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Slice-Fusion: Reducing False Positives in Liver Tumor Detection for Mask R-CNN

IEEE/ACM Transactions on Computational Biology and Bioinformatics 2023年第5期20卷 3267-3277页

作者： Tu, Deng-Yao Lin, Peng-Chan Chou, Hsin-Hung Shen, Meng-Ru Hsieh, Sun-Yuan National Cheng Kung University Master Degree Program on Artificial Intelligence Tainan City70101 Taiwan National Cheng Kung University Institute of Medical Informatics Department of Oncology Department of Genomic Medicine National Cheng Kung University Hospital College of Medicine Department of Computer Science and Information Engineering Tainan City70101 Taiwan National Chi Nan University Department of Computer Science and Information Engineering Nantou County54561 Taiwan National Cheng Kung University Graduate Institute of Clinical Medicine Department of Obstetrics and Gynecology Department of Pharmacology National Cheng Kung University Hospital College of Medicine Tainan City70101 Taiwan National Cheng Kung University Institute of Medical Information Institute of Manufacturing Information and Systems Center for Innovative FinTech Business Models International Center for the Scientific Development of Shrimp Aquaculture Department of Computer Science and Information Engineering Tainan City70101 Taiwan

Automatic liver tumor detection from computed tomography (CT) makes clinical examinations more accurate. However, deep learning-based detection algorithms are characterized by high sensitivity and low precision, which hinders diagnosis given that false-positive tumors must first be identified and excluded. These false positives arise because detection models incorrectly identify partial volume artifacts as lesions, which in turn stems from the inability to learn the perihepatic structure from a global perspective. To overcome this limitation, we propose a novel slice-fusion method in which mining the global structural relationship between the tissues in the target CT slices and fusing the features of adjacent slices according to the importance of the tissues. Furthermore, we design a new network based on our slice-fusion method and Mask R-CNN detection model, called Pinpoint-Net. We evaluated proposed model on the Liver Tumor Segmentation Challenge (LiTS) dataset and our liver metastases dataset. Experiments demonstrated that our slice-fusion method not only enhance tumor detection ability via reducing the number of false-positive tumors smaller than 10mm, but also improve segmentation performance. Without bells and whistles, a single Pinpoint-Net showed outstanding performance in liver tumor detection and segmentation on LiTS test dataset compared with other state-of-the-art models. © 2004-2012 IEEE.

关键词： Tumors

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Performance of Information Technology Infrastructure Prediction using Machine Learning

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Procedia computer science 2021年 179卷 515-523页

作者： Ignatius Rahardjo Heruwidagdo Suharjito Novita Hanafiah Yanto Setiawan Computer Science Department Binus Graduate Program-Master in Computer Science Bina Nusantara University Indonesia Computer Science Department BINUS Online Learning Bina Nusantara University Jakarta Indonesia 11480

Resource management is always an important issue related to good governance decision making. One of the common problem faced in managing IT Infrastructure is about allocating server resources to improve the performance. In this study we use a machine learning approach to make predictions about the performance of information technology infrastructure. The experiment took data from several servers in a company to be tested. The performance measure of resources used in this study are CPU Performance, Disk performance, Memory capacity, and Network performance. Several algorithms and machine learning methods are tested, such as Linear Regression, kNN, SVR, Decision Tree and Random Forest, to find the best model fit for the servers. The comparison result shows that Linear regression and kNN perform well in predicting the network performance in those three servers.

关键词： log performance machine learning kNN IT infrastructure performance prediction

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A Hydrodynamic Analysis of Water System in Dadahup Swamp Irrigation Area 1

A Hydrodynamic Analysis of Water System in Dadahup Swamp Irr...

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1st International Conference on computer science and Artificial Intelligence, ICCSAI 2021

作者： Purboseno, Sentot Suparyanto, Teddy Hidayat, Alam Ahmad Pardamean, Bens Institute of Agriculture STIPER Department of Agricultural Engineering Yogyakarta55283 Indonesia Bina Nusantara University Bioinformatics and Data Science Research Center Jakarta11480 Indonesia Bina Nusantara University Bioinformatics and Data Science Research Center BINUS Graduate Program-Master of Computer Science Computer Science Department Jakarta11480 Indonesia

ISBN: (纸本)9781728133331

Dadahup Swamp Irrigation Area (DIR) in Kapuas Regency, Central Kalimantan is developed for agricultural activities to provide food security after the pandemic. The water system consists of various channels, gates, and a flood embankment structure, which is also connected to three different rivers: Barito River, Mangkatif River, and Kapuas Mumpung River. To quantify flood risk assessments in the area, we perform a hydrodynamic analysis using the unsteady flow method via HEC-RAS software version 4.1.0. We use geometrical profiles from topography measurements and the outer boundary of the Dadahup DIR as input for the hydrologic model. Our results estimate the maximum surface water level from both cross and longitudinal sections in the channels and find that several points near the flood embankment area are prone to flood events. Our modeling approach provides a preliminary assessment for the local government to formulate a flood mitigation plan and policy in the area. © 2021 IEEE.

关键词： Rivers

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Data Mining and Bioinformatics Approaches to Elucidate Bacterial Communities in the Extreme Environment

Data Mining and Bioinformatics Approaches to Elucidate Bacte...

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

作者： Joko Pebrianto Trinugroho Alam Ahmad Hidayat Rudi Nirwantono Faisal Asadi Bens Pardamean Bioinformatics and Data Science Research Center Bina Nusantara University Jakarta Indonesia 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 Computer Science Department School of Computer Science Bioinformatics and Data Science Research Center Bina Nusantara University Jakarta Indonesia Computer Science Department BINUS Graduate Program Master of Computer Science Bina Nusantara University Jakarta Indonesia

Bacteria are microscopic organisms that can be found in many environments. They are abundant and have many roles in our life. Studying bacteria is essential so that we can identify the bacteria that are needed for many industrial applications. However, the main problem is that majority of the bacteria are unculturable, hampering the exploration of bacteria from different environments. Metagenomics approach which employs Next Generation Sequencing technology could help study bacteria by utilizing 16S rRNA marker gene. This study aims to demonstrate data mining and bioinformatics approaches to analyze 16S rRNA sequencing data. The raw sequencing data of 16S rRNA was collected from biological database. Then, the data were trimmed, denoised, and clustered to generate Amplicon Sequence Variants (ASVs). Diversity (alpha and beta) and taxonomic analyses were then conducted to elucidate the bacterial diversity and taxonomic profile of ASVs. The results of this work showed that Shannon and PD indices in China's hot spring were higher than Singapore and the USA. Furthermore, a significant difference was observed in the PD index. The unweighted UniFrac distance also showed there was a significant difference of the bacterial communities between the three locations. In addition, the taxonomic investigation unveiled prevalent bacterial groups in the ecosystem, namely Proteobacteria, Chloroflexi, Cyanobacteria, and Crenarchaeota. The research outcomes have the potential to serve as a foundational resource for subsequent bacterial metagenomic research, particularly the hot spring environment.

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Human Activity Classification: A LSTM and MediaPipe Approach for Intelligent Systems Application

Human Activity Classification: A LSTM and MediaPipe Approach...

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International Conference on Control and Robots (ICCR)

作者： Yi-An Chen Pei-Ching Yang Master Degree Program in Information and Design Chang Jung Christian University Tainan Taiwan Department of Computer Science and Information Engineering Chang Jung Christian University Tainan Taiwan Artificial Intelligence Research Center Chang Jung Christian University Tainan Taiwan

ISBN: (数字)9798331518158

ISBN: (纸本)9798331518165

With advancements in artificial intelligence, computer vision technologies have seen significant progress, enabling applications like facial recognition, autonomous driving, and medical imaging. This study leverages the Multi-Camera Action Dataset (MCAD) and MediaPipe Pose to create a skeletal dataset for training a Long Short-Term Memory (LSTM) model to recognize 18 types of daily actions. Evaluation using confusion matrix and F1 score reveals that Action 16 (Object Carry) is often misclassified as Action 7 (Walk) due to similar leg movements, and Action 9 (Cell to Ear) as Action 1 (Wave) due to similar hand movements. Future work aims to enhance model accuracy and explore broader applications in physical activity and exercise analysis.

关键词： Training Legged locomotion Hands computer vision Computational modeling Face recognition Ear Intelligent systems Long short term memory Biomedical imaging

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Web Development of Direct-to-consumer Genetics Testing

Web Development of Direct-to-consumer Genetics Testing

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International Conference on Cybernetics and Intelligent System (ICORIS)

作者： Kians Azizatikarna Deby Erina Parung Dian Amirullah Alam Ahmad Hidayat Tjeng Wawan Cenggoro Arif Budiarto Simon Bens Pardamean Genetics Indonesia Jakarta Indonesia 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: (纸本)9781665453967

As the cost of genetic testing becomes more affordable each year, direct-to-customer (DTC) genetic testing services witness rapid market growth. This has encouraged the development of an easy-to-use website application to optimize potential customers to obtain informed choice regarding the offered DTC genetic testing as well as purchasing information. We present a wireframing process as a part of the agile software development process to build a web portal prototype for an Indonesia-based genetic testing service called DNAku. The approach in building the prototype used in this case is a part of the Agile Software Development Method. In brief, the wireframing stage resulted in this work consists of three main important outcomes. The first one is the use case diagram as a blueprint of this web-based system. A site map is then proposed as an extended version of the use case diagram which visualizes the whole pages with the links. Finally, based on this site map a series of page mock-ups are designed using Hyper Text Marking Language (HTML) and Cascading Style Sheets (CSS). The result of the prototype can be used as the basis for the next development stage, which is the coding stage based on the collected feedback from users. Considering the continuous application development via the wireframing method by taking into account the cycle of feedbacks from involved parties, this approach can strengthen the infrastructure to sustain DTC genetic business model, which has a niche market in Indonesia.

关键词： Visualization Costs Buildings Prototypes Agile software development Genetics Encoding

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South jakarta's air quality using PM 2.5 data at the beginning of COVID-19 Restriction 6

South jakarta's air quality using PM 2.5 data at the beginni...

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6th International Conference on Information Management and Technology, ICIMTech 2021

作者： Rahutomo, Reza Purwandari, Kartika Hidayat, Alam Ahmad Pardamean, Bens Bina Nusantara University School of Information Systems Information System Department Jakarta11480 Indonesia Bina Nusantara University Bioinformatics and Data Science Research Center Jakarta11480 Indonesia Bina Nusantara University BINUS Graduate Program - Master of Computer Science Computer Science Department Jakarta11480 Indonesia

ISBN: (纸本)9781665449373

As soon as the lockdown was established in Jakarta, Indonesia, people experienced a change in Jakarta's air quality. This research was conducted to answer several challenges such as: where to find Indonesia's air quality open data platforms, how to handle the acquired data with SQL technology, and how to validate whether the air quality of Jakarta was significantly changed from a period to another or not. With particulate matter 2.5 (PM 2.5) data acquired by The United States Diplomatic Post in South Jakarta, a data visualization was generated to describe the fluctuation of PM 2.5 from February 29th to June 29th. By conducting a two-sample t-test, a significant change in South Jakarta's air quality was revealed. The test concluded that South Jakarta's air quality got worse even after a lockdown was established. © 2021 IEEE.

关键词： COVID-19

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Lockdown strategy worth lives: The SEIRD modelling in COVID-19 outbreak in Indonesia 2

Lockdown strategy worth lives: The SEIRD modelling in COVID-...

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2nd International Conference on Biospheric Harmony Advanced Research, ICOBAR 2020

作者： Nurlaila, I. Hidayat, A.A. Pardamean, B. Information Systems Department BINUS Online Learning Bina Nusantara University Jakarta11480 Indonesia Bioinformatics and Data Science Research Center Bina Nusantara University Jakarta11480 Indonesia Computer Science Department BINUS Graduate Program-Master of Computer Science Bina Nusantara University Jakarta11480 Indonesia

Lockdowns, despite their conflicting restrictions and consequences they might offer when enforced as a national strategy, are deemed to be suggestive for a prompt conquer to the Coronavirus Disease-19 (COVID-19) outbreak. There have been some success stories such as in China, South Korea and our ASEAN member fellow, Vietnam, which exhibited extremely fallen numbers of COVID-19 cases post the enforcement of lockdown. Indonesia, however, remains in the crux of dispute whether or not the lockdown is opted to force COVID-19 transmission down under control. We, in this respect, employ the most popular model which has been broadly applied in the field of epidemiology, referred to as SEIRD (Susceptible, Exposed, Infectious, Recovered, and Death), the extension form of an age-structured SEIR, where the Death (D) is included to provide more factual situation. We modify the I (Infectious) fraction as symp-tomatic (Is) and asymptomatic (Ia) infectives. There are three lockdown scenarios simulated in our modified SEIRD with the starting date are 26 April 2020 when the immediate lockdown was enacted-and a-week and two-week-gaps, respectively. We figured out that by stipulating the lockdown without delay (26 April 2020), the new cases could be kept below 10,000. A week delay escalates case number to 5,000 and delay for one more week results in beyond 20,000 new cases. Furthermore, when the intervention is delayed following the delayed lockdown, normalization would demand a longer period within which dealing with more critical and dying patients is unavoidable and should be more anticipated. © Published under licence by IOP Publishing Ltd.

关键词： Coronavirus

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Information system design on tobacco addiction measurement protocol for smokers 6

Information system design on tobacco addiction measurement p...

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6th International Conference on Information Management and Technology, ICIMTech 2021

作者： Mahesworo, Bharuno Budiarto, Arif Parung, Deby Erina Amirulloh, Dian Simon, Simon Pardamean, Bens Bina Nusantara University School of Computer Science Statistics Department Jakarta11480 Indonesia Bina Nusantara University School of Computer Science Computer Science Department Jakarta11480 Indonesia Genetics Indonesia Product Department Jakarta Indonesia Genetics Indonesia Laboratory Department Jakarta Indonesia Board of Director Genetics Indonesia Jakarta Indonesia Bina Nusantara University BINUS Graduate Program - Master of Computer Science Computer Science Department Jakarta11480 Indonesia

ISBN: (纸本)9781665449373

Smoking habits in Indonesia has become a national health burden despite their huge contribution to national economics. With easy access to inexpensive cigarettes in Indonesia, the percentage of teenage smokers in Indonesia is very high. More than 70% of these smokers have tried to quit, but only approximately 5% have succeeded. These facts show the importance of developing precision stop smoking treatments. We proposed an information system design of smoking measurement questionnaire that is able to describe the characteristic differences between smokers and former smokers. This information system design was implemented in genetic service company's web-based application and is expected to help us extract the necessary variables to help us finding biomarkers associated with smoking cessation in our future study. The information system design has been developed by combining and modifying questionnaires from previous studies. The focus is on strategic variables and the compactness of the questionnaire, and it can be used by other researchers to describe the smoking dependency of their samples. The information system design has been tested on pilot respondents/customers and shows results that meet our expectations. © 2021 IEEE.

关键词： Tobacco

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Revisiting Fuel Subsidies in Indonesia using K-Means, PAM, and CLARA

IAENG International Journal of Computer Science

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IAENG International Journal of computer science 2023年第3期50卷 858页

作者： Prasetyo, Fajar Agung Caraka, Rezzy Eko Kim, Yunho Goldameir, Noor Ell Sulistyowati Tyasti, Avia Enggar Gio, Prana Ugiana Anggoro, Faisal Ramadhani, Muthia Pardamean, Bens Faculty of Economics and Business Universitas Indonesia Indonesia Indonesia Department of Mathematics Ulsan National Institute of Science and Technology Korea Republic of Department of Mathematics Statistics Study Program Riau University Riau Pekanbaru Indonesia Institut Teknologi Adhi Tama Surabaya East Java Indonesia International Trade of ASEAN and RRT Region Polytechnic of APP DKI Jakarta Indonesia Department of Mathematics Universitas Sumatera Utara Medan20155 Indonesia Computer Science Department BINUS Graduate Program - Master of Computer Science Program Bina Nusantara University Jakarta Indonesia

Indonesia is one of the countries in the world that still applies subsidies for fuel oil. By the law, the Indonesian government must ensure the supply and distribution of fuel for all Indonesian people. To implement this policy properly, understanding the pattern of fuel consumption is fundamental. In this study, clustering will be used to determine the categories of districts and cities based on subsidized fuel consumption patterns. Our research used several methods to compare which cluster method is the most optimal;the methods include k-means, Partitioning Around Medoids (PAM), and Clustering Large Applications (CLARA). The results show that k-means is the best clustering method with the highest Dunn index and Silhouette coefficient compared to others. The optimum cluster number we get is two and represents fuel consumption from several districts and cities. Some districts and cities had under-average consumption and needed to be monitored. © (2023), (International Association of Engineers). All Rights Reserved.

关键词： K-means clustering

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