• The KIPS Transactions:PartD
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• v.11D no.4
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• pp.765-774
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• 2004

In order to integrate heterogeneous biological information sources, it is necessary to define the view that represents unified viewpoint for the multiple sources by hiding heterogeneity of the data. We present an XML-based view definition model and show Its operating principles in designing the middleware system to integrate biological information sources. This model supports the user-defined XML view to increase flexibility in constructing the integration system and execute integrated queries on higher level ion. Based on the view-definition model, we present a wrapping model for relational database systems and web resources as well as an application program.

• Proceedings of the Korean Institute of Intelligent Systems Conference
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• 2003.09a
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• pp.11-15
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• 2003

Amount of biological data information has been increasing exponentially. In order to cope with this bio-information explosion, it is necessary to construct a biological data information integration system. The integration system could provide useful services for bio-application developers by answering general complex queries that require accessing information from heterogeneous bio data sources, and easily accommodate a new database into the integrated systems. In this paper, we analyze architectures and mechanisms of existing integration systems with their advantages and disadvantages. Based on this analysis and user requirement studies, we propose an integration system framework that embraces advantages of the existing systems. More specifically, we propose an integration system architecture composed of a mediator and wrappers, which can offer a service interface layer for various other applications as well as independent biologists, thus playing the role of database management system for biology applications. In other words, the system can help abstract the heterogeneous information structures and formats from the application layer. In the system, the wrappers send database-specific queries and report the result to the mediator using XML. The proposed system could facilitate in silico knowledge discovery by allowing combination of numerous discrete biological information databases.

• Journal of Korea Multimedia Society
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• v.10 no.1
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• pp.102-116
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• 2007

An XML-based mediator system is the one of the methods to virtually integrate distributed heterogeneous information sources. It considers each information source as the virtual XML database and accesses the information source by XML query language. In this paper, we present a design concept and a development result of the graphic user interface that generates XML views for each biological information sources with flexibility and XML queries on the views. In addison to the easy generation of XML views and queries for the integrated schema, the system supports the form of the workflow, in which the part of the query result against biological information sources is used as input data of an another source.

• Genomics & Informatics
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• v.2 no.1
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• pp.7-18
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• 2004

Integrated genomics refers to the use of large-scale, systematically collected data from various sources to address biological and biomedical problems. A critical ingredient to a successful research program in integrated genomics is the establishment of an effective computational infrastructure. In this review, we suggest that the computational infrastructure challenges include developing tools for heterogeneous data organization and access, innovating techniques for combining the results of different analyses, and establishing a theoretical framework for integrating biological and quantitative models. For each of the three areas - data integration, analyses integration, and model integration - we review some of the current progress and suggest new topics of research. We argue that the primary computational challenges lie in developing sound theoretical foundations for understanding the genome rather than simply the development of algorithms and programs.

• Journal of KIISE:Databases
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• v.35 no.2
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• pp.132-142
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• 2008

In biological domain, there exist a variety of protein analysis databases which have their own meaning toward the same target of protein. If we integrate these scattered heterogeneous data efficiently, we can obtain useful information which otherwise cannot be found from each original source. Reflecting the characteristics of biological data, each data source has its own syntax and semantics. If we describe these data through RDF(S) models, one of the Semantic Web standards, we can achieve not only syntactic but also semantic integration. In this paper, we propose a new concept of integration layer based on the RDF unified schema. As a conceptual model, we construct a unified schema focusing on the protein information; as a representational model, we propose a technique for the wrappers to aggregate necessary information from the relevant sources and dynamically generate RDF instances. Two example queries show that our integration layer succeeds in processing the integrated requests from users and displaying the appropriate results.

• Proceedings of the Korea Information Processing Society Conference
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• 2005.05a
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• pp.77-80
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• 2005

생물정보원은 이질성이 높고 사용자의 요구사항이 다양하다. 본 논문은 이러한 이질성을 해결하고 사용자의 다양한 요구사항에 쉽게 대처할 수 있는 XML 기반의 생물정보원 통합시스템의 설계개념과 구조 및 구현결과를 제시한다. 제시하는 통합시스템은 관계형테이블, 객체, XML, 플랫파일 등 다양한 자료형을 지원하면서, 관계형, 객체관계형, 웹자원, 응용프로그램 등 데이터 관리모델에 무관한 뷰 정의 및 질의처리모델이다. 그리고 사용자정의 XML 뷰 기반의 뷰 관리 및 질의처리를 통하여 사용자의 다양한 요구사항에 쉽게 적응할 수 있는 미디에이터 질의처리 기반의 생물정보원 통합시스템을 제시한다.

• Asian-Australasian Journal of Animal Sciences
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• v.12 no.3
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• pp.449-459
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• 1999

Non-conventional roughage (NCR) is shrub and tree fodders, crop residues and agroindustrial oy-products which is not commonly used as livestock feed traditionally and commercially. Eventhough many sources of NCR is available, the farmers perceptions on NCR not only vary from country to country in tropical and sub-tropical Asian-Australasian countries, but also vary from region to region within the country. Chemical composition and nutritive value of NCR are not only vary from species to species but also vary between species within the genera, between provenances/cultivars within the species and such variations are affected by season, climatic zone, topography and land utilization. The nutritive value of NCR can be improved by physical, chemical and biological treatments and conservation. Feeding NCR to ruminant and non-ruminant is not only improve performance of the livestock but also economically feasible. Future direction of NCR is inventarization, exchange information through NCR information centre, integration with either agrisilvicultural, agrisilvipastoral or silvipastoral system, and use of genetic engineering to produce high quality NCR that ultimately become conventional roughage for agroindustry and agribissiness.

• Genomics & Informatics
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• v.4 no.1
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• pp.40-44
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• 2006

Toxicogenomics combines transcriptome, proteome and metabolome profiling with conventional toxicology to investigate the interaction between biological molecules and toxicant or environmental stress in disease caution. Toxicogenomics faces the problems of comparison and integration across different sources of data. Cause of unusual characteristics of toxicogenomic data, researcher should be assisted by data analysis and annotation for getting meaningful information. There are already existing repositories which claim to stand for toxicogenomics database. However, those just contain limited abilities for toxicogenomic research. For supporting toxicologist who comes up against toxicogenomic data flood, now we propose novel toxicogenomics knowledgebase system, XPERANTO-TOX. XPERANTO-TOX is an integrated system for toxicogenomic data management and analysis. It is composed of three distinct but closely connected parts. Firstly, Data Storage System is for reposit many kinds of '-omics' data and conventional toxicology data. Secondly, Data Analysis System consists of analytical modules for integrated toxicogenomics data. At last, Data Annotation System is for giving extensive insight of data to researcher.

• Korean Journal of Remote Sensing
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• v.35 no.1
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• pp.93-115
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• 2019

The availability of high-resolution laser scanning data and advanced machine learning algorithms has enabled an accurate potential rockfall source identification. However, the presence of other mass movements, such as landslides within the same region of interest, poses additional challenges to this task. Thus, this research presents a method based on an integration of Gaussian mixture model (GMM) and ensemble artificial neural network (bagging ANN [BANN]) for automatic detection of potential rockfall sources at Kinta Valley area, Malaysia. The GMM was utilised to determine slope angle thresholds of various geomorphological units. Different algorithms(ANN, support vector machine [SVM] and k nearest neighbour [kNN]) were individually tested with various ensemble models (bagging, voting and boosting). Grid search method was adopted to optimise the hyperparameters of the investigated base models. The proposed model achieves excellent results with success and prediction accuracies at 95% and 94%, respectively. In addition, this technique has achieved excellent accuracies (ROC = 95%) over other methods used. Moreover, the proposed model has achieved the optimal prediction accuracies (92%) on the basis of testing data, thereby indicating that the model can be generalised and replicated in different regions, and the proposed method can be applied to various landslide studies.

• Applied Microscopy
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• v.50
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• pp.25.1-25.11
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• 2020

Scanning acoustic microscopy (SAM) or Acoustic Micro Imaging (AMI) is a powerful, non-destructive technique that can detect hidden defects in elastic and biological samples as well as non-transparent hard materials. By monitoring the internal features of a sample in three-dimensional integration, this technique can efficiently find physical defects such as cracks, voids, and delamination with high sensitivity. In recent years, advanced techniques such as ultrasound impedance microscopy, ultrasound speed microscopy, and scanning acoustic gigahertz microscopy have been developed for applications in industries and in the medical field to provide additional information on the internal stress, viscoelastic, and anisotropic, or nonlinear properties. X-ray, magnetic resonance, and infrared techniques are the other competitive and widely used methods. However, they have their own advantages and limitations owing to their inherent properties such as different light sources and sensors. This paper provides an overview of the principle of SAM and presents a few results to demonstrate the applications of modern acoustic imaging technology. A variety of inspection modes, such as vertical, horizontal, and diagonal cross-sections have been presented by employing the focus pathway and image reconstruction algorithm. Images have been reconstructed from the reflected echoes resulting from the change in the acoustic impedance at the interface of the material layers or defects. The results described in this paper indicate that the novel acoustic technology can expand the scope of SAM as a versatile diagnostic tool requiring less time and having a high efficiency.