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

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

ISBN: (纸本)9781665449373

The popularity of social media amplified the amount of text data that is used to enrich text classification research with machine learning approach. The modernization in weather information system is needed to produce real-time weather information using the involvement of Twitter users. GetOldTweets was used to cover data acquisition from Twitter. Support Vector Machine (SVM) was deployed as a machine learning model for text classification. The result was delivered in Esri Maps features. It facilitated a social sensing for Indonesia weather information system by using Twitter posts from Indonesian users with 93% accuracy. © 2021 IEEE.

关键词： data acquisition

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Maintaining the Quality and Aroma of Coffee with Fuzzy Logic Coffee Roasting Machine 3

Maintaining the Quality and Aroma of Coffee with Fuzzy Logic...

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3rd International Conference on Eco Engineering Development, ICEED 2019

作者： Harsawardana Samodro, Bayu Mahesworo, Bharuno Suparyanto, Teddy Surya Atmaja, Don Bosco Pardamean, Bens Institut Pertanian STIPER Yogyakarta55281 Indonesia Mechatronics and AI Research and Development Center Biotechnic Innovation Yogyakarta55281 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

With the increasing global demands of coffee, Indonesia need to increase their coffee beans supply and improve the quality to maintain its position in the international coffee industry. One of the most important coffeepre-processing, coffee bean roasting, is under developed in Indonesia. Indonesia coffee farmers prefer to use the traditional cauldron to roast their coffee beans. Roasting coffee beans using traditional cauldron is inefficient and resulting unequal roasted level for the coffee beans. In this study, we proposed atemperature control system based on fuzzy logic for coffee roaster machine. The system controls the temperature in accordance with the demanded roasting level. A thermal camera is attached inside the roasting chamber to monitor the heaton the roasted coffee beans. The thermal camera is integrated with a stirring mechanism to equalise the heat among the beans. © 2020 Published under licence by IOP Publishing Ltd.

关键词： Fuzzy logic

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Comparative Analysis of CNN Models for Multiclass Detection on Colon Disease 9

Comparative Analysis of CNN Models for Multiclass Detection ...

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9th International Conference on Information Technology and Digital Applications, ICITDA 2024

作者： Sulistyawan, Jason Sebastian Nugroho, Kuncahyo Setyo Isnan, Mahmud Pardamean, Bens Binus Graduate Program Bina Nusantara University Computer Science Department Jakarta11480 Indonesia Bioinformatics and Data Science Research Center Bina Nusantara University Jakarta11480 Indonesia School of Computer Science Bina Nusantara University Computer Science Department Jakarta11480 Indonesia

ISBN: (纸本)9798331510732

Gastrointestinal diseases are significant health concerns that mostly affect the digestive and biliary tracts. These can only be observed internally through endoscopy, or a modern approach named Wireless Capsule Endoscopy. Though the approach has proven to work, the process relies heavily on medical experts, which is prone to error when given a considerably large load. The use of deep learning in detecting diseases with images has been proven to work in various cases and can be implemented for gastrointestinal diseases. This study compared four deep learning models based on Convolutional Neural Network architectures consisting of the VGG16, ResNet152V2, InceptionV3, and Xception for classifying colon disease images. The experiment showed that the ResNet152V2 performed the best, compared to the other three with a testing accuracy score of 0.9837. On the other hand, the VGG16 had the lowest performance with around accuracy score of 0.89 while the Xception and InceptionV3models yielded similar accuracy scores of 0.9587 and 0.9549, respectively. The results highlight the effectiveness of ResNet152V2 in handling the complexity of colon disease detection © 2024 IEEE.

关键词： Convolutional neural networks

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Automatic question generation for bahasa indonesia examination using copynet 9th

Automatic question generation for bahasa indonesia examinati...

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

作者： Henry, Matthew Martianus Elwirehardja, Gregorius Natanael Pardamean, Bens Bioinformatics and Data Science Research Center Bina Nusantara University Jakarta11480 Indonesia Computer Science Department School of Computer Science Bina Nusantara University Jakarta11480 Indonesia Computer Science Department BINUS Graduate Program Bina Nusantara University Jakarta11480 Indonesia

In educational institutions, an educator is responsible for assessing the student's knowledge grasp through examination. Creating exam questions, even the low-level factoid questions, is time-consuming, especially for inexperienced educators. Therefore, this study aims to create a sequence-to-sequence model using CopyNet by exploiting its copying mechanism advantage to automatically generate Bahasa Indonesia factoid questions to ease the educator's burden. Indonesian records in the TyDi QA dataset are used as the model input. GRU and Bi-GRU are employed as the CopyNet encoder, while LSTM is used as the CopyNet decoder. The model that utilizes GRU as the encoder achieves BLEU1, BLEU2, BLEU3, BLEU4, and ROUGE-L scores of 0.28, 0.19, 0.14, 0.1, and 0.32, respectively. Bi-GRU utilization as the model encoder achieves BLEU1, BLEU2, BLEU3, BLEU4, and ROUGE-L scores of 0.26, 0.17, 0.12, 0.09, and 0.30, respectively. Models using either encoder still achieve low scores. However, compared with the previous work, the result is still on par regarding the BLEU score. Further examination found that the generated questions do not adhere to semantic and syntactical correctness. Adding more records to the dataset and utilizing a more advanced architecture like CopyBERT are encouraged to improve the model performance in future work. Despite the result, this study has shown that CopyNet, primarily designed for text summarization or single-turn dialogue, can be tailored for factoid question generation. © 2024 The Authors.

关键词： Semantics

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Automatic Multiple Choice Question Generation: A Systematic Literature Review 9

Automatic Multiple Choice Question Generation: A Systematic ...

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9th International Conference on Information Technology and Digital Applications, ICITDA 2024

作者： Henry, Matthew Martianus Heryanto, Nur Adhianti Isnan, Mahmud Nugroho, Kuncahyo Setyo Pardamean, Bens Bina Nusantara University Bioinformatics and Data Science Research Center Jakarta11480 Indonesia School of Computer Science Bina Nusantara University Computer Science Department Jakarta11480 Indonesia Bina Nusantara University Binus Graduate Program Computer Science Department Jakarta11480 Indonesia

ISBN: (纸本)9798331510732

Despite their drawbacks, multiple-choice questions (MCQ) have been widely used to assess the students' understanding of lectures through examinations. The development of automatic MCQ generation is beneficial, especially for educators. As a starting point for further development, a Systematic Literature Review (SLR) is conducted to uncover current trends, future challenges, and opportunities in automatic MCQ generation. Previously, an SLR was conducted, but it lacks coverage of the utilization of transformer-based models. This SLR covers the development of automatic MCQ generation using either traditional or advanced approaches such as Transformers. The Preferred Reporting Items for Systematic Reviews and Meta-Analyses framework was used to gather the data from Scopus, IEEE Xplore, SpringerLink, arXiv, and Semantic Scholar. The included articles must be open-access computer science conference papers or journal articles and written in English less than five years ago. Four independent reviewers analyzed the research workflow, evaluation metric, and dataset used in each study. There are 18 included studies, where 17% (n = 3) studies are from 2024, 33% (n = 6) studies are from 2023, 22% (n = 4) studies are from 2022, 11% (n = 2) studies are from 2021, and 17% (n = 3) studies are from 2020. There are 33% (n = 6) of the studies used the traditional feature-based engineering approach, 39% (n = 7) of the studies used the Transformer-based model fine-tuning approach, and the remaining used novel approaches. The study found that BERT variants are the most utilized Transformer-based model in automatic MCQ. The research notes some challenges, but also open various opportunities for further research, including Large Language Model (LLM) utilization for automatic MCQ generation, the utilization BERT-based models for standardized machine-learned evaluation metrics, and the initiative for the creation of an MCQ dataset benchmark. © 2024 IEEE.

关键词： Semantics

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Development of artificial intelligence for variable rate application based oil palm fertilization recommendation system 6

Development of artificial intelligence for variable rate app...

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

作者： Firmansyah, Erick Pardamean, Bens Ginting, Candra Mawandha, Hangger Gahara Pratama Putra, Dian Suparyanto, Teddy Institute of Agriculture STIPER Faculty of Agriculture Yogyakarta55282 Indonesia Bina Nusantara University Bioinformatics and Data Science Research Center Jakarta11480 Indonesia Institute of Agriculture STIPER Faculty of Agriculture Yogyakarta55282 Indonesia

ISBN: (纸本)9781665449373

The need for fertilization knowledge that meets good cultivation principles is the background for the need for a platform that can help provide advice on fertilization implementation. The conventional method through leaf and soil analysis to determine the dose of fertilization has many obstacles in its implementation. The availability of experts to provide advice is also not available at all times. One way to transfer knowledge to non-experts is to use Artificial Intelligence (AI) in the form of a dynamic expert system. The purpose of this research is to create a dynamic expert system that can provide advice and apply fertilization quickly, cheaply, accurately, and available at all times. In building this AI system, a knowledge base, working memory, inference engine, and interface are needed. The implementation of dynamic expert system development consists of four stages, namely (1) literature study, (2) laboratory analysis, (3) construction of an inference engine, and (4) interface creation. Based on the literature study that has been carried out, it is known that there are three domains of knowledge of oil palm fertilization, namely the domain of soil, plants and climate. Each of these knowledge domains consists of attributes, sub-attributes, and facts of knowledge which are then arranged in the form of mathematical rules. The relationship between the three knowledge domains is used as the basis for making fertilization rules. The result of this research is an application with Artificial Intelligence to provide information on nutritional needs according to plant age, population, production, land area and location. The application provides recommendations for the type, frequency, amount of fertilizer, and time of application. © 2021 IEEE.

关键词： Inference engines

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Standard Multi-Layer Perceptron on Positive - Unlabeled Glycosylation Site dataset 8

Standard Multi-Layer Perceptron on Positive - Unlabeled Glyc...

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

作者： Mahesworo, Bharuno Cenggoro, Tjeng Wawan Lumbanraja, Favorisen Rosyking Pardamean, Bens Statistics Department School of Computer Science Bina Nusantara University Indonesia Bioinformatics Data Science Research Center Bina Nusantara University Indonesia Computer Science Department School of Computer Science Bina Nusantara University Indonesia Computer Science Department School of Matematics and Natural Science University of Lampung Indonesia

The implementation of computational approaches for protein glycosylation site prediction is becoming popular since the experimental-validated glycosylation data became more abundant. Some of the data were found to be wrong after the experiment was again carried out with more sophisticated technology. To solve this issue, the latest state-of-the-art model trained the model based on a positive-unlabelled algorithm. The aim of this research is to explore the possibility of an approach applying a simple neural network algorithm and still achieve high classification performance. The model proposed in this research gave competitive results with fewer preprocessing steps. Increasing the accuracy of glycosylation site prediction can complement laboratory-based methods and is very useful for understanding the role of glycosylation. © 2023 The Authors. Published by Elsevier B.V.

关键词： Glycosylation PTM Site Prediction Standard Multi-Layer Perceptron

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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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Genomic and phenotypic correlates of mosaic loss of chromosome Y in blood

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American Journal of Human Genetics 2025年第2期112卷 276-290页

作者： Jakubek, Yasminka A. Ma, Xiaolong Stilp, Adrienne M. Yu, Fulong Bacon, Jason Wong, Justin W. Aguet, Francois Ardlie, Kristin Arnett, Donna K. Barnes, Kathleen Bis, Joshua C. Blackwell, Tom Becker, Lewis C. Boerwinkle, Eric Bowler, Russell P. Budoff, Matthew J. Carson, April P. Chen, Jiawen Cho, Michael H. Coresh, Josef Cox, Nancy J. de Vries, Paul S. DeMeo, Dawn L. Fardo, David W. Fornage, Myriam Guo, Xiuqing Hall, Michael E. Heard-Costa, Nancy Hidalgo, Bertha Irvin, Marguerite Ryan Johnson, Andrew D. Jorgenson, Eric Kenny, Eimear E. Kessler, Michael D. Levy, Daniel Li, Yun Lima, Joao A.C. Liu, Yongmei Locke, Adam E. Loos, Ruth J.F. Machiela, Mitchell J. Mathias, Rasika A. Mitchell, Braxton D. Murabito, Joanne M. Mychaleckyj, Josyf C. North, Kari E. Orchard, Peter Parker, Stephen C.J. Pershad, Yash Peyser, Patricia A. Pratte, Katherine A. Psaty, Bruce M. Raffield, Laura M. Redline, Susan Rich, Stephen S. Rotter, Jerome I. Shah, Sanjiv J. Smith, Jennifer A. Smith, Aaron P. Smith, Albert Taub, Margaret A. Tiwari, Hemant K. Tracy, Russell Tuftin, Bjoernar Bick, Alexander G. Sankaran, Vijay G. Reiner, Alexander P. Scheet, Paul Auer, Paul L. Department of Internal Medicine University of Kentucky Lexington KY United States Division of Biostatistics Data Science Institute Medical College of Wisconsin Milwaukee WI United States Department of Biostatistics University of Washington Seattle WA United States Division of Hematology/Oncology Boston Children's Hospital Harvard Medical School Boston MA United States Department of Pediatric Oncology Dana-Farber Cancer Institute Harvard Medical School Boston MA United States Broad Institute of MIT and Harvard Cambridge MA United States GMU-GIBH Joint School of Life Sciences The Guangdong-Hong Kong-Macau Joint Laboratory for Cell Fate Regulation and Diseases Guangzhou National Laboratory Guangzhou Medical University Guangzhou China Department of Computer Science Department of Biological Sciences University of Wisconsin Milwaukee Milwaukee WI United States Department of Epidemiology University of Texas MD Anderson Cancer Center Houston TX United States Broad Institute Cambridge MA United States University of South Carolina Columbia SC United States Division of Biomedical Informatics and Personalized Medicine School of Medicine School of Medicine University of Colorado Anschutz Medical Campus Aurora CO United States Cardiovascular Health Research Unit Department of Medicine University of Washington Seattle WA United States Department of Biostatistics University of Michigan Ann Arbor MI United States Department of Medicine Division of Cardiology Johns Hopkins Hospital Johns Hopkins University of Medicine Baltimore MD United States Human Genetics Center Department of Epidemiology School of Public Health The University of Texas Health Science Center at Houston Houston TX United States Department of Medicine National Jewish Health Denver CO United States Department of Medicine Division of Cardiology The Lundquist Institute for Biomedical Innovation at Harbor-UCLA Medical Center Torrance CA United States Department of Medicine University of

Mosaic loss of Y (mLOY) is the most common somatic chromosomal alteration detected in human blood. The presence of mLOY is associated with altered blood cell counts and increased risk of Alzheimer disease, solid tumors, and other age-related diseases. We sought to gain a better understanding of genetic drivers and associated phenotypes of mLOY through analyses of whole-genome sequencing (WGS) of a large set of genetically diverse males from the Trans-Omics for Precision Medicine (TOPMed) program. We show that haplotype-based calling methods can be used with WGS data to successfully identify mLOY events. This approach enabled us to identify differences in mLOY frequencies across populations defined by genetic similarity, revealing a higher frequency of mLOY in the European (EUR) ancestry group compared to other ancestries. We identify multiple loci associated with mLOY susceptibility and show that subsets of human hematopoietic stem cells are enriched for the activity of mLOY susceptibility variants. Finally, we found that certain alleles on chromosome Y are more likely to be lost than others in detectable mLOY clones. © 2024 The Author(s)

关键词： GWAS mosaic loss of chromosome Y multi-ancestry

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Hybrid support vector regression in electric load during national holiday season

Hybrid support vector regression in electric load during nat...

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2017 International Conference on Innovative and Creative Information Technology: Computational Intelligence and IoT, ICITech 2017

作者： Caraka, Rezzy Eko Bakar, Sakhinah Abu Pardamean, Bens Budiarto, Arif School of Mathematical Sciences Faculty of Science and Technology National University of Malaysia Malaysia 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

ISBN: (纸本)9781538640456

This paper studies non-parametric time-series approach to electric load in national holiday seasons based on historical hourly data in state electric company of Indonesia consisting of historical data of the Northern Sumatera also South and Central Sumatra electricity load. Given a baseline for forecasting performance, we apply our hybrid models and computation platform with combining parameter of the kernel. To facilitate comparison to results of our analysis, we highlighted the results around MAPE-based and R2-based techniques. In order to get more accurate results, we need to improve, investigate, also develop the appropriate statistical tools. Electric load forecasting is a fundamental aspect of infrastructure development decisions and can reduce the energy usage of the nation. © 2017 IEEE.

关键词： Time series

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