

关键词： reviewer recommendation multilayer network network diffusion model recommender systems complex networks

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Packet Scheduling in Rechargeable Wireless Sensor Networks under SINR Model

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China Communications 2023年第3期20卷 286-301页

作者： Baogui Huang Jiguo Yu Chunmei Ma Guangshun Li Anming Dong School of Computer Science Qufu Normal UniversityRizhao 276826China Big Data Institute Qilu University of TechnologyJinan 250353China School of Computer Science and Technology Qilu University of Technology(Shandong Academy of Sciences)Jinan 250353China

Two packet scheduling algorithms for rechargeable sensor networks are proposed based on the signal to interference plus noise ratio *** allocate different transmission slots to conflicting packets and overcome the challenges caused by the fact that the channel state changes quickly and is *** first algorithm proposes a prioritybased framework for packet scheduling in rechargeable sensor *** packet is assigned a priority related to the transmission delay and the remaining energy of rechargeable batteries,and the packets with higher priority are scheduled *** second algorithm mainly focuses on the energy efficiency of *** priorities are related to the transmission distance of packets,and the packets with short transmission distance are scheduled *** sensors are equipped with low-capacity rechargeable batteries,and the harvest-store-use model is *** consider imperfect *** is,the battery capacity is limited,and battery energy leaks over *** energy harvesting rate,energy retention rate and transmission power are *** simulation results indicate that the battery capacity has little effect on the packet scheduling ***,the algorithms proposed in this paper are very suitable for wireless sensor networks with low-capacity batteries.

关键词： packet scheduling physical interference model rechargeable sensor networks SINR model

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A Scalable Adaptive Approach to Multi-Vehicle Formation Control with Obstacle Avoidance

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IEEE/CAA Journal of Automatica Sinica 2022年第6期9卷 990-1004页

作者： Xiaohua Ge Qing-Long Han Jun Wang Xian-Ming Zhang IEEE School of Science Computing and Engineering TechnologiesSwinburne University of TechnologyMelbourneVIC 3122Australia Department of Computer Science and School of Data Science City University of Hong KongChina

This paper deals with the problem of distributed formation tracking control and obstacle avoidance of multivehicle systems(MVSs)in complex obstacle-laden *** MVS under consideration consists of a leader vehicle with an unknown control input and a group of follower vehicles,connected via a directed interaction topology,subject to simultaneous unknown heterogeneous nonlinearities and external *** central aim is to achieve effective and collisionfree formation tracking control for the nonlinear and uncertain MVS with obstacles encountered in formation maneuvering,while not demanding global information of the interaction *** this goal,a radial basis function neural network is used to model the unknown nonlinearity of vehicle dynamics in each vehicle and repulsive potentials are employed for obstacle ***,a scalable distributed adaptive formation tracking control protocol with a built-in obstacle avoidance mechanism is *** is proved that,with the proposed protocol,the resulting formation tracking errors are uniformly ultimately bounded and obstacle collision avoidance is *** simulation results are elaborated to substantiate the effectiveness and the promising collision avoidance performance of the proposed scalable adaptive formation control approach.

关键词： Adaptive control collision avoidance distributed formation control multi-vehicle systems neural networks obstacle avoidance repulsive potential

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Comparative usability analysis across different driving control scenarios in a driving simulation game 9th

Comparative usability analysis across different driving cont...

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9th International Conference on computer science and Computational Intelligence, ICCSCI 2024

作者： David Davis, Juan Lewis, Leon Oliver, Christian Fajar, Muhamad Pratama, Galih Dea Game Application & Technology Program Computer Science Department School of Computer Science Bina Nusantara University Jakarta11480 Indonesia

This study aims to address the gap in the evaluation of driving simulation games by further assessing and developing ProjectStir (a Driving Simulation Game) through its adaptation to two different driving control devices: a steering wheel and an arcade stick. Despite the growing popularity of simulation games, limited research has been conducted on how different control devices impact user experience and usability. Usability was evaluated through variables including Easiness of Game Control, Learnability of Gameplay, Remembrance, Challenge, Efficiency, Tension, Familiarity, and Satisfaction. Involving 30 respondents from the computer science program at BINUS University, the results revealed no significant differences in usability between the two scenarios (p © 2024 The Authors.

关键词： Automobile driver simulators

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Layer-Wise Learning Rate Optimization for Task-Dependent Fine-Tuning of Pre-Trained Models: An Evolutionary Approach

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ACM Transactions on Evolutionary Learning and Optimization 2024年第4期4卷 1-23页

作者： Bu, Chenyang Liu, Yuxin Huang, Manzong Shao, Jianxuan Ji, Shengwei Luo, Wenjian Wu, Xindong Key Laboratory of Knowledge Engineering with Big Data Ministry of Education and School of Computer Science and Information Engineering Hefei University of Technology Hefei China School of Artificial Intelligence and Big Data Hefei University Hefei China Guangdong Provincial Key Laboratory of Novel Security Intelligence Technologies School of Computer Science and Technology Harbin Institute of Technology Shenzhen China

The superior performance of large-scale pre-Trained models, such as Bidirectional Encoder Representations from Transformers (BERT) and Generative Pre-Trained Transformer (GPT), has received increasing attention in both academic and industrial research and has become one of the current research hotspots. A pre-Trained model refers to a model trained on large-scale unlabeled data, whose purpose is to learn general language representation or features for fine-Tuning or transfer learning in subsequent tasks. After pre-Training is complete, a small amount of labeled data can be used to fine-Tune the model for a specific task or domain. This two-stage method of "pre-Training+fine-Tuning"has achieved advanced results in natural language processing (NLP) tasks. Despite widespread adoption, existing fixed fine-Tuning schemes that adapt well to one NLP task may perform inconsistently on other NLP tasks given that different tasks have different latent semantic structures. In this article, we explore the effectiveness of automatic fine-Tuning pattern search for layer-wise learning rates from an evolutionary optimization perspective. Our goal is to use evolutionary algorithms to search for better task-dependent fine-Tuning patterns for specific NLP tasks than typical fixed fine-Tuning patterns. Experimental results on two real-world language benchmarks and three advanced pre-Training language models show the effectiveness and generality of the proposed framework. © 2024 held by the owner/author(s).

关键词： Semantics

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Implementation of Fine-Tuned BERT for Enzyme Classification Based on Gene Ontology 11

Implementation of Fine-Tuned BERT for Enzyme Classification ...

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11th International Conference on Advanced Informatics: Concept, Theory and Application, ICAICTA 2024

作者： Henry, Matthew Martianus Kenneth, Christian Pardamean, Bens Bina Nusantara University Bioinformatics and Data Science Research Center Jakarta Indonesia Bina Nusantara University BINUS Graduate Program - Master of Computer Science Computer Science Department Jakarta Indonesia

ISBN: (纸本)9798331520311

Enzymes are biocatalysts with vital roles in biological functions and many industrial applications. Diverse enzymes are classified using Enzyme Commission (EC) nomenclature, making differentiation challenging. On the other hand, another biological information, gene ontology (GO), can describe the biological aspects of enzymes, covering related biological processes (BP), molecular functions (MF), and their locations within cells (CC). This study proposes a novel EC class and subclass classification of enzymes within the ontology subclass based on their GO semantics using a Bidirectional Encoder Representation of Transformer (BERT). The BERT model is first fine-tuned using the preprocessed GO term name and definition, with the enzymes in each ontology class (BP, MF, or CC) are also divided based on how the GO assigned, either through manual annotation (NONIEA) or electronically inferred (IEA). BERT successfully obtained 0.93, 0.60, 0.99, 0.90, 0.40, and 0.35 F1 scores during fine-tuning for BP IEA, BP NONIEA, MF IEA, MF NONIEA, CC IEA, and CC NONIEA, respectively. On the test set, the fine-tuned BERT significantly outperformed GOntoSim, a framework to calculate semantic similarity based on classical information theory, in EC class classification across all metrics with less inference time in all ontology subclass. Expanded further to the EC subclass, BERT can classify the enzyme on the EC subclass level in BP IEA and MF IEA ontology subclass. However, longer epochs are needed in fine-tuning. This result shows that the names and definitions of GO terms are distinguishable features in classifying enzymes as an alternative to the information content approach. © 2024 IEEE.

关键词： Gene Ontology

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