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Aggregating Structural Features for Computational Analysis of Mutations in BRCT Domains of BRCA1 Protein

Aggregating Structural Features for Computational Analysis o...

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2023 International Conference on Informatics, Multimedia, Cyber and Information Systems, ICIMCIS 2023

作者： Hidayat, Alam Ahmad Nirwantono, Rudi Isnan, Mahmud Trinugroho, Joko Pebrianto Pardamean, Bens Bina Nusantara University School of Computer Science Bioinformatics and Data Science Research Center Mathematics Department Jakarta11480 Indonesia Bina Nusantara University Faculty of Engineering Bioinformatics and Data Science Research Center Biotechnology Department Jakarta11480 Indonesia Bina Nusantara University Bioinformatics and Data Science Research Center Jakarta11480 Indonesia Binus Graduate Program Bioinformatics and Data Science Research Center Computer Science Department Jakarta11480 Indonesia

ISBN: (纸本)9798350307306

Understanding the mechanistic interpretability of mutation effects in a protein can help predict the clinical implications of the genetic variants. Hence, computational variant effect predictions that involve protein structural features of the protein mutations might be suitable in this case. In this work, we focus on BRCT domains of BRCA1 gene that is widely studied in breast cancer studies. We retrieved 88 selected missense variants found in BRCT domains annotated in both ClinVar and gnomAD databases. To computationally characterize the pathogenic property of the mutations we used two types of features extracted from protein structures: a change in free Gibbs energy and a set of features derived from molecular dynamics simulations of each mutant. Using a dimensional reduction and Gaussian mixture model (GMM)-based clustering we demonstrate that the variants are segregated into two regions that may correspond to their pathogenic status. This method can be a potential computational pipeline for providing the preliminary mechanistic interpretation of mutation effects in terms of their thermodynamic and structural features. © 2023 IEEE.

关键词： Proteins

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Deep Learning Approach for Aspect-Based Sentiment Analysis on Indonesian Hospitals Reviews 8

Deep Learning Approach for Aspect-Based Sentiment Analysis o...

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8th International Conference on Informatics and Computing, ICIC 2023

作者： Fahmi, Muhamad Yudanto, Faturahman Nazhifah, Naurah Sari, Yunita Afiahayati Faculty of Mathematics and Natural Sciences Universitas Gadjah Mada Indonesia Master Program in Artificial Intelligence Department of Computer Science and Electronics Yogyakarta Indonesia Faculty of Mathematics and Natural Sciences Universitas Gadjah Mada Indonesia Department of Computer Science and Electronics Yogyakarta Indonesia

ISBN: (纸本)9798350342604

Hospitals are individual health service facilities that provide inpatient and outpatient care, therefore, quality hospital services, facilities, and resources are a necessity and must be met by every hospital. To assess the quality of hospital services, facilities, and resources, we can see reviews from users through reviews available on Google Maps. Using natural language understanding, we can identify the sentiment associated with each particular aspect. In this research, we developed a deep learning model which can classify three aspects (services, human resources, and facilities) with four sentiments (positive, negative, neutral, and none) using a multiclass-multioutput deep learning model, ensuring both aspect and sentiment classification within a single model. Our research concludes that the BERT-LSTM model demonstrates promising performance with an F1-score of 0.597, but faces challenges in accurately classifying neutral sentiment across all aspects due to the lack of neutral sentiment labels. © 2023 IEEE.

关键词： Sentiment analysis

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Convolutional Neural Network Using Res-Net For Organic and Anorganic Waste Classification 4

Convolutional Neural Network Using Res-Net For Organic and A...

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4th IEEE International Conference of computer science and Information Technology, ICOSNIKOM 2022

作者： Girsang, Abba Suganda Yunanda, Rezky Syahputra, Muhammad Edo Peranginangin, Ezra 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 Bina Nusantara University Faculty of Engineering Industrial Engineering Department Jakarta11480 Indonesia

ISBN: (纸本)9798350399073

Convolutional Neural network is state of the art of image recognition or image classification. However to build the robust model using CNN needs many parameters adjusted, and choosing the good combination hyperparameter which impacts taking much computation time. Genetic algorithm is one method metaheuristic which is robust for choosing the combinatorial possible hyperparameter. This model also uses ResNet-50 which is a pretrained model of convolutional neural network that consists 50 layers. By using a pretrained like ResNet-50, it will increase the performance model. CNN-ResNet with efficient genetic algorithm (EGA) to optimize the hyperparameter. The EGA algorithm utilizes transfer learning techniques in its algorithm so that the optimization process on CNN can achieve unified accuracy values quickly. The best performance model optimized using EGA outperformed the ResNet-50 model and the model optimized using GA and VLGA in classifying organic and inorganic materials. The accuracy value obtained from EGA is 97.53% with a loss of 0.08. © 2022 IEEE.

关键词： Convolutional neural networks

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InDRI: Intelligent Diagnosis Radiology Images 6

InDRI: Intelligent Diagnosis Radiology Images

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6th International Conference on Cybernetics and Intelligent System, ICORIS 2024

作者： Isnan, Mahmud Elwirehardja, Gregorius Natanael Nugroho, Kuncahyo Setyo Ritonga, Imelda Liana Gultom, Roby Pahala Januario Lubis, Elida Afni Pardamean, Bens Computer Science Department School of Computer Science Bina Nusantara University Jakarta11480 Indonesia Bioinformatics and Data Science Research Center Bina Nusantara University Jakarta11480 Indonesia Universitas Imelda Medan Indonesia Medan20238 Indonesia Universitas Imelda Medan Indonesia Medan20238 Indonesia Clinical Pathology Unit Rumah Sakit Imelda Pekerja Indonesia Medan20239 Indonesia Computer Science Department BINUS Graduate Program Bina Nusantara University Jakarta11480 Indonesia

ISBN: (纸本)9798331539603

The need for an early screening and computer-Aided Diagnosis (CAD) system based on Artificial Intelligence (AI) for the field of radiology is essential to realize considering the large impact of lung diseases globally. However, developing AI requires a lot of data, which is a challenge because data in the health sector tends to be limited in quantity and has disparities between diagnostic categories (data imbalance). To overcome this issue, DINO ViT models was trained with the publicly available COVID-19 Radiography Database in our previous study. The model was subsequently implemented into a web application, with this study focusing on the development of a prototype for the application. The study found this application can be useful for medical personnel and doctors in carrying out early screening and CAD. Meanwhile, it also highlighted the general unfamiliarity with AI applications among medical staff, emphasizing the need for increased education and training on AI's role in healthcare. © 2024 IEEE.

关键词： Lung cancer

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Smartphone Application for the Deaf and the Deaf Caring Community 6

Smartphone Application for the Deaf and the Deaf Caring Comm...

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6th International Conference on Inventive Computation Technologies, ICICT 2023

作者： Pryandi, Pinnus Dewantara, Muhammad Bayu Warnars, Harco Leslie Hendric Spits Arief, Ramadhan Information Systems Department School of Information Systems Bina Nusantara University Jakarta11480 Indonesia Computer Science Department BINUS Graduate Program Doctor of Computer Science Bina Nusantara University Jakarta11480 Indonesia Telkom University Bandung11480 Indonesia

ISBN: (纸本)9798350398496

In life, various challenges and problems faced by deaf people such as communication skills and other problems, including emotional, mental, and societal development. However, technology is needed that can help the process. This Smart Application try to build communication between the deaf to share thoughts in group chats, including getting information about the deaf, so that the communication learning process for the deaf becomes easier. The proposed model is using Unified Modeling Languages (UML) diagrams, such as case diagrams for the current proposed idea process and class diagrams for relational tables or database stores. In addition, the User interface (UI) is implemented in this research work, Personal Home Pages (PHP) as a web server programming and MySQL database as an open-source database. © 2023 IEEE.

关键词： User interfaces

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Multilabel Machine Learning System for Predicting Gender and Age Group from Human Gait 2

Multilabel Machine Learning System for Predicting Gender and...

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2nd IEEE International Conference on Interdisciplinary Approaches in Technology and Management for Social Innovation, IATMSI 2024

作者： Qomariyah, Nunung Nurul Nurul Fajar, Ahmad Yono, Vincent Kazakov, Dimitar Bina Nusantara University School of Computing and Creative Arts Computer Science Department Jakarta11480 Indonesia Bina Nusantara University Binus Graduate Program Information System Management Information Systems Management Department Jakarta11480 Indonesia University of York Computer Science Department YO10 5GH United Kingdom

ISBN: (纸本)9798350360523

This paper explores the development of a multilabel machine learning system for predicting both gender and age from human gait patterns. Gait analysis, a non-intrusive method of identifying subtle nuances in human movement, has proven to be a rich source of information related to demographic characteristics. The research extends beyond traditional single-label classification approaches, adopting a multilabel framework to simultaneously predict gender and age *** study evaluates various multilabel machine learning algorithms, with the Random k-labeLsets (RAKEL) algorithm demonstrating superior performance in predicting gender and age labels from human gait datasets. The accuracy of the algorithm can reach up to 87%. We also compared the multilabel approach with several multiclass algorithms such as Decision Tree, Random Forest, Gradient Boosting, K-Neighbors and XGBoost. However, when we also considering the training time, Classifier Chain algorithm showed the best trade off with the accuracy of 86% and the training time is twice faster than the RAKEL algorithm. © 2024 IEEE.

关键词： Gait analysis

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ChiBa—A Chirrup and Bark Detection System for Urban Environment 1

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10th International Conference on Mathematics and Computing, ICMC 2024

作者： Ganguly, Shuddhashil Mukherjee, Himadri Dhar, Ankita Marciano, Matteo Roy, Kaushik Department of Computer Science and Engineering Sister Nivedita University West Bengal Newtown India TISA Lab Department of Computer Science West Bengal State University West Bengal Berunanpukuria India Gazelien Records Lab Department of Arts and Humanities Music Program New York University Abu Dhabi Abu Dhabi United Arab Emirates

ISBN: (数字)9789819720699

ISBN: (纸本)9789819720682

The World is developing at a tremendous pace which has been catapulted by large-scale technological advancements. Building mega structures has never been easier and modes of commute have also developed thereby shortening travel-time. Such advancements have also brought along newer sources of pollution which are harming our planet at an even faster pace. Sound pollution is one such agent that has a long-term effect on not only humans but the entire biodiversity. Its effect on life is not immediately observed but the damage becomes visible over time. Birds are one of the most affected creatures due to sound pollution. This is one of the major reasons for declining bird population in the Urban areas. It is very important to preserve biodiversity for a sustainable future. Animals have calls that are melodious and rhythmic and these calls tend to change when they are in distress. An automated system can be very useful in this context which can monitor animal sounds and detect changes in their calls. Deployment of such a system in Urban areas is challenging due to the presence of ambient sounds which is extremely diverse. Thus it is essential to initially detect animal calls in the Urban environment prior to monitoring them. ChiBa is a system proposed to address this problem. Experiments were initially performed with the detection of birds and dogs (the most common and loudest creatures in cities) calls in the Urban environment. Tests were performed with over 7K clips comprising of the animal calls as well as Urban ambient sounds. The audios were modeled using a deep learning-based approach wherein the highest accuracy of 99.91% was obtained. © The Author(s), under exclusive license to Springer Nature Singapore Pte Ltd. 2024.

关键词： Birds

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Smart Home Security System Using Face Recognition Based on IoT- CNN 2

Smart Home Security System Using Face Recognition Based on I...

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2nd International Conference on Information Technology Research and Innovation, ICITRI 2023

作者： Febriantono, M. Aldiki Zuhair, Alvin Khaeruddin School of Computer Science Bina Nusantara University Computer Science Department Jakarta11480 Indonesia University of Islam Blitar Electrical Engineering Department Blitar Indonesia University of Muhammadiyah Malang Diploma III Electronic Technology Vocational Study Program Malang Indonesia

ISBN: (纸本)9798350324945

Home security is a crucial aspect that requires careful attention, particularly when it comes to addressing theft concerns. Hence, implementing smart door technology equipped with facial recognition holds promising potential for enhancing home security. This study aims to develop a more secure and regulated home entry system by leveraging Internet of Things (IoT) technology and Machine Learning computer Vision for facial recognition. The system integrates IoT devices, such as cameras and automatic doors, wherein facial image data is captured by the camera and processed using the Convolutional Neural Network (CNN) algorithm to identify individuals. Once an individual is recognized, the system grants access to the home through an automated door. By relying on facial features, the system effectively restricts unauthorized access and safeguards homes against theft risks. Therefore, the advancement of a safer and more controlled home entry system utilizing IoT technology and Machine Learning computer Vision holds tremendous benefits for homeowners. © 2023 IEEE.

关键词： Face recognition

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Investigating the Impact of Data Augmentation for Fine-Grained Grocery Product Classification Based on Vision Transformer

Investigating the Impact of Data Augmentation for Fine-Grain...

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2023 International Conference on Artificial Intelligence Robotics, Signal and Image Processing, AIRoSIP 2023

作者： Rahmania, Rissa Heryadi, Yaya Lukas, Lukas Suparta, Wayan Sonata, Ilvico Bina Nusantara University Binus Graduate Program Computer Science Computer Science Department Jakarta11480 Indonesia Faculty of Engineering Jakarta12930 Indonesia Institut Teknologi Nasional Yogyakarta Faculty of Industrial Technology Department of Electrical Engineering Yogyakarta55281 Indonesia

ISBN: (纸本)9798350327472

The existence of fine-grained image classification supporting smart retail provides effectiveness in recognizing products with high similarity. However, the generic classification method performs poorly in identifying products from a subordinate category. This paper aims to identify augmentation techniques to leverage the Vision Transformer (ViT) model to classify the fine-grained grocery product, which involves embedding patches and transformer encoders to extract the main features. First, we develop a fine-grained image dataset with ColorJitter, CutOut, and combining both augmentations. Secondly, we perform experiments and analysis of ViT size, embedded patch size and image size in the patch embedding process. Lastly, the ViT model are evaluated according to the image sizes 224, 384, and 512 in accuracy, loss, and confusion matrix. The highest accuracy was obtained at 0.9922. The ColorJitter and CutOut improved the confusion matrix in ViT-B/16 and ViT-L/16 with an image size of 384 and 512. The results show that both augmentations in the ViT model are able to distinguish fine-grained grocery products. © 2023 IEEE.

关键词： Embeddings

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Exploring Shifted Domain Problem within MNIST Dataset

Exploring Shifted Domain Problem within MNIST Dataset

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2023 International Conference on computer science, Information Technology and Engineering, ICCoSITE 2023

作者： Hidayaturrahman Heryadi, Yaya Lukas Suparta, Wayan Arifin, Yulyani Bina Nusatara University BINUS Graduate Program - Computer Science Computer Science Department Jakarta11480 Indonesia Faculty of Engineering Jakarta12930 Indonesia Institut Teknologi Nasional Yogyakarta Faculty of Industrial Technology Department of Electrical Engineering Yogyakarta55281 Indonesia

ISBN: (纸本)9798350320954

Domain data can be shifted in any direction so it will be shared in different distributions to its original domain. This could be a problem since the model was trained with different distributions. It is found that adversarial domain adaptation using domain adversarial neural networks (DANN) can help to solve this problem on some scale. DANN can minimize the discrepancy between source and target data so the model can work well in both domains. The experiment is done by utilizing MNIST dataset that shifted into some conditions. In a condition when the shifting of distribution is too far, DANN is struggling to maintain the knowledge extracted from source data which leads to underperformance in the source and target domain. In contrast, when the shifting is closer, DANN can easily fit the model so it can perform well in both domains. It proves DANN is one of the good approaches to performing domain adaptation in small discrepancies. © 2023 IEEE.

关键词： Adversarial Domain Adaptation Domain Shifting Problem MNIST Transfer Learning

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