• 제목/요약/키워드: Biological database

검색결과 505건 처리시간 0.033초

북한 생물정보 DB 구축에 의한 남북한 동·식물명 비교 연구 (A Comparative Study on Zoology & Botany Name of South and North Korea Building Bio-information Database of North Korea)

  • 김남신;김석주;김영화;정성희
    • 한국환경복원기술학회지
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    • 제22권6호
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    • pp.27-39
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    • 2019
  • The object of this research is to compare zoology and botany name caused by language and science differences of South and North Korea since division. Biological data are collected North Korea biological information (flora and fauna, an illustrated flora and fauna book of North Korea, Etc.) and compared both side data based on national species list of korea, National Institute of Biological Resources. We could built 3,903 species of flora and 1,487 species flora on biological database. The criteria for comparative method is 5 types (korean name difference, scientific name difference, same species, similar species, North Korea endemic species). As a results, plants were identified korean name difference (911 species), scientific name difference (614 species), same species (880 species), North Korea endemic species (1,037 species) of 3,903 species, and animals were korean name difference (685 species), scientific name difference (104 species), same species (199 species), North Korea endemic species (226 species) of the 1,492 species. This results are expected to be in application with cooperation study for recovering bioinformatics differences of South and North Korea.

반 정량 식품빈도 조사법 (SQFFQ)과 24시간 회상법을 이용한 영양평가 Software 개발 (Software for Nutritional Assessment Using a Semi-Quantitative Food Frequency Questionnaire and the 24-hour Recall Method)

  • 이상아;이경신;김형숙;이해정;최혜미
    • 대한지역사회영양학회지
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    • 제7권4호
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    • pp.548-558
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    • 2002
  • The purpose of this study was to develop a computer software program for nutritional assessment using a Semi-Quantitative Food Frequency Questionnaire (SQFFQs) and the 24-hour Recall Method. The software for the SQFFQ was divided into input, output, and database. For dietary analyses, recipe and food databases were used. The recipe database included 25 items and the food database was divided into 18 food groups. The food database was composed of 19 general nutrient items, 33 fatty acids, and 18 amino acids. The software developed in this study can be summarized as follows: 1) input items related to the individual s ages information, lifestyle, biological values, and dietary habits; 2) individualized data in percent of the Korean RDA, the energy ratios of carbohydrates, proteins and fats, the ratio of animal to plant source intakes, and the distribution of food group intakes; 3) Statistical data on the individual's information, lifestyle, biological values, and dietary intakes including the frequency of intake of cooked foods, the amounts of food, and the number of food groups, and nutrients. In the 24-hour Recall Method, the input and output consisted of the individual s information and cooked dish intakes. The individual s report included the amounts of nutrient intake according to number of meal and days, in comparison to the Korean RDA, the energy ratio for carbohydrates, proteins and fats, the ratio of animal to plant source intakes, and the distribution of food group intakes. The statistical report presented the number of food groups and foods, and the nutrient intakes. To evaluate the validity of the SQFFQ, the Spearman Rank Order Correlation and kappa values were used. As a result, correlation coefficients comparing the 24-hour Recall Method appeared to be more than 0.5, except for vitamin $B_1, B_2$, niacin, and vitamin E. The kappa values for energy and carbohydrate intakes were both 0.7, and protein, fat, vitamin C, folate, Ca, and iron intakes ranged from 0.3 to 0.7.

StrokeBase: A Database of Cerebrovascular Disease-related Candidate Genes

  • Kim, Young-Uk;Kim, Il-Hyun;Bang, Ok-Sun;Kim, Young-Joo
    • Genomics & Informatics
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    • 제6권3호
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    • pp.153-156
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    • 2008
  • Complex diseases such as stroke and cancer have two or more genetic loci and are affected by environmental factors that contribute to the diseases. Due to the complex characteristics of these diseases, identifying candidate genes requires a system-level analysis of the following: gene ontology, pathway, and interactions. A database and user interface, termed StrokeBase, was developed; StrokeBase provides queries that search for pathways, candidate genes, candidate SNPs, and gene networks. The database was developed by using in silico data mining of HGNC, ENSEMBL, STRING, RefSeq, UCSC, GO, HPRD, KEGG, GAD, and OMIM. Forty candidate genes that are associated with cerebrovascular disease were selected by human experts and public databases. The networked cerebrovascular disease gene maps also were developed; these maps describe genegene interactions and biological pathways. We identified 1127 genes, related indirectly to cerebrovascular disease but directly to the etiology of cerebrovascular disease. We found that a protein-protein interaction (PPI) network that was associated with cerebrovascular disease follows the power-law degree distribution that is evident in other biological networks. Not only was in silico data mining utilized, but also 250K Affymetrix SNP chips were utilized in the 320 control/disease association study to generate associated markers that were pertinent to the cerebrovascular disease as a genome-wide search. The associated genes and the genes that were retrieved from the in silico data mining system were compared and analyzed. We developed a well-curated cerebrovascular disease-associated gene network and provided bioinformatic resources to cerebrovascular disease researchers. This cerebrovascular disease network can be used as a frame of systematic genomic research, applicable to other complex diseases. Therefore, the ongoing database efficiently supports medical and genetic research in order to overcome cerebrovascular disease.

모티프 자원에 대한 통합 접근 검색 메소드 구현 (Implementation of Integrated search method for Motif Resources)

  • ;이범주;류근호
    • 한국정보처리학회:학술대회논문집
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    • 한국정보처리학회 2006년도 춘계학술발표대회
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    • pp.3-6
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    • 2006
  • Motif which is a recurrent feature shared by a significant segments from the proteins belonging to different families can be used to predict functional or structural properties of the protein, or to describe features common to biologically related proteins. Although there are many existed motif databases, they are unstandardized and built up by different methods. so it is difficult to get enough motif information when researches use motif databases for classification, prediction, etc. Using logical integration of biological based on cross-references between these databases is the common solution for information tracking through www. However, the problem such as the motif resource tracking method for making a united motif information page emerges from cross-reference. In this paper we propose the motif resource tracking method based on the existed motif databases for easy and comfortable interface better than in the case of using each motif database. The result which is given by this method is the review of necessary information about any motif in PROSITE database.

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Building an Integrated Protein Data Management System Using the XPath Query Process

  • Cha Hyo Soung;Jung Kwang Su;Jung Young Jin;Ryu Keun Ho
    • 대한원격탐사학회:학술대회논문집
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    • 대한원격탐사학회 2004년도 Proceedings of ISRS 2004
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    • pp.99-102
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    • 2004
  • Recently according to developing of bioinformatics techniques, there are a lot of researches about large amount of biological data. And a variety of files and databases are being used to manage these data efficiently. However, because of the deficiency of standardization there are a lot of problems to manage the data and transform one into the other among heterogeneous formats. We are interested in integrating. saving, and managing gene and protein sequence data generated through sequencing. Accordingly, in this paper the goal of our research is to implement the system to manage sequence data and transform a sequence file format into other format. To satisfy these requirements, we adopt BSML (Bioinformatics Sequence Markup Language) as the standard to manage the bioinformatics data. And then we integrate and store the heterogeneous 리at file formats using BSML schema based DTD. And we developed the system to apply the characteristics of object-oriented database and to process XPath query, one of the efficient structural query. that saves and manages XML documents easily.

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의료보건을 위한 의료정보처리에 관한 연구 (A Syudy on the Biomedical Information Processing for Biomedicine and Healthcare)

  • 정현철;박병전;배상현
    • 통합자연과학논문집
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    • 제2권4호
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    • pp.243-251
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    • 2009
  • This paper surveys some researches to accomplish on bioinformatics. These researches wish to propose a database architecture combining a general view of bioinformatics data as a graph of data objects and data relationships, with the efficiency and robustness of data management and query provided by indexing and generic programming techniques. Here, these invert the role of the index, and make it a first-class citizen in the query language. It is possible to do this in a structured way, allowing users to mention indexes explicitly without yielding to a procedural query model, by converting functional relations into explicit functions. In the limit, the database becomes a graph, in which the edges are these indexes. Function composition can be specified either explicitly or implicitly as path queries. The net effect of the inversion is to convert the database into a hyperdatabase: a database of databases, connected by indexes or functions. The inversion approach was motivated by their work in biological databases, for which hyperdatabases are a good model. The need for a good model has slowed progress in bioinformatics.

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HPTLC와 GC/MS를 이용한 의약품의 데이타베이스화 및 생체시료에의 응용 (Constructing Database for Drugs and its Application to Biological Sample by HPTLC and GC/MS)

  • 유영찬;박성우;임미애;백승경;박세연;이주선;노동석
    • 분석과학
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    • 제13권2호
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    • pp.136-150
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    • 2000
  • 생체시료에서 미지 의약품의 검출을 위하여, 민감하고 선택적인 박층크로마토그래피인 자동화 점적기 및 자외선 스펙트럼 검출기를 장착한 고성능박층크로마토그라피(HPTLC)를 시도하였다. 205종의 의약품에 대한 Rf값과 자외선흡수스펙트럼(scan 200-360 nm)을 이용하여 HPTLC 데이터베이스를 구축하였으며, 또한 96종의 의약품에 대하여는 리도카인에 대한 상대적 머무름시간(relative retention time; RRT) 및 질량스펙트럼을 이용하여 GC/MS 데이터베이스를 구축하였다. 생체시료중 의약품성분은 고상추출법(Clean Screen ZSDAU020)으로 추출한 후, 이들 시료들을 HPTLC 및 GC/MS 데이터베이스에 적용시켜 검색한 결과 90% 이상의 매우 양호한 일치율로 검색할 수 있었으며, 이들 의약품들을 GC/MS로 확인하였다. 결론적으로, 우리가 구축한 HPTLC 및 GC/MS 데이터베이스체계는 생체시료에서 미지의 의약품성분을 검색하는데 매우 유용한 방법으로 사료된다.

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노출평가를 위한 전국규모의 환경지리지형정보 시스템 개발 (Development of National Scale Environmental & Geographical Information System for Supporting Exposure Assessment)

  • 김종호;김미숙;곽병규;유홍석;신치범;이종협
    • 대한환경공학회지
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    • 제28권10호
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    • pp.1082-1089
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    • 2006
  • 본 연구에서는 지리지형정보를 바탕으로 전국규모의 환경정보를 관리하고 환경모델링을 지원할 수 있는 환경지리지형정보시스템을 개발하였다. 이 시스템은 환경지리지형정보 DB(Database)와 이를 이용할 수 있는 소프트웨어(Software)를 통합하여 구성하였다. 환경지리지형정보 DB를 구축하기 위해서 기존의 지리지형정보로부터 환경관리에 필요한 여러 도형정보(점, 선, 면)를 선별하여 추출하였고, 이러한 도형정보에 환경정보를 연결하여 환경지리지형정보를 구축하였다. 환경지리지형정보를 쉽게 이용하기 위해서 비주얼 베이직(Visual Basic) 컴파일러를 이용하여 소프트웨어를 개발하였다. 이 소프트웨어는 DB를 가시화할 뿐만 아니라, 다양한 환경지리지형정보를 손쉽게 검색하고, 노출평가를 위한 환경거동모델링에 필요한 입력데이터를 자동으로 생성하기 위한 유용한 도구이다.

스키마 통합 기반 생명정보 검색시스템(BIRS) 설계에 관한 연구 (A Study on Design of Schema Integration based Biological Information Retrieval System)

  • 한건;이상호;안부영
    • 정보관리연구
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    • 제40권1호
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    • pp.217-234
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    • 2009
  • 컴퓨터로 옮겨 놓은 생물학 실험실에서 생명과학을 연구하는 연구자가 생명정보를 확인하려면 1차적으로 생물다양성 관련 데이터베이스에서 생명체에 관한 종정보, 생태정보, 분포정보를 검색해야 한다. 그리고 그 생명체를 구성하는 유전자 서열정보와 단백질 구조정보를 Genbank, PDB 등의 유전자/단백질 데이터베이스에서 검색해야 한다. 또한 그 생명체에 관한 학술적 내용이 수록된 학술논문까지 별도로 검색해야만 그 생명체에 관한 포괄적이고도 정확한 정보를 획득하여 연구에 활용할 수 있다. 이런 일련의 과정은 연구자에게 불편함과 함께 많은 시간이 소요됨으로 인해 연구의 효율성을 저하시키는 요인이 되고 있다. 이런 불편함을 해결하기 위하여 통합검색하기 위한 여러 방법을 분석하고, 그중 스키마 통합을 선택하였다. 또한 스키마 통합을 위하여 각각의 데이터베이스의 스키마를 분석하고 메타데이터를 추출하여 Mediated 스키마를 설계하였다. 본 논문에서 설계한 생명정보 검색시스템(BIRS, Biological Information Retrieval System)과 인터페이스를 사용하여 생명과학을 연구하는 연구자들의 연구의 효율성을 향상시킬 수 있을 것이다.

의료용 화상정보의 저장 및 전송 시스템 개발 (Development of Medical Picture Archiving and Communication System)

  • 이태수;백승권
    • 대한의용생체공학회:의공학회지
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    • 제9권2호
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    • pp.195-210
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    • 1988
  • We build up distributed database of medical picture and design and realize H/W & S/W of special image workstation. We build up high speed image transmission system for distributed database and retrieval of various medical pictures in w ard through image transmission system and realize integrated image diagnosis. This system improves medical service by speedy diagnosis and enables more precise diagnosis by integrated image diagnosis through distributed database. In economical view this system curtails huge cost of film processing and transmission, which make medical expense cheaf, because it does not use film. We built up PACS in pediatric hospital of Seoul National University Hopital and tested the system with various medical pictures and showed that speedy integrated image diagnosis is possible.

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