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Regulation of regeneration in Arabidopsis thaliana

aBIOTECH 2023年第4期4卷 332-351页

作者： Md Khairul Islam Sai Teja Mummadi Sanzhen Liu Hairong Wei Computational Science and Engineering Program Michigan Technological UniversityHoughtonMI 49931USA Computer Science Michigan Technological UniversityHoughtonMI 49931USA Department of Plant Pathology Kansas State UniversityManhattanKS 66506USA College of Forest Resources and Environmental Science Michigan Technological UniversityHoughtonMI 49931USA

We employed several algorithms with high efficacy to analyze the public transcriptomic data,aiming to identify key transcription factors(TFs)that regulate regeneration in Arabidopsis ***,we utilized CollaborativeNet,also known as TF-Cluster,to construct a collaborative network of all TFs,which was subsequently decomposed into many subnetworks using the Triple-Link and Compound Spring Embedder(CoSE)*** analysis of these subnetworks led to the identification of nine subnetworks closely associated with *** further applied principal component analysis and gene ontology(GO)enrichment analysis to reduce the subnetworks from nine to three,namely subnetworks 1,12,and *** for TF-binding sites in the promoters of the co-expressed and co-regulated(CCGs)genes of all TFs in these three subnetworks and Triple-Gene Mutual Interaction analysis of TFs in these three subnetworks with the CCGs involved in regeneration enabled us to rank the TFs in each ***,six potential candidate TFs-WOx9A,LEC2,PGA37,WIP5,PEI1,and AIL1 from subnetwork 1-were identified,and their roles in somatic embryogenesis(GO:0010262)and regeneration(GO:0031099)were discussed,so were the TFs in Subnetwork 12 and 17 associated with *** TFs identified were also assessed using the CIS-BP database and Expression *** analyses suggest some novel TFs that may have regulatory roles in regeneration and embryogenesis and provide valuable data and insights into the regulatory mechanisms related to *** tools and the procedures used here are instrumental for analyzing high-throughput transcriptomic data and advancing our understanding of the regulation of various biological processes of interest.

关键词： Regeneration Pluripotency Transcription factor Collaborative network

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Leveraging BERT with Extractive Summarization for Depression Detection on Social Media 23

Leveraging BERT with Extractive Summarization for Depression...

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23rd International Seminar on Intelligent Technology and Its Applications, ISITIA 2022

作者： William, David Achmad, Said Suhartono, Derwin Gema, Aryo Pradipta Bina Nusantara University BINUS Graduate Program Master of Computer Science Computer Science Department Jakarta11480 Indonesia Bina Nusantara University School of Computer Science Computer Science Department Jakarta11480 Indonesia Epigene Labs United States

ISBN: (数字)9781665460811

ISBN: (纸本)9781665460811

In our current time, the well-being of a person is not only determined by the physical health, but also by their mental health. A lot of focus and effort have been spent into raising the awareness of this issue. One such effort comes from the field of computer science by utilizing data from social media to provide additional information in detecting these mental disorders. In this research, authors proposed the Bidirectional Encoder Representations from Transformers (BERT) with extractive summarization to preprocess data obtained from popular social media platform such as Reddit and Twitter. The proposed method evaluated by compare it to several other methods in text classification to Figure out which method is best classifying whether someone is depressed or not. This research also contributes to evaluate whether applying extractive summarization to a document prior to feeding the data into BERT will contribute to an increase in performance when compared to the current method of data preprocessing, by measuring the accuracy, precision, recall and F1-score of each model. The evaluation result found that our proposed method by applying extractive summarization to reduce the sequence length achieved a better result compared to BERT base model. © 2022 IEEE.

关键词： Text processing

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A Hybrid Inference Engine to Predict Uncertain Sugar Content for Sugar Industry 9th

A Hybrid Inference Engine to Predict Uncertain Sugar Content...

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

作者： Asrol, Muhammad Napthaleni Utama, Ditdit Nugeraha Suharjito Harito, Christian Syafrudin, Muhammad Industrial Engineering Department BINUS Graduate Program Bina Nusantara University Jakarta11480 Indonesia Computer Science Department BINUS Graduate Program Bina Nusantara University Jakarta11480 Indonesia Department of Artificial Intelligence and Data Science Sejong University Seoul05006 Korea Republic of

The sugar industry is facing challenges in increasing productivity to meet consumer demand. One opportunity for productivity improvement lies in ensuring sugar content. This study proposes a hybrid model to predict sugar content by considering uncertainty factors. A hybrid model combining fuzzy subtractive clustering, and a fuzzy inference system is proposed to predict sugar content. The clustering results using silhouette and fuzzy subtractive clustering successfully identified 6 cluster centres from 2225 datasets collected in a sugar industry in East Java Province. The hybrid inference engine model is designed with fuzzy rules derived from the clustered data. Two inference models are developed: triangular and Gaussian fuzzy numbers. The testing results indicate that the hybrid model with triangular fuzzy numbers shows the smallest error with an R2 value of 0.95. This model is possible to applied in the sugar industry for decision makers in improving productivity with taking attention into uncertain factors influencing sugar content. © 2024 The Authors.

关键词： Prediction models

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Efficient Node Reduction Heuristic for GNN-Based Traffic Speed Forecasting 11

Efficient Node Reduction Heuristic for GNN-Based Traffic Spe...

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11th IEEE/ACM International Conference on Big Data Computing, Applications and Technologies, BDCAT 2024

作者： Inokuchi, Yuto Gonzalez, Pedro Henrique Aritsugi, Masayoshi Mendonca, Israel Kumamoto University Graduate School of Science and Technology Kumamoto Japan Federal University of Rio de Janeiro System Engineering and Computer Science Program Rio de Janeiro Brazil Kumamoto University Faculty of Advanced Science and Technology Kumamoto Japan

ISBN: (纸本)9798350367300

In this paper, we aim to reduce the number of nodes from Graph Neural Networks (GNNs), thereby simplifying models and reducing computational costs. GNNs are highly effective for various tasks, such as prediction, classification, and clustering, due to their ability to learn node and edge attributes and relationships, and they have been utilized for intelligent transportation systems recently by converting sensor networks into graph structures. Deep spatio-temporal neural networks, including Spatio-Temporal Graph Convolutional Networks (STGCNs), capture spatial and temporal dependencies, making them suitable for traffic speed forecasting, traffic demand prediction, and travel time estimation. Despite their success, GNNs face challenges in industrial applications due to significant memory usage and time consumption. In this paper, we propose a new approach to node reduction that outperforms existing methods in computational efficiency. Our experiments on two real-world traffic datasets demonstrate that using the heuristic and edge information to reduce nodes can cut computation time of optimization up to 95% and, by eliminating noise, can even enhance prediction accuracy. © 2024 IEEE.

关键词： Graph neural networks

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Aspect-based Sentiment Analysis in Tourism Industry for Tourism Recommender System 5

Aspect-based Sentiment Analysis in Tourism Industry for Tour...

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5th International Seminar on Research of Information Technology and Intelligent Systems, ISRITI 2022

作者： Huda, Choirul Heryadi, Yaya Lukas Budiharto, Widodo Bina Nusantara University Doctor of Computer Science Graduate Program Computer Science Department Jakarta11480 Indonesia Bina Nusantara University Computer Science Department Jakarta11480 Indonesia Jakarta Indonesia

ISBN: (纸本)9781665455121

The improvement of some aspects in tourism industry needs further study through aspect-based sentiment analysis based on tourist experience. The aim of this study is presenting the empiric results of aspect-based sentiment analysis to extract some useful aspects of services for leveraging tourism industry development based on user's feedback. The study uses customer review data from TripAdvisor website for developing classification model using machine learning algorithms including Decision Tree (DT), Random Forest Classifier (RFC), Support Vector Machine (SVM), Extreme Gradient Boosting (XGBoost) models. Each machine learning model under study is trained using K-Fold Cross Validation. The empiric results found that accuracy of RFC achieved the highest result (99.5%) followed by XGBoost (87.3%), DT (82.9%), and SVM (80.5%). The extracted meaningful aspects from customer feedback give many valuable insights for service quality improvement in tourism industry in the effort to strengthening the rising-up of sustainability economic growth through tourism industry. © 2022 IEEE.

关键词： Decision trees

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BERT and ULMFiT Ensemble for Personality Prediction from Indonesian Social Media Text

BERT and ULMFiT Ensemble for Personality Prediction from Ind...

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2022 International Symposium on Information Technology and Digital Innovation, ISITDI 2022

作者： Halimawan, Noptovius Suhartono, Derwin Gema, Aryo Pradipta Yunanda, Rezki Binus Graduate Program-Master Of Computer Science Bina Nusantara University Computer Science Department Jakarta11480 Indonesia School Of Computer Science Bina Nusantara University Computer Science Department Jakarta11480 Indonesia Epigene Labs Paris France

ISBN: (数字)9781665461160

ISBN: (纸本)9781665461160

Predicting personality is a growing topic in the field of natural language processing. The study of personality prediction has been proven to benefit the development of recommender systems and automated personality assessments by previous studies. Additionally, the widespread usage of social media in Indonesia such as Twitter has served as a potential source of data for developing such models. Existing personality prediction models has explored the implementation of both traditional machine learning models and deep learning models, with the latter proven to perform better with more data. Despite so, there is not much development of deep learning-based personality prediction models in the domain of Indonesian text. We propose a deep learning-based ensemble model based on Universal Language Model Fine Tuning (ULMFiT) and Bidirectional Encoder Representations from Transformers (BERT), the state-of-the-art pre-trained models for text classification. The model is trained with Indonesian tweets labelled with Five Factor Model (FFM) personality traits along with the users' metadata. The model is tested with five predetermined scenarios to prove the robustness of its performance. The final evaluation of the model proves that it has successfully achieved optimal performance of 76.41 % macro-average accuracy and 75.55% macro-average F-1 score, exceeding the state-of-the-art BERT and ULMFiT © 2022 IEEE.

关键词： Classification (of information)

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BERT base model for toxic comment analysis on Indonesian social media

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Procedia computer science 2023年 216卷 714-721页

作者： Ghinaa Zain Nabiilah Simeon Yuda Prasetyo Zahra Nabila Izdihar Abba Suganda Girsang Computer Science Department Binus Graduate Program Master of Computer Science Bina Nusantara University Jakarta 11480 Indonesia

Social media is an online media that functions as a platform for users to participate, share, create, and exchange information through various forums and social networks. The rapid increase in social media activity causes an increase in the number of comments on social media. This is prone to triggering debate due to the easy formation of open discussions between social media users. However, the debate often triggers the emergence of negative things, causing great fights on social media. Social media users often use comments containing toxic words to argue and corner a party or group. This study conducted an experiment to detect comments containing toxic sentences on social media in Indonesia using a Pre-Trained Model that was trained for Indonesian. This study performed a multilabel classification and evaluated the classification results generated by the Multilingual BERT (MBERT), IndoBERT, and Indo Roberta Small models. The optimal result of this study is to use the IndoBERT model with an F1 Score of 0.8897.

关键词： Toxic Comment MBERT IndoBERT IndoRoBERTa Small Indonesian social media

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A Systematic Literature Review of Deep Learning Application in Multiclass Anomaly Detection for Chest Medical Imaging 6

A Systematic Literature Review of Deep Learning Application ...

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6th International Conference on computer and Informatics Engineering, IC2IE 2023

作者： Philips Pardamean, Bens Elwirehardja, Gregorius Natanael Isnan, Mahmud Bina Nusantara University Binus Graduate Program - Master of Compuer Science Computer Science Department Jakarta Indonesia Bina Nusantara University Bioinformatics and Data Science Research Center Jakarta Indonesia

ISBN: (纸本)9798350345162

Medical imaging abnormality detection is challenging, but deep learning approaches have shown promise. This paper reviews the current state of the art in deep learning approaches for detecting abnormalities in chest medical imaging. To discover the trends, opportunities, and challenges associated with this field, 18 studies were selected from Google Scholar based on their titles, abstracts, and contents for extensive review to answer two research questions. The study found that the National Institutes of Health (NIH) Chest X-ray 14 dataset is the most used dataset for this task. Most research uses a single-modal approach, considering only image data as input, with X-ray being the more popular instrument. There are 8 out of 18 studies leverage the transfer learning approach, with ResN et50 being the most popular network. MobileNetV2 has demonstrated competitive results compared to more robust networks. Preprocessing techniques such as image enhancement and data augmentation are leveraged by 61.1 % of the reviewed studies and are shown to improve model performance. © 2023 IEEE.

关键词： abnormality detection attention mechanisms chest x-ray CT images deep learning transfer learning

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An Improvement of A Lightweight NFC Authentication Algorithm Based on Modified Hash Function 14

An Improvement of A Lightweight NFC Authentication Algorithm...

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14th International Conference on Information and Communication Technology Convergence, ICTC 2023

作者： Hwang, Min-Shiang Li, Hou-Wen Yang, Cheng-Ying Asia University Department of Computer Science and Information Engineering Taichung354 Taiwan Asia University The Ph.D. Program in Artificial Intelligence Taichung354 Taiwan University of Taipei Department of Computer Science Taipei Taiwan

ISBN: (纸本)9798350313277

In NFC applications, user privacy information must be protected first. Cao and Liu recently proposed a lightweight NFC authentication scheme based on an improved hash function to ensure that the user's private information will not be leaked. Although their method is highly efficient and has Mutual Authentication, Forward Security, Backward Security, and security against attacks such as Replay, Location, and Fake, once out of synchronization occurs, the method must reestablish synchronization data. Therefore, this article will propose a lightweight synchronization method. © 2023 IEEE.

关键词： authentication algorithm hash function near field communication privacy

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Analyzing Nickel Stock Price Prediction: A Comparative Study of Long Short-Term Memory and Convolutional Neural Network Models

Analyzing Nickel Stock Price Prediction: A Comparative Study...

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IEEE International Conference on Industry 4.0, Artificial Intelligence, and Communications Technology (IAICT)

作者： Ferry Irwanto Muhammad Farrell Hafizh Sasongko Stevanus Febrian Alexander Agung Santoso Gunawan Karli Eka Setiawan Data Science Program Computer Science Department School of Computer Science Bina Nusantara University Jakarta Indonesia Computer Science Department School of Computer Science Bina Nusantara University Jakarta Indonesia

ISBN: (数字)9798350353464

ISBN: (纸本)9798350353471

This research delves to predict PT Vale Indonesia Tbk stock price as an experiment on Indonesian stock using three models: naïve, LSTM, and 1D-CNN. Our analysis emphasizes the importance of matching model architectures to data properties. We compare models' performance with fiveday window for predict one-day prediction output. Interestingly, the single-layer LSTM outperforms the 1D-CNN even with similar hyperparameters, showcasing its strength in capturing long-term temporal dependencies crucial for nickel prices. While the 1D-CNN excels at identifying short-term patterns, its limited receptive field hinders long-term dependence. Recognizing the potential of both models, we encourage exploring hybrid architectures combining LSTM and CNN strengths for further improvement in financial forecasting. The experiment result shows single-layer LSTM outperforms a 1D-CNN with similar settings.

关键词： Analytical models Predictive models Nickel Data models Communications technology Fourth Industrial Revolution Convolutional neural networks

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