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Lecture Notes in Computer science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) 2014年 8870卷 302-313页

作者： Jeong, Kwang-Yong Yi, Wangjin Seol, Jae-Wook Choi, Jinwook Lee, Kyung-Soon Dept. of Computer Science & Engineering CAIIT Chonbuk National University Korea Republic of Interdisciplinary Program of Bioengineering Seoul National University Korea Republic of Dept. of Biomedical Engineering College of Medicine Seoul National University Korea Republic of

Unstructured clinical texts contain patients’ disease related narratives, but it is required elaborate work to mine the kind of information. Especially for the classification of semantic types of a clinical term, implementations of domain knowledge from resources such as the Unified Medical Language System (UMLS) are essential. The UMLS has a limitation in dealing with other languages. In this paper, we leverage Wikipedia as well as UMLS for clinical event extraction, especially from clinical narratives written in mixed-language. Semantic features for clinical terms are extracted based on semantic networks of hierarchical categories in Wikipedia. Semantic types for Korean clinical terms are detected by using translation links and semantic networks in Wikipedia. An additional remarkable feature is a controlled vocabulary of clue words which can be contextual evidence to determine clinical semantic types of a word. The experimental result on 150 discharge summaries written in English and Korean showed 75.9% in F1-measure. This result shows that the proposed features are effective for clinical event extraction. © Springer International Publishing Switzerland 2014.

关键词： Domain Knowledge

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Characterization of the complete mitochondrial genome ofOdontobutis platycephalacollected from Nakdong River, South Korea

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Mitochondrial DNA Part B 2019年第2期4卷 3908-3909页

作者： Md. Jobaidul Alam Kyung Su Kim Sapto Andriyono Wongyu Park Hae-Ja Baek Jae-Young Je Hyun-Woo Kim Interdisciplinary Program of Biomedical Mechanical and Electrical Engineering Pukyong National University Busan Republic of Korea Gyeongsangnam-do Freshwater Fish Research Center Miryang Republic of Korea Interdisciplinary Program of Biomedical Mechanical and Electrical Engineering Pukyong National University Busan Republic of KoreaFisheries and Marine Faculty C Campus Jl Universitas Airlangga Surabaya Indonesia Department of Marine Biology Pukyong National University Busan Republic of Korea Department of Marine-Bio Convergence Science Pukyong National University Busan Republic of Korea Interdisciplinary Program of Biomedical Mechanical and Electrical Engineering Pukyong National University Busan Republic of KoreaDepartment of Marine Biology Pukyong National University Busan Republic of Korea

The complete mitochondrial genome ofOdontobutis platycephalacollected from a native Korean river was determined by the bioinformatics assembly of the next-generation sequencing (NGS) reads. The circular mitogenome was 17,590 bp length which harbored canonical 13 protein-coding genes, 22 tRNAs, and 2 rRNAs, which was identical to those of family Odontobutidae. Twenty-eight genes were located on H strand, whereas remaining nine genes were on L strand. Except for COX1 gene (GTG), other 12 protein-coding genes were predicted typical start codons (ATG). Among the currently known mitogenome sequences,O. platycephalashowed highest identity (96.98%) to Korean haplotype ofO. platycephala(NC010199).

关键词： Next-generation sequencing Odontobutis platycephala mitochondrial genome

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Reduction of Reflected Light on Fluorescence Emission for Indocyanine Green

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Journal of engineering and science in Medical Diagnostics and Therapy 2022年第1期5卷 011004页

作者： Kwon, So Yoon Yoon, Ki-Cheol Kim, Kwang Gi Interdisciplinary Program in Bioengineering Seoul National University Seoul08826 Korea Republic of Medical Devices R&D Center Gachon University Gil Medical Center 774 beon-gil Namdong-daero Namdong-gu Incheon21565 Korea Republic of Department of Biomedical Engineering College of Medicine Gachon University 38-13 Dokjom-ro 3 Namdong-gu Incheon21565 Korea Republic of Department of Biomedical Engineering College of Health Science Gachon University 191 Hambakmoero Yeonsu-gu Incheon21936 Korea Republic of Gachon University 38-13 3 Dokjom-ro Namdong-gu Incheon21565 Korea Republic of

Inside the brain tumor, the blood vessels are intricately composed, and the tumors and blood vessels are similar in color. Therefore, when observing tumors and blood vessels with the naked eye or a surgical microscope, it is difficult to distinguish between tumors and blood vessels. Fluorescence staining with indocyanine green (ICG) is performed to distinguish between brain tumors and blood vessels using a surgical microscope. However, when observing the blood circulation state of a tumor or blood vessel through a surgical microscope, light reflection occurs from the camera. In the process of observing the state of the blood vessel, due to the occurrence of light reflection, an obstruction phenomenon in which the observation field is blocked by the blood vessel of the object to be observed occurs. Therefore, it is difficult to diagnose the vascular condition. In this experiment, the 780 nm light-emitting diode (LED) was irradiated to the ICG phantom, and then, when the fluorescence expression image was observed, the polarizing filter such as circular polarized light (CPL) filter and linear polarized light (LPL) filter was inserted into the camera, and the reflected light was reduced. Therefore, it is possible to reduce the reflected light from the fluorescence expression image by using a polarizing filter, and it is expected to be applicable to surgery and diagnostic fields of cancer such as surgery. Copyright © 2022 by ASME.

关键词： Microscopes

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Mitochondrial genome of Mola carplet,Amblypharyngodon mola(Hamilton, 1822) and its evolutional relationship in subfamily Danioninae

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Mitochondrial DNA Part B 2019年第1期4卷 650-651页

作者： Md. Jobaidul Alam Sapto Andriyono A. T. M. Eunus Md. Mofizur Rahman Hyun-Woo Kim Interdisciplinary Program of Biomedical Mechanical and Electrical Engineering Pukyong National University Busan Republic of KoreaDepartment of Fisheries Ministry of Fisheries and Livestock Dhaka Bangladesh Interdisciplinary Program of Biomedical Mechanical and Electrical Engineering Pukyong National University Busan Republic of KoreaFaculty of Fisheries and Marine C Campus Jl. Mulyorejo Surabaya Universitas Airlangga East Java Indonesia World Fish Bangladesh and South Asia Office Dhaka Bangladesh Department of Marine Biology Pukyong National University Busan Republic of KoreaDepartment of Fisheries and Marine Science Noakhali Science and Technology University Sonapur Bangladesh Interdisciplinary Program of Biomedical Mechanical and Electrical Engineering Pukyong National University Busan Republic of KoreaDepartment of Marine Biology Pukyong National University Busan Republic of Korea

The complete mitochondrial genome in Mola carplet,Amblypharyngodon mola(Hamilton, 1822) was determined by MiSeq platform for the first time in the genus. The mitogenome ofA. molawas circular and 16,545 bp in length, which harbours a canonical 13 protein-coding genes, 22 tRNAs, 2 rRNAs, and a control region (D-Loop). Twenty eight genes were encoded on the H strand and the other 9 genes were on the L strand. The incomplete stop codon (TA-/T–) was identified in seven genes (COX2,COX3,ND2,ND3,ND4,ATP6, andCytb). The mitogenome ofA. molashowed highest (82%) sequence identity withRasbora vaterifloris(GenBank No. NC015531), which is endemic to Sri Lanka.

关键词： Next generation sequencing Amblypharyngodon mola mitochondrial genome Danioninae Bangladesh

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SU-E-T-717: Surface Coating for Prevention of Metallic Seed Migration in Tissues

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Medical Physics 2015年第6PART23期42卷 3501-3502页

作者： H Lee W Lee J Park Y Choy S Ye Program in Biomedical Radiation Sciences Department of Transdisciplinary Studies Graduate School of Convergence Science and Technology Seoul National University Seoul Korea Interdisciplinary Program in Bioengineering Seoul National University College of Engineering Seoul Korea Department of Biomedical Engineering Seoul National University College of Medicine Seoul Korea Department of Radiation Oncology Seoul National University Hospital Seoul Korea

Purpose: In radiotherapy, metallic implants often detach from their deposited sites and migrate to other locations. This undesirable migration could cause inadequate dose coverage for permanent brachytherapy and difficulties in image-guided radiation delivery for patients. To prevent migration of implanted seeds, we propose a potential strategy to use of a biocompatible and tissue-adhesive material called polydopamine. Methods: In this study, non-radioactive dummy seeds that have the same geometry and composition as commercial I-125 seeds were coated in polydopamine. Using scanning electron microscopy and X-ray photoelectron spectroscopy, the surface of the polydopamine-coated and non-coated seeds was characterized. The detachment stress between the two types of seeds and the tissue was measured. The efficacy of polydopamine-coated seed was investigated through in-vitro migration tests by tracing the seed location after tissue implantation and shaking for given times. The cytotoxicity of the polydopamine coating was also evaluated. Results: The results of the coating characterization have shown that polydopamine was successfully coated on the surface of the seeds. In the adhesion test, the polydopamine-coated seeds had 2.1-fold greater detachment stress than non-coated seeds. From the in-vitro test, it was determined that the polydopamine-coated seed migrated shorter distances than the non-coated seed. This difference was increased with a greater length of time after implantation. Conclusion: We suggest that polydopamine coating is an effective technique to prevent migration of implanted seeds, especially for permanent prostate brachytherapy.

关键词： Tissues Brachytherapy Dosimetry Metallic coatings Scanning electron microscopy Biocompatibility Image guided radiation therapy Medical imaging X-ray photoelectron spectroscopy

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The complete mitogenome of Bagrid catfishChrysichthys nigrodigitatus(Siluriformes: Claroteidae)

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Mitochondrial DNA Part B 2018年第2期3卷 1239-1240页

作者： Nack-Keun Kim Fantong Zealous Gietbong Sapto Andriyono Ah Ran Kim Hyun-Woo Kim Interdisciplinary Program of Biomedical Mechanical and Electrical Engineering Pukyong National University Busan Republic of Korea Department of Marine Biology Pukyong National University Busan Republic of KoreaKOICA-PKNU International Graduate Program of Fisheries Science Graduate School of Global Fisheries Pukyong National University Busan Republic of Korea Interdisciplinary Program of Biomedical Mechanical and Electrical Engineering Pukyong National University Busan Republic of KoreaDepartment of Marine Fisheries and Marine Faculty Universitas Airlangga C Campus Jl. Mulyorejo Surabaya East Java Indonesia Department of Marine Biology Pukyong National University Busan Republic of Korea Interdisciplinary Program of Biomedical Mechanical and Electrical Engineering Pukyong National University Busan Republic of KoreaDepartment of Marine Biology Pukyong National University Busan Republic of Korea

We here report the complete mitochondrial genome ofChrysichthys nigrodigitatus, which is 16,514 bp in length. Mitogenome ofC. nigrodigitatusshowed the conserved 13 protein-coding genes, 22 tRNA genes, two rRNA genes, and two noncoding regions including the light-strand replication origin (OL) and a putative control region (CR). All tRNA genes were predicted to fold into the typical cloverleaf secondary structures with the typical base-pairing except for tRNA-Ser(AGC). Phylogenetic analysis with currently known complete mitogenome sequences in Siluriformes showed thatC. nigrodigitatusis most closely related toAuchenoglanis occidentalisforming a family Claroteidae cluster.

关键词： Chrysichthys nigrodigitatus mitochondrial genome catfish Cameroon Africa

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Computational Strategies for Protein Quantitation in 2D Electrophoresis Gel Image Processor for Matlab

Computational Strategies for Protein Quantitation in 2D Elec...

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Frontiers in the Convergence of Bioscience and Information Technologies, FBIT

作者： Umer Zeeshan Ijaz Safee Ullah Chaudhary Moon Sang Don Kyung Youn Kim Department of Electronic Engineering Cheju National University Cheju South Korea Department of Bio-Analytical Science Korea University of Science and Technology Daejeon South Korea Postgraduate Interdisciplinary Program Biomedical Engineering Cheju National University Cheju South Korea

In this paper, computational strategies are defined for protein quantisation by considering the shapes of the protein spots. The technique uses the clustering techniques like K-mean and fuzzy C-mean to distinguish between different types of protein spots and unwanted artifacts. The resulting technique is used in 2D electrophoresis gel image processor for Matlab with other image manipulation techniquies on the experimental data to evaluate its performance.

关键词： Electrokinetics Silver Protein engineering Proteomics biomedical engineering Anodes Cathodes Pipelines Signal processing algorithms Information technology

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Changes in bilateral phase synchronization in parkinsonian tremor related to amplitude difference

Changes in bilateral phase synchronization in parkinsonian t...

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10th IASTED International Conference on biomedical engineering, BioMed 2013

作者： Kim, Sang Kyong Jeon, Hyo Seon Kim, Han Byul Kim, Ko Keun Jeon, Beom Seok Park, Kwang Suk Interdisciplinary Program for Bioengineering Seoul National University Seoul 152-742 Korea Republic of Center for Cognition and Sociality Institute for Basic Science Daejeon 305-811 Korea Republic of Department of Neurology Seoul National University Hospital Seoul 110-744 Korea Republic of Department of Biomedical Engineering College of Medicine Seoul National University Seoul 152-742 Korea Republic of

ISBN: (纸本)9780889869530

Tremor, which is a manifestation of the Parkinson's disease, is rhythmic and involuntary oscillation in the frequency range from 3 to 8 Hz. Physiological mechanisms of parkinsonian tremor have not been clearly revealed even though there have been many related studies. In this study, we attempted to analyze bilateral phase synchronization between both hands in order to interpret parkinsonian tremor dynamics which can be helpful to speculate the mechanisms of parkinsonian tremor. Eighteen subjects with Parkinson's disease participated in this study. Tremor was measured for 30 seconds by three axis accelerometer placed over the middle finger with sampling frequency of 64Hz and 12 bit A/D converter while subjects were resting on a chair and relaxing both hands on their knees. Three kinds of synchronization indexes, p, y and X, were employed to assess the synchronization strength for tremor between both hands. As a result, when bilateral difference of tremor amplitude became larger than specific value, phase synchronization strength was significantly increased. Therefore, we may suppose that the dynamics of parkinsonian tremor have two modes of the non-phase synchronization and phase synchronization between both limbs.

关键词： Synchronization

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Wisdom of Crowds for Supporting the Safety Evaluation of Nanomaterials

SSRN

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SSRN 2025年

作者： Saarimäki, Laura Aliisa Fratello, Michele del Giudice, Giusy Di Lieto, Emanuele Afantitis, Antreas Alenius, Harri Chiavazzo, Eliodoro Gulumian, Mary Karisola, Piia Lynch, Iseult Mancardi, Giulia Melagraki, Georgia Netti, Paolo A. Papadiamantis, Anastasios G. Peijnenburg, Willie Santos, Hélder A. Serchi, Tommaso Shahbazi, Mohammad-Ali Stoeger, Tobias Valsami-Jones, Eugenia Vivo, Paola Vrček, Ivana Vinković Vogel, Ulla Wick, Peter Winkler, David A. Serra, Angela Greco, Dario Faculty of Medicine and Health Technology Tampere University Tampere33520 Finland Division of Pharmaceutical Biosciences Faculty of Pharmacy University of Helsinki Helsinki00790 Finland NovaMechanics Ltd Nicosia Cyprus Institute of Environmental Medicine Karolinska Institutet Stockholm171 77 Sweden Research Program Medical Faculty University of Helsinki Helsinki00290 Finland Politecnico di Torino Corso Duca degli Abruzzi 24 Torino10129 Italy National Institute for Occupational Health National Health Laboratory Services Johannesburg South Africa School of Geography Earth and Environmental Sciences University of Birmingham Birmingham United Kingdom Division of Physical Sciences and Applications Hellenic Military Academy Vari Greece Interdisciplinary Research Centre on Biomaterials-CRIB University of Napoli Federico II P.le Tecchio 80 Napoli80125 Italy Institute of Environmental Sciences Leiden University Leiden Netherlands National Institute of Public Health and the Environment Center for Safety of Products and Substances Bilthoven Netherlands University of Groningen Groningen Netherlands Drug Research Program Division of Pharmaceutical Chemistry and Technology Faculty of Pharmacy University of Helsinki Helsinki Finland Luxembourg Institute of Science and Technology 5 Avenue des Hauts Fourneaux Eschsur-Alzette4362 Luxembourg Munich Germany Solar Cells Faculty of Engineering and Natural Sciences Tampere University P.O. Box 541 TampereFI-33014 Finland Institute for Medical Research and Occupational Health Zagreb Croatia National Research Centre for the Working Environment Copenhagen ODK-2100 Denmark Lerchenfeldstrasse 5 St. Gallen9014 Switzerland La Trobe Institute of Molecular Science La Trobe University Bundoora3086 Australia Monash Institute of Pharmaceutical Sciences Monash University Parkville3052 Australia School of Pharmacy University of Nottingham NottinghamNG7 2QL United Kingdom Tampere Institute for Advanced Study

The development of new approach methodologies (NAMs) to replace current in vivo testing for the safety assessment of engineered nanomaterials (ENMs) is hindered by the scarcity of validated experimental data for a broad range of ENMs. We introduce a framework to address this challenge by harnessing the collective expertise of professionals from multiple complementary and related fields (‘wisdom of crowds’ or WoC). By integrating expert insights, we aim to fill data gaps and generate consensus concern scores for diverse ENMs, thereby enhancing the predictive power of nanosafety computational models. Our investigation reveals an alignment between expert opinion and experimental data, providing robust estimations of concern levels. Building upon these findings, we employ predictive machine learning models trained on the newly defined concern scores, ENM descriptors, and gene expression profiles, to quantify potential harm across various toxicity endpoints. These models further revealed key genes potentially involved in underlying toxicity mechanisms. Notably, genes associated with metal ion homeostasis, inflammation, and oxidative stress emerge as predictors of ENM toxicity across diverse endpoints. This study showcases the value of integrating expert knowledge and computational modeling to address the complexity of nanomaterial safety. Our work suggests that this interdisciplinary approach enhances the accuracy and efficiency of safety assessment in the rapidly evolving landscape of nanotechnology. © 2025, The Authors. All rights reserved.

关键词： Nanoclay

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Unobtrusive Monitoring of ECG-derived Features During Daily Smartphone Use

Unobtrusive Monitoring of ECG-derived Features During Daily ...

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Annual International Conference of the IEEE engineering in Medicine and Biology Society

作者： Sungjun Kwon Seungwoo Kang Youngki Lee Chungkuk Yoo Kwangsuk Park Interdisciplinary Program of Bioengineering Seoul National University Department of Computer Science Korea Advanced Institute of Science and Technology (KAIST) Department of Information Systems at Singapore Management University Department of Biomedical Engineering College of Medicine Seoul National University

ISBN: (纸本)9781424479276

Heart rate variability (HRV) is known to be one of the representative ECG-derived features that are useful for diverse pervasive healthcare applications. The advancement in daily physiological monitoring technology is enabling monitoring of HRV in people's everyday lives. In this study, we evaluate the feasibility of measuring ECG-derived features such as HRV, only using the smartphone-integrated ECG sensors system named Sinabro. We conducted the evaluation with 13 subjects in five predetermined smartphone use cases. The result shows the potential that the smartphone-based sensing system can support daily monitoring of ECG-derived features;The average errors of HRV over all participants ranged from 1.65% to 5.83% (SD: 2.54～10.87) for five use cases. Also, all of individual HRV parameters showed less than 5% of average errors for the three reliable cases.

关键词： Power system stability Circuit stability Stability criteria Transient analysis Steady-state

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