• Title/Summary/Keyword: bio-database

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Choosing preferable labels for the Japanese translation of the Human Phenotype Ontology

  • Ninomiya, Kota;Takatsuki, Terue;Kushida, Tatsuya;Yamamoto, Yasunori;Ogishima, Soichi
    • Genomics & Informatics
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    • v.18 no.2
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    • pp.23.1-23.6
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    • 2020
  • The Human Phenotype Ontology (HPO) is the de facto standard ontology to describe human phenotypes in detail, and it is actively used, particularly in the field of rare disease diagnoses. For clinicians who are not fluent in English, the HPO has been translated into many languages, and there have been four initiatives to develop Japanese translations. At the Biomedical Linked Annotation Hackathon 6 (BLAH6), a rule-based approach was attempted to determine the preferable Japanese translation for each HPO term among the candidates developed by the four approaches. The relationship between the HPO and Mammalian Phenotype translations was also investigated, with the eventual goal of harmonizing the two translations to facilitate phenotype-based comparisons of species in Japanese through cross-species phenotype matching. In order to deal with the increase in the number of HPO terms and the need for manual curation, it would be useful to have a dictionary containing word-by-word correspondences and fixed translation phrases for English word order. These considerations seem applicable to HPO localization into other languages.

FESD II: A Revised Functional Element SNP Database of Human Ethnicities

  • Kim, Hyun-Ju;Kim, Il-Hyun;Shin, Ki-Hoon;Park, Young-Kyu;Kang, Hyo-Jin;Kim, Young-Joo
    • Genomics & Informatics
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    • v.5 no.4
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    • pp.188-193
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    • 2007
  • The Functional Element SNPs Database (FESD) categorizes functional elements in human genic regions and provides a set of single nucleotide polymorphisms (SNPs) located within each area. Users may select a set of SNPs in specific functional elements with haplotype information and obtain flanking sequences for genotyping. Our previous version of FESD has been improved in several ways. We regenerated all the data in FESD II from recently updated source data such as HapMap, UCSC GoldenPath, dbSNP, OMIM, and $TRANSFAC^{(R)}$. Users can obtain information about tagSNPs and simulate LD blocks for each gene from four ethnicities in the HapMap project on the fly. FESD II employs a Java/JSP web interface for better platform portability and higher speed than PHP in the previous version. As a result, FESD II provides its users with more powerful information about functional element SNPs of human ethnicities.

StrokeMed: an integrated literature database for stroke and the differentiation of stroke syndrome

  • Kim, Young-Uk;Kim, Jin-Ho;Park, Young-Kyu;Kim, Young-Joo
    • Interdisciplinary Bio Central
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    • v.2 no.2
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    • pp.2.1-2.4
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    • 2010
  • Complex diseases, such as stroke and cancer, have two or more genetic influences and are affected by environmental factors, which complicate them. Due to the complex characteristics of these diseases, we must search and study comprehensive literature-based article resources. Some disease-related literature databases have been developed through specialized journal issues or major websites. Most of them, however, are scattered throughout a website, and users encounter difficulties in finding accurate and comprehensive information easily and quickly. We developed StrokeMed, an integrated literature database for stroke and the differentiation of stroke syndrome. The system allows users to explore PubMed search results, categorized by MeSH (Medical Subject Headings), and the differentiation of stroke syndrome in Oriental medicine. StrokeMed collects data from important sites, such as PubMed, Scirus, and Scopus, automatically to maintain higher-quality and updated content. Currently, the system indexes more than 20,000 PubMed abstracts that are related to stroke, stroke etiology, and Oriental medicine. The system provides valuable literature information to the scientific and medical fields in stroke.

The Implementation of Korean Medicine Prescription Information System (한약처방 정보 검색 시스템 구축)

  • Yea, Sang-Jun;Shin, Hyeun-Kyoo;Kim, Chul
    • Herbal Formula Science
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    • v.20 no.2
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    • pp.47-54
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    • 2012
  • Objectives : This study aimed to build up information system for the 25 cases of Korean Medicine (KM) prescriptions which are used mostly often in clinic and aimed to offer information about its effect and safety to public and researcher. Methods : We used KM prescription data-bank which came from 'The Bio-informatics for herbal formula' and 'The evidence based medicine for herbal formula' projects of Korean Institute of Oriental Medicine (KIOM) Results : First, we analyzed prescription data and categorized 7 classes, then we built up prescription database based on it. Second, we designed and developed user functions of prescription information system, then we link it to OASIS. Third, we developed adminstration system to manage the prescription data. Conclusions : From this study we hope that KM prescription information system will be used for fusion research based on KM. Because the implemented system is linked to OASIS, we expect it will be widely used.

IntoPub: A Directory Server for Bioinformatics Tools and Databases

  • Jung, Dong-Soo;Kim, Ji-Han;Lee, Sang-Hyuk;Lee, Byung-Wook
    • Interdisciplinary Bio Central
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    • v.3 no.3
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    • pp.12.1-12.3
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    • 2011
  • Bioinformatics tools and databases are useful for understanding and processing various biological data. Numerous resources are being published each year. It is not a trivial task to find up-to-date relevant tools and databases. Moreover, no server is available to provide comprehensive coverage on bioinformatics resources in all biological fields. Here, we present a directory server called IntoPub that provides information on web resources. First, we downloaded XML-formatted abstracts containing web URLs from the NCBI PubMed database by using 'ESearch-EFetch' function in the NCBI E-utilities. The information is obtained from abstracts in the PubMed by extracting 'www' or 'http' prefixes. Then, we cu-rate the downloaded abstracts both in automatic and manual fashion. As of July 2011, the IntoPub database has 12,118 abstracts containing web URLs from 174 journals. Our anal-ysis shows that the number of abstracts containing web resources has increased signifi-cantly every year. The server has been tested by many biologists from several countries to get opinion on user satisfaction, usefulness, practicability, and ease of use since January 2010. In the IntoPub web server, users can easily find relevant bioinformatics resources, as compared to searching in PubMed. IntoPub will continue to update and incorporate new web resources from PubMed and other literature databases. IntoPub, available at http://into.kobic.re.kr/, is updated every day.

Evaluation of Pess Formability for Ti-6Al-4V Sheet at Elevated Temperature (Ti-합금판재(Ti-6Al-4V)의 고온 성형성 평가)

  • Park, J.G.;Park, N.K.;Kim, Y.S.
    • Transactions of Materials Processing
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    • v.19 no.4
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    • pp.230-235
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    • 2010
  • Titanium alloy sheets have excellent specific strength and corrosion resistance as well as good performance at high temperature. Recently, titanium alloys are widely employed not only for aerospace parts but also for bio prothesis and motorcycle. However, the database is insufficient in the titanium alloy for press forming process. In this study, the effect of temperature on the forming limit diagram was investigated for Ti-6Al-4V titanium alloy sheet through the Hecker‘s punch stretching test at elevated temperature. Experimental results obtained in this study can provide a database for the development of press forming process at elevated temperature of Ti-6Al-4V titanium alloy sheet. From the experimental studies it can be concluded that the formability of Ti-6Al-4V titanium alloy sheet is governed by the ductile failure for the testing temperature. The formability of Ti-6Al-4V titanium alloy sheet at $700^{\circ}C$ increases about 7 times compared with that at room temperature.

A Comparative Study on the Optimal Model for abnormal Detection event of Heart Rate Time Series Data Based on the Correlation between PPG and ECG (PPG와 ECG의 상관 관계에 기반한 심박 시계열 데이터 이상 상황 탐지 최적 모델 비교 연구)

  • Kim, Jin-soo;Lee, Kang-yoon
    • Journal of Internet Computing and Services
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    • v.20 no.6
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    • pp.137-142
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    • 2019
  • This paper Various services exist to detect and monitor abnormal event. However, most services focus on fires and gas leaks. so It is impossible to prevent and respond to emergency situations for the elderly and severely disabled people living alone. In this study, AI model is designed and compared to detect abnormal event of heart rate signal which is considered to be the most important among various bio signals. Specifically, electrocardiogram (ECG) data is collected using Physionet's MIT-BIH Arrhythmia Database, an open medical data. The collected data is transformed in different ways. We then compare the trained AI model with the modified and ECG data.

Game Design of Online Sutda using 3-Tier Structure

  • An, Syungog;An, Sung-Ho;Jung, Jinyoung;Kim, Soo-Kyun
    • Journal of the Korea Society of Computer and Information
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    • v.20 no.9
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    • pp.55-60
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    • 2015
  • This paper introduces a program structure that minimizes the client's business logic by reducing the client's specifications as a way of minimizing the limitations of online game platforms. The objective of this thesis is to design an online game that is based on a 3-tier client/server structure, and thus using this 3-tier structure to ultimately create an online Sutda game that anyone can enjoy. The progression of newly released games is highly based on the mobile market and the number of online games being launched is decreasing. As the mobile game market grows, more and more multi-platform games are being developed and target platforms within online games are greatly diversifying. Through these situations, this thesis minimizes the client's business logic through a 3-tier structure of application-middleware-database, and also proposes an online game client/server that allows three or more users to participate simultaneously through the server.

Evaluation of press formability for Ti-6Al-4V sheet at elevated temperature (티타늄 합금판재(Ti-6Al-4V)의 고온 성형성 평가)

  • Bae, M.K.;Park, J.G.;Kim, J.H.;Park, N.K.;Kim, Y.S.
    • Proceedings of the Korean Society for Technology of Plasticity Conference
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    • 2009.05a
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    • pp.152-157
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    • 2009
  • Titanium alloy sheets have excellent specific strength and corrosion resistance as well as good performance at high temperature. Recently, titanium alloys are widely employed not only aerospace parts but also bio prothesis and motorcycle. But the database is insufficient of the titanium alloy for press forming process. In this study, the effect of temperature on the forming limit diagram was investigated for Ti-6Al-4V titanium alloy sheet through the Hocker's punch stretching test at elevated temperature. Experimental results obtained in this study can provide a database for development of press forming process at elevated temperature of Ti-6Al-4V titanium alloy sheet. From the experimental studies it can be concluded that the formability of Ti-6Al-4V titanium alloy sheet is governed by the ductile failure for the testing temperature below and vice versa neck-induced failure above the recrystalization temperature $0.5T_m$. The formability of Ti-6Al-4V titanium alloy sheet at $750^{\circ}C$ increases about 7 times compared with that at room temperature.

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Assessing the Potential of Fusion and Convergence in Industrial Agricultures - Focusing on Main Production Areas of Upland Crops - (융복합 농산업화 모델 유형별 잠재가능성 분석 - 밭작물 주산단지를 중심으로 -)

  • Lee, Sang-Hyun;Kim, Yoon Hyung;Bae, Seung-Jong;Seo, Donguk;Oh, Yun-Gyeong
    • Journal of Korean Society of Rural Planning
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    • v.26 no.2
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    • pp.25-37
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    • 2020
  • The aim of this study is to assess the potential for fusion and convergence in industrial agriculture. First, we analyzed the types of industrial agriculture and applied the agri-business and ICT agriculture. After then, we analyzed the Project Potential Index (PPI) of the agri-business and ICT agriculture using the agricultural enterprise database provided from Rural Research Institute in Korea. The results revealed that Haenam have a high potential for agri-business project because of large number of farmers and annual sales. Wanju was considered as the suitable place for ICT agriculture project because of large area of greenhouse. This study was applied only 7 study area but the methodology suggested in this study could be widely used for assessing potential project various types of industrial agriculture.