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3D Transfer Learning for Lung Nodule Malignancy Binary Classification

3D Transfer Learning for Lung Nodule Malignancy Binary Class...

引用

Computer sciences, Engineering, and Technology Innovation (ICoCSETI), International Conference on

作者： Nur Adhianti Heryanto Mahmud Isnan Matthew Martianus Henry Bens Pardamean Bioinformatics and Data Science Research Center Bina Nusantara University Jakarta Indonesia Computer Science Department School of Computer Science Bina Nusantara University Jakarta Indonesia Computer Science Department BINUS Graduate Program – Master of Computer Science Bina Nusantara University Jakarta Indonesia

ISBN: (数字)9798331508616

ISBN: (纸本)9798331508623

Many studies have focused on classifying lung nodules in CT scans, primarily utilizing 2D approaches. However, CT scans are inherently 3D representations, which presents challenges for traditional convolutional neural networks (CNNs) designed for 2D images. In this work, a novel combination of 3D transfer learning and batch oversampling was adopted to classify benign and malignant lung nodules using the Lung Nodule Analysis - Intelligent Systems in Medical Imaging (LUNA22-ISMI) dataset. The preprocessing pipeline consisted of excluding indeterminate labeled nodules, clamping patches to the lung window, extracting nodule regions based on diameter, and applying z-score normalization. Batch oversampling with augmentation was implemented for the training set. Multiple models pre-trained on ImageNet with weights adapted for 3D were evaluated using a five-fold cross-validation setup. Notably, EfficientNetB1 achieved the highest overall and balanced metrics on the test sets, surpassing 90% in sensitivity, specificity, precision, and accuracy, highlighting its potential for binary classification of lung nodules. https://***/nheryanto/luna22

关键词： Training Solid modeling Adaptation models Three-dimensional displays Lungs Computed tomography Transfer learning Windows Cancer Biomedical imaging

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Automatic Smart Crawling on Twitter for Weather Information in Indonesia 8

Automatic Smart Crawling on Twitter for Weather Information ...

引用

8th International Conference on Computer science and Computational Intelligence, ICCSCI 2023

作者： Purwandari, Kartika Perdana, Reza Bayu Sigalingging, Join W.C. Rahutomo, Reza Pardamean, Bens Bioinformatics and Data Science Research Center Bina Nusantara University Jakarta11480 Indonesia Database Center Division of BMKG Meteorological Climatological and Geophysical Agency Jakarta10720 Indonesia Information Systems Department School of Information Systems Bina Nusantara University Jakarta11480 Indonesia Computer Science Department BINUS Graduate Program - Master of Computer Science Bina Nusantara University Jakarta11480 Indonesia

Although Twitter is a popular platform for social interaction analysis and text data mining, it faces challenges with geolocation automation. To address this problem, the researchers propose the utilization of a Support Vector Machine (SVM) model to develop an automated Twitter crawling system. The system aims to collect data related to weather in Indonesia by employing Twin, a Python-based Twitter scraping software. To overcome null geolocations, the study incorporates aliases created based on the common practice of Indonesian users mentioning the country's location in tweets. The results demonstrate that the SVM model, combined with automated smart crawling, achieves an 85% accuracy rate. © 2023 The Authors. Published by Elsevier B.V.

关键词： smart crawling Social media SVM Twitter weather

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Identifying Prognostic Markers of Non-small Cell Lung Carcinoma Using Bioinformatics

Identifying Prognostic Markers of Non-small Cell Lung Carcin...

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International Conference on Industrial Instrumentation and Control,ICI2C 2021

作者： Khan, Siladitya Chakraborty, Debamitra Department of Biomedical Engineering University of Rochester RochesterNY14627 United States Goergen Institute for Data Science University of Rochester RochesterNY14627 United States Materials Science Graduate Program University of Rochester RochesterNY14627 United States

ISBN: (纸本)9789811670107

We present a transcriptomics pipeline for performing the functional analysis of array expression profiling data of normal and adenocarcinoma lung tissue. Our aims are twofold, firstly to elucidate molecular processes that transform normal tissue, to a lung adenocarcinoma. Following this, we perform functional analysis to screen potential hub genes and demonstrate their value in cancer prognosis. Analysis was performed on a total of 500 differentially expressed genes (DEG), screened for their regulation and transcriptional modulation in a female population carrying non–small cell lung carcinoma (NSCLC). Key pathways like cytokine-cytokine receptors, ECM receptor interactions, and TNF signaling were identified suggesting a potential role in lung tumorigenesis. © 2022, The Author(s), under exclusive license to Springer Nature Singapore Pte Ltd.

关键词： Bioinformatics

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IoT for Water Quality Categorization 5

IoT for Water Quality Categorization

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5th International Conference on Cybernetics and Intelligent Systems, ICORIS 2023

作者： Sastrohartono, Hermantoro Krisdiarto, Andreas Wahyu Uktoro, Arief Ika Rahutomo, Reza Suparyanto, Teddy Pardamean, Bens Institute of Agriculture Stiper Faculty of Agricultural Technology Agricultural Engineering Department Yogyakarta Indonesia Bina Nusantara University School of Information Systems Information System Department Jakarta11480 Indonesia Bina Nusantara University Bioinformatics & Data Science Research Center Jakarta11480 Indonesia Bina Nusantara University Binus Graduate Program Master of Computer Science Computer Science Department Jakarta11480 Indonesia

ISBN: (纸本)9798350369489

In agricultural water research, the adoption of Internet of Things (IoT) technology has emerged as a pivotal approach for large-scale data collection. Water availability in the context of water quality is very important, both for domestic and industrial purposes. For domestic purposes, drinking water and bathing water are separated. Meanwhile, for the palm oil industry, boiler filler is differentiated from additional process water (dilution water). Water quality parameters can be assessed from turbidity and Total Dissolve Solid (TDS). Measurements using measuring instruments separately and repeatedly require significant energy, time, and costs. This research was conducted with the primary objective of presenting a novel method for categorizing water quality with the approach of IoT sensor technology. The research methodology entailed the utilization of an integrated IoT water sensors system in conjunction with manual water categorization. The methods consist of (1) system design, (2) design and installation of sensor and IoT-based microcontrollers, and (3) accuracy and precision testing compared with laboratory measurements. The precision of the integrated IoT water sensors was assessed through a dedicated sensor precision test, resulting in an accuracy rate of 94.4% for the turbidity sensor and 97.5% for the TDS sensor. Notably, this approach successfully discriminated drinking water with valid categorization, while other water types, including groundwater, water with tea, and water with coffee, yielded null categorization results. © 2023 IEEE.

关键词： Internet of things

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Constructing a Segmentation Model for Patients with Leukoaraiosis Using Deep Learning Algorithms 24

Constructing a Segmentation Model for Patients with Leukoara...

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

作者： Lo, Li-Ting Tsai, Yi-Chia Chang, Yi-Jou Ting, Hsien-Wei Chien, Ting-Ying Department of Computer Science and Engineering Yuan Ze University Taoyuan City Taiwan Graduate Program in Biomedical Informatics Yuan Ze University Taoyuan City Taiwan Department of Neurosurgery Taipei Hospital Ministry of Health and Welfare New Taipei City242 Taiwan Innovation Center for Big Data and Digital Convergence Yuan Ze University Taoyuan City Taiwan

ISBN: (纸本)9798400716874

Many patients with leukoaraiosis (LA) exhibit mild and difficult-to-detect symptoms in the early stages, and due to the lack of effective detection methods, the optimal timing for treatment is often missed. This not only makes later treatment more difficult but, in severe cases, can even lead to mild to severe dementia. Therefore, in addition to relying on radiologists to manually interpret magnetic resonance imaging (MRI) scans, finding more effective detection methods has become extremely urgent. This study aimed to combine image processing and deep learning technologies to develop a model capable of accurately identifying and segmenting white matter hyperintensities (WMHs) to assist doctors in the early diagnosis of LA. We first performed efficient preprocessing on MR image slices from two different series and used the ResNet18 model to identify key slices containing WMHs, ultimately achieving precise segmentation of WMH areas with the U-Net model. This research focused on developing innovative preprocessing techniques, improving the accuracy by 12.3% with a limited dataset through preprocessing. Ultimately, the ResNet18 model achieved an F1 score of 0.829, while the U-Net model’s intersection over union (IoU) and Dice coefficient reached 0.750 and 0.857, respectively, showing the potential of this architecture. We propose improvements in the final chapter to construct a more comprehensive model. © 2024 Copyright ACM.

关键词： Deep learning

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Base on GAN Combined with CNN Architecture to Generate Brain Stroke CT Images 24

Base on GAN Combined with CNN Architecture to Generate Brain...

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

作者： Shih, Guan-Yu Ting, Hsien-Wei Chen, Yi-Xiang Chien, Ting-Ying Department of Computer Science and Engineering Yuan Ze University Taoyuan City Taiwan Graduate Program inBiomedical Informatics Yuan Ze University Taoyuan City Taiwan Department of Neurosurgery Taipei Hospital Ministry of Health and Welfare New Taipei City242 Taiwan Innovation Center for Big Data and Digital Convergence Yuan Ze University Taoyuan City Taiwan

ISBN: (纸本)9798400716874

In recent years, many fields have expanded their research methods through the integration of artificial intelligence. In the current medical field, it is widely used in image recognition to diagnose patient symptoms, train clinical prediction models, and improve clinical workflow processes to avoid missing treatment opportunities. These methods have all achieved good results so far. Now, generative AI is also impacting the development of the medical field, not only generating prescriptions that match patient conditions but also being applied in generating medical images for data augmentation and simulating various pathological conditions, thereby aiding in training deep learning models. Stroke is a leading cause of death or disability, ranking as the second leading cause of death worldwide, next to cancer. If cancers were categorized individually, stroke would surpass all single diseases, making it a primary focus of research in brain disease treatment. There are already studies where generative AI has been used to create medical images, which are then manually evaluated by doctors to determine if they were generated by AI. In this project, we plan to generate CT images of strokes using generative AI and use a trained model (to diagnose stroke) to improve accuracy. Through this project, we hope to solve the problem of scarce stroke CT images while also providing support for training stroke-related models. © 2024 Copyright ACM.

关键词： Deep learning

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Pap Smear Medical Image Classification Using Deep Learning: A Systematic Review

Pap Smear Medical Image Classification Using Deep Learning: ...

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International Conference of Computer and Informatics Engineering (IC2IE)

作者： Elvan Selvano Gregorius Natanael Elwirehardja Bens Pardamean Computer Science Department BINUS Graduate Program - Master of Computer Science Bina Nusantara University Jakarta Indonesia Bioinformatics and Data Science Research Center Bina Nusantara University Jakarta Indonesia

Cervical cancer has been known as one of the most prevalent medical disorders globally and a leading cause of death. Early detection, particularly through Pap tests, plays a vital role in its prevention. Previous studies have leveraged machine learning and deep learning techniques to classify the medical images obtained from Pap tests. In this study, a Systematic Literature Review methodology was used to examine 15 relevant papers that have been filtered from queries to Google Scholar which have gone through 4 stages of filtering that include: identification, screening, eligibility, and inclusion. This study addresses two research questions regarding the datasets and deep learning techniques for classifying pap smear images in recent years. The performance of the models was analyzed and potential areas for improvements are suggested. The findings of this study reveal that the Herlev University Hospital and SIPaKMed datasets are the most used. The methodologies used by researchers range from machine learning techniques, transfer learning using Convolutional Neural Networks, and utilize state-of-the-art models with novel optimizing methodology. While there are exciting opportunities in the field, challenges include model generalization and interpretability.

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A Systematic Literature Review of CNN Approaches in Classifying Brain Tumor

A Systematic Literature Review of CNN Approaches in Classify...

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International Conference of Computer and Informatics Engineering (IC2IE)

作者： Aedentrisa Yasmanda Paulindino Bens Pardamean Gregorius Natanael Elwirehardja Computer Science Department BINUS Graduate Program - Master of Computer Science Bina Nusantara University Jakarta Indonesia Bioinformatics and Data Science Research Center Bina Nusantara University Jakarta Indonesia

The ability of Convolutional Neural Networks (CNNs) to accurately discriminate between normal and tumorous brain tissues has been promising. The review focuses on the different CNN models, pre-processing methods, data augmentation, and Transfer Learning (TL) strategies used in this research. This Systematic Literature Review (SLR) collected the data from Google Scholar. The results of this study indicate that open-source datasets from Kaggle and Brain MRI Images for Brain Tumor Detection are the most used datasets. However, limited data and imbalanced class problems remain common challenges across various datasets. To overcome those challenges, using a larger dataset, oversampling, Generative Adversarial Network (GAN), federated learning, and Self-Supervised Learning (SSL) to handle the imbalance are the potential solution. Additionally, popular CNN architectures for brain tumor classification extensively use pre-trained models such as VGG16, VGG19, DenseNet121, DenseNet201, GoogleNet, ResNet-50, and Inception-v3. TL strategies are preferred, allowing CNNs to leverage knowledge from large datasets, improving generalization even with limited labeled data.

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Constructing an Automated Method for Interpreting Alzheimer’s Disease Based on Deep Learning Models and Image Processing 24

Constructing an Automated Method for Interpreting Alzheimer...

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

作者： Yi, Chia-Pin Ting, Hsien-Wei Yang, Tzu-Fang Chien, Ting-Ying Department of Computer Science and Engineering Yuan Ze University Taoyuan City Taiwan Department of Neurosurgery Taipei Hospital Ministry of Health and Welfare New Taipei City242 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

Alzheimer’s disease (AD) often presents only mild symptoms in its early stages, and as there is no direct diagnostic method currently available, many patients are diagnosed only after the condition has worsened. Considering that magnetic resonance imaging (MRI) can provide key information in the diagnosis of AD, but the condition may go undiagnosed under manual interpretation due to the subtleness of symptoms and the reliance on radiologists to interpret MRI images, this study aimed to develop an automated method for interpreting brain MR images, hoping to screen for potential AD patients. By combining image processing, the U-Net model, YOLOv8 model, various CNN model architectures, and ensemble data statistics, our method was able to identify features related to AD and predict whether a patient has the disease. Our method can process a complete set of MR images and automatically extract important slices for prediction, making it practical for medical applications. Furthermore, we tested the accuracy and reliability of the method with additional datasets. © 2024 Copyright ACM.

关键词： Magnetic resonance imaging

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

A Systematic Literature Review of Deep Learning Application ...

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International Conference of Computer and Informatics Engineering (IC2IE)

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

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.

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