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Repurposing transfer learning strategy of computer vision for owl sound classification

Procedia Computer science 2023年 216卷 424-430页

作者： Kevin William Gunawan Alam Ahmad Hidayat Tjeng Wawan Cenggoro Bens Pardamean Computer Science Department BINUS Graduate Program – Master of Computer Science Bina Nusantara University Jakarta 11480 Indonesia Bioinformatics and Data Science Research Center Bina Nusantara University Jakarta 11480 Indonesia Computer Science Department School of Computer Science Bina Nusantara University Jakarta 11480 Indonesia

Accurately predicting an owl species based on its sound can be helpful for owl conservation. To build an accurate model for owl sound classification, deep learning is currently the most preferred algorithm, due to its excellent performance for modeling audio data. However, deep learning is generally underperformed for a small dataset, which is the case for recognizing scops owl sound. To overcome the issue, we proposed a transfer learning strategy, which is common for computer vision tasks, that can alleviate overfitting in a deep learning model for the owl sound classification. In our approach, we propose a neural network architecture consisting of the backbone of a EfficientNet model pre-trained on the massive ImageNet database. The model takes the sound input that has been converted as two image representations: Spectrogram and Mel Frequency Cepstral Coefficients. Our strategy enables the use of a relatively small size of pre-trained image classification model, which is widely available, for transfer learning in owl sound classification. Deploying the lightweight model in an automatic sound classifier provides a fast and accurate tool for various owl conservation purposes.

关键词： acoustics deep learning bird sound species detection transfer learning

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Constructing Coronary Artery Vessel Segmentation Based on Deep Learning Models and Image Processing 24

Constructing Coronary Artery Vessel Segmentation Based on De...

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8th International Conference on Medical and Health Informatics, ICMHI 2024

作者： Peng, Kang-Syuan Chang, Hsiao-Huang Hsu, Ying-Kai Chien, Ting-Ying Department of Computer Science and Engineering Yuan Ze University Taoyuan City Taiwan Cardiovascular Surgery Department Taipei Veterans General Hospital Taipei City TaiwanTaipei Medical University Taipei City Taiwan Graduate Program in Biomedical Informatics Yuan Ze University Taoyuan City Taiwan TaiwanInnovation Center for Big Data and Digital Convergence Yuan Ze University Taoyuan City Taiwan

ISBN: (纸本)9798400716874

Narrowing of the coronary arteries is an important indicator of the severity of coronary artery disease (CAD) in patients. Previous research using deep learning to identify narrowed vessels has primarily been based on object detection, but this approach has several problems, such as the inability to detect multivessel narrowing, calculate the actual rate of narrowing, and determine the exact location of occurrence. Therefore, we believe that the determination of narrowing should return to the original method, namely, calculating the maximum and minimum diameters around the vessel. However, to automate this task, a preprocessing step for separating each vessel is needed, especially for the complex structure of the left coronary artery. We designed a deep learning model capable of analyzing an entire coronary angiography (CAG) image for the separation and tracking of vessels. This not only serves as a preprocessing step for calculating narrowing but also allows for the analysis of different vessel flow directions, providing doctors with comprehensive assessment indicators. © 2024 Copyright ACM.

关键词： Image segmentation

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ConvNeXt Model for Breast Cancer Image Classification

ConvNeXt Model for Breast Cancer Image Classification

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International Conference on Cybernetics and Intelligent System (ICORIS)

作者： Devin Setiawan Andrea Stevens Karnyoto Indo Intan Bens Pardamean Department of Electrical Engineering and Computer Science University of Kansas Lawrence United States Bioinformatics and Data Science Research Center Bina Nusantara University Jakarta Indonesia Department of Informatics Engineering Universitas Dipa Makassar Makassar Indonesia Computer Science Department BINUS Graduate Program - Master of Computer Science Program Bina Nusantara University Jakarta Indonesia

ISBN: (数字)9798331539603

ISBN: (纸本)9798331539610

Breast cancer is an occurrence of cancer that attacks breast tissue and is the most common cancer among women worldwide, affecting one in eight women. In this modern world, breast cancer image classification simplifies the process of analyzing, providing objective and accurate results. By leveraging machine learning algorithms and computer vision techniques, we developed breast cancer detection. The dataset is histopathology dataset from BreakHis and UNHAS Hospital. We chose the ConvNeXt-Tiny model then modified the classifier head as the proposed method. Before the dataset is processed by the model, we augment the images by applying random horizontal and vertical flips, adjustments to brightness, contrast, saturation, and hue using color jitter. The augmentation process simulates real-world variance and enhances the model's ability to generalize to unseen data. Our proposed model gained better performance (accuracy, F1-Score) results compared two other techniques to VGG16 and SVM. According to our experiments, the F1-Score for the ConvNeXt-Tiny model with classifier head modification is higher at 0.9516, than the gain for VGG16 at 0.9292, and the gain for the SVM at 0.83.

关键词： Support vector machines Accuracy Head Computational modeling Transfer learning Breast cancer Magnetic heads data models Reliability Image classification

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Machine Learning Approach for Single Nucleotide Polymorphism Selection in Genetic Testing Results

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Procedia Computer science 2023年 227卷 46-54页

作者： Joko Pebrianto Trinugroho Alam Ahmad Hidayat Mahmud Isnan Bens Pardamean Bioinformatics and Data Science Research Center Bina Nusantara University Jakarta 11480 Indonesia Department of Mathematics School of Computer Science Bina Nusantara University Jakarta 11480 Indonesia Computer Science Department BINUS Graduate Program Bina Nusantara University Jakarta 11480 Indonesia

Lactose intolerance is a type of digestive problem that may threaten the population because milk and dairy products compose of nutrients that are essential for human body. Genetic tests possess a great potential to detect lactose intolerance as it can be used in children and even infants. However, a new approach to analyze the genetic test results is needed to elucidate the Single Nucleotide Polymorphisms (SNPs) that are related to lactose intolerance. In this work, we utilized the machine learning based feature selection to select the SNPs associated with lactose tolerance trait from genotyping samples of direct-to-customer (DTCG genetic tests, obtained from the public database. Recursive Feature Elimination (RFE) with XGBoost model was used to perform feature selection. We also compared three different models, such as XGBoost, support vector machine (SVM), and random forest (RF) for training the selected features. Our findings revealed that 20 SNPs (out of 3501) were chosen, with rs4394668 as the most important variables (F-score 0.009). Furthermore, when compared to the RF and SVM models, the XGBoost model had the highest accuracy (0.87). Further studies should be undertaken to elucidate how the selected SNPs may lead to the lactose intolerance trait.

关键词： lactose intolerance SNP genetic test feature selection

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Contract-Inspired Contest Theory for Controllable Image Generation in Mobile Edge Metaverse

arXiv

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arXiv 2025年

作者： Liu, Guangyuan Du, Hongyang Wang, Jiacheng Niyato, Dusit Kim, Dong In College of Computing and Data Science The Energy Research Institute @ NTU Interdisciplinary Graduate Program Nanyang Technological University Singapore Department of Electrical and Electronic Engineering University of Hong Kong Hong Kong College of Computing and Data Science Nanyang Technological University Singapore Department of Electrical and Computer Engineering Sungkyunkwan University Korea Republic of

The rapid advancement of immersive technologies has propelled the development of the Metaverse, where the convergence of virtual and physical realities necessitates the generation of high-quality, photorealistic images to enhance user experience. However, generating these images, especially through Generative Diffusion Models (GDMs), in mobile edge computing environments presents significant challenges due to the limited computing resources of edge devices and the dynamic nature of wireless networks. This paper proposes a novel framework that integrates contract-inspired contest theory, Deep Reinforcement Learning (DRL), and GDMs to optimize image generation in these resource-constrained environments. The framework addresses the critical challenges of resource allocation and semantic data transmission quality by incentivizing edge devices to efficiently transmit high-quality semantic data, which is essential for creating realistic and immersive images. The use of contest and contract theory ensures that edge devices are motivated to allocate resources effectively, while DRL dynamically adjusts to network conditions, optimizing the overall image generation process. Experimental results demonstrate that the proposed approach not only improves the quality of generated images but also achieves superior convergence speed and stability compared to traditional methods. This makes the framework particularly effective for optimizing complex resource allocation tasks in mobile edge Metaverse applications, offering enhanced performance and efficiency in creating immersive virtual environments. © 2025, CC BY.

关键词： Mobile edge computing

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Trends, Opportunities, and Challenges in Detecting Depressive Disorders Through Mobile Devices: A Review 2

Trends, Opportunities, and Challenges in Detecting Depressiv...

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2nd International Conference on Computer System, Information Technology, and Electrical Engineering, COSITE 2023

作者： Elwirehardja, Gregorius Natanael Isnan, Mahmud Perbangsa, Anzaludin Samsinga Muchtar, Kahlil Pardamean, Bens Computer Science Department School of Computer Science Bina Nusantara University Jakarta11480 Indonesia Mahmud Isnan Bioinformatics and Data Science Research Center Bina Nusantara University Jakarta11480 Indonesia Information System Department School of Information Systems Bina Nusantara University Jakarta11480 Indonesia Department of Electrical and Computer Engineering Universitas Syiah Kuala Banda Aceh23111 Indonesia Computer Science Department BINUS Graduate Program-Master of Computer Science Bina Nusantara University Jakarta11480 Indonesia

ISBN: (纸本)9798350343069

Depressive Disorders (DD) is one of the most prevalent mental disorders in the world that may lead to suicide cases. To prevent the latter, ubiquitous early detection systems may be effective. Recent studies have since researched the development of such systems by exploiting several forms of data, including video, audio, Ecological Momentary Assessments (EMA), and passive sensing data using sensors embedded in mobile devices. To summarize the trends, opportunities, and existing challenges in this field, this study reviewed 15 papers to answer four research questions. EMA was the most popular data to be used in this task, but other approaches, such as using video, audio, and typing behaviors, may be considered due to the subjectivity of EMA. These data were typically recorded using smartphones and analyzed using Machine Learning (ML). However, most of the developed systems had yet to be implemented. Overall, it was concluded that further studies may need to explore usages of more objective data in multimodal approaches as well as consider using Mobile Cloud Computing (MCC) to deploy these systems to provide more effective and efficient diagnoses. Future studies must also take into account the existing challenges of the data and infrastructures, such as the weaknesses of several data types, limitations of mobile devices, as well as the challenges of diagnosis approaches. © 2023 IEEE.

关键词： Machine learning

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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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International Conference on Informatics, Multimedia, Cyber and Information System (ICIMCIS)

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

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.

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Implementation of expert systems in potassium deficiency in cocoa plants using forward chaining method

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Procedia Computer science 2023年 216卷 136-143页

作者： Muhammad Titan Hafizal Dian Pratama Putra Herry Wirianata Nanda Satya Nugraha Teddy Suparyanto Alam Ahmad Hidayat Bens Pardamean Faculty of Forestry STIPER Institute of Agriculture Yogyakarta 55282 Indonesia Bioinformatics and Data Science Research Center Bina Nusantara University Jakarta 11480 Indonesia Computer Science Department BINUS Graduate Program Bina Nusantara University Jakarta 11480 Indonesia

As one of the largest exporters in the world, cocoa (Theobroma cacao L.) production in Indonesia provides an important contribution to the plantation sector that can, directly and indirectly, attribute to the national economic development. However, recent data shows a decline in cocoa productivity in Indonesia. This is arguably caused by various factors, including poor agricultural management and practices in cocoa plantations, that may lead to lower fertility in the soil and an increased risk of diseases and pests. Potassium deficiency is a major contributing factor to the low soil fertility that affects cocoa yields. Therefore, in this work, we implement an application with an expert system utilizing the forward chaining method to detect potassium deficiency in cocoa plants and then give a fertilization-based recommendation based on the plants’ condition. The system employs a set of rules to identify symptoms related to the deficiency on the sample photo of a cocoa leaf according to the channels of red, green, and blue of the image. The sample images of cocoa leaves are submitted to the application with an easy-to-use interface that can show the scanning result and proceed to display the suggested quantity of fertilizers to prevent potassium deficiency. Implementing the system can contribute constructive impacts to improve current practices in the overall cropping system of cocoa plants.

关键词： agriculture cocoa expert system forward chaining recommendation system

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Exome-wide variation in a diverse barley panel reveals genetic associations with ten agronomic traits in Eastern landraces

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Journal of Genetics and Genomics 2023年第4期50卷 241-252页

作者： June-Sik Kim Kotaro Takahagi Komaki Inoue Minami Shimizu Yukiko Uehara-Yamaguchi Asaka Kanatani Daisuke Saisho Ryuei Nishii Alexander ELipka Takashi Hirayama Kazuhiro Sato Keiichi Mochida Bioproductivity Informatics Research Team RIKEN Center for Sustainable Resource ScienceYokohama 230-0045Japan Institute of Plant Science and Resources Okayama UniversityKurashiki 710-0046Japan Kihara Institute for Biological Research Yokohama City UniversityYokohama 244-0813Japan Graduate School of Nanobioscience Yokohama City UniversityYokohama 236-0027Japan School of Information and Data Sciences Nagasaki UniversityNagasaki 852-8521Japan Department of Crop Sciences University of IllinoisUrbanaIL 61801USA Microalgae Production Control Technology Laboratory RIKEN Baton Zone ProgramRIKEN Cluster for ScienceTechnology and Innovation HubYokohama 230-0045Japan

Barley(Hordeum vulgare ***)is one of the first crops to be domesticated and is adapted to a wide range of *** barley germplasm collections possess valuable allelic variations that could further improve barley *** barley genomics has offered a global picture of allelic variation among varieties and its association with various agronomic traits,polymorphisms from East Asian varieties remain *** this study,we analyze exome polymorphisms in a panel of 274 barley varieties collected worldwide,including 137 varieties from East Asian countries and *** reveal the underlying population structure and conduct genome-wide association studies for 10 agronomic ***,we examin genome-wide associations for traits related to grain size such as awn length and glume *** results demonstrate the value of diverse barley germplasm panels containing Eastern varieties,highlighting their distinct genomic signatures relative to Western subpopulations.

关键词： Barley Exome-seq Genome-wide association study(GWAS) Population structure Allelic variation

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Long Short-Term Memory-based Models for Sleep Quality Prediction from Wearable Device Time Series data

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Procedia Computer science 2023年 227卷 1062-1069页

作者： Alam Ahmad Hidayat Arif Budiarto Bens Pardamean Mathematics Department School of Computer Science Bina Nusantara University Jakarta 11480 Indonesia Bioinformatics and Data Science Research Center Bina Nusantara University Jakarta 11480 Indonesia Computer Science Department School of Computer Science Bina Nusantara University Jakarta 11480 Indonesia Computer Science Department BINUS Graduate Program – Master of Computer Science Program Bina Nusantara University Jakarta 11480 Indonesia

Several studies suggest that sleep quality is associated with physical activities. Moreover, deep sleep time can be used to determine the sleep quality of an individual. In this work, we aim to find the association between physical activities and deep sleep time by modeling the time series data such as heart rate and a number of steps captured from a commercial wearable device. Our previous study demonstrates that deep learning-based time series modeling is well suited for our problem since the temporal patterns in the two physical parameters need to be captured to obtain more accurate results. We first preprocess our series data to have a time-step size of 10 minutes. To improve our previous effort in this modeling, we compare four different variants of Long Short-Term Memory (LSTM)-based models, ranging from single input to dual input models. Our result shows that the simple stacked LSTM model performs better for our data because the remaining models suffer from overfitting due to a larger number of the trained parameters.

关键词： deep learning forecasting sleep quality time series wearable devices

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