• Title, Summary, Keyword: bioinformatics

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A Model of Problem Solving Environment for Integrated Bioinformatics Solution on Grid by Using Condor

  • Kim, Byoung-Jin;Sun, Chung-Hyun;Yi, Gwan-Su
    • Proceedings of the Korean Society for Bioinformatics Conference
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    • pp.13-20
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    • 2004
  • Grid system has the potential to resolve the current need of bioinformatics for super-computing environment inexpensively. There are already several Grid applications of bioinformatics tools. To solve the real-world bioinformatics problems, however, the various integration of each tool is necessary in addition to the implementation of more basic tools. Workflow based problem solving environment can be the efficient solution for this type of software development. There are still heavy overhead, however, to develop and implement workflow model on current Grid system. He re we propose a model of simple problem solving environment that enables component based workflow design of integrated bioinformatics applications on Grid environment by using Condor functionalities. We realized this model for practical bioinformatics solutions of a genome sequence analysis and a comparative genome analysis. We implemented necessary bioinformatics tools and interfacing tools as the components, and combine them in the workflow model of each solution by using the tools presented in Condor.

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삼성 SDS의 Bioinformatics: 사업 및 연구/개발

  • 정태수
    • Proceedings of the Korean Society for Bioinformatics Conference
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    • pp.151-163
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    • 2001
  • - Overview of Bioinformatics and vision of Samsung SDS on it - Overview of Bio Chip and its market - Product roadmap with "Expert system for DNA chip data " - "UniBIO "as an integrated package of DNA chip data analysis - Demo of UniBIO

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Genomics and Patent

  • Go, S.J.;Park, D.S.;Kim, J.;Kang, H.W.;Lee, B.M.;Seo, J.S.;Lee, G.B.
    • Proceedings of the Korean Society of Plant Pathology Conference
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    • pp.197-197
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    • 2002
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Genomics of phytoplasmal disease

  • Go, S.J.;Park, D.S.;Kim, J.;Kang, H.W.;Lee, B.M.;Seo, J.S.;Lee, G.B.
    • Proceedings of the Korean Society of Plant Pathology Conference
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    • pp.194.1-194
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    • 2002
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A Comparative Genome-Wide Analysis of GATA Transcription Factors in Fungi

  • Park, Jong-Sun;Kim, Hyo-Jeong;Kim, Soon-Ok;Kong, Sung-Hyung;Park, Jae-Jin;Kim, Se-Ryun;Han, Hyea-Young;Park, Bong-Soo;Jung, Kyong-Yong;Lee, Yong-Hwan
    • Genomics & Informatics
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    • v.4 no.4
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    • pp.147-160
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    • 2006
  • GATA transcription factors are widespread eukaryotic regulators whose DNA-binding domain is a class IV zinc finger motif in the form $CX_{2}CX_{17-20}CX_{2}C$followed by a basic region. In fungi, they act as transcriptional activators or repressors in several different processes, ranging from nitrogen source utilization to mating-type switching. Using an in-house bioinformatics portal system, we surveyed 50 fungal and 9 out-group genomes and identified 396 putative fungal GATA transcription factors. The proportion of GATA transcription factors within a genome varied among taxonomic lineages. Subsequent analyses of phylogenetic relationships among the fungal GATA transcription factors, as well as a study of their domain architecture and gene structure, demonstrated high degrees of conservation in type IVa and type IVb zinc finger motifs and the existence of distinctive clusters at least at the level of subphylum. The SFH1 subgroup with a 20-residue loop was newly identified, in addition to six well-defined subgroups in the subphylum Pezizomycotina. Furthermore, a novel GATA motif with a 2f-residue loop ($CX_{2}CX_{21}CX_{2}C$, designated 'zinc finger type IVc') was discovered within the phylum Basidiomycota. Our results suggest that fungal GATA factors might have undergone multiple distinct modes of evolution resulting in diversified cellular modulation in fungi.

An Interactive e-HealthCare Framework Utilizing Online Hierarchical Clustering Method (온라인 계층적 군집화 기법을 활용한 양방향 헬스케어 프레임워크)

  • Musa, Ibrahim Musa Ishag;Jung, Sukho;Shin, DongMun;Yi, Gyeong Min;Lee, Dong Gyu;Sohn, Gyoyong;Ryu, Keun Ho
    • Proceedings of the Korea Information Processing Society Conference
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    • pp.399-400
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    • 2009
  • As a part of the era of human centric applications people started to care about their well being utilizing any possible mean. This paper proposes a framework for real time on-body sensor health-care system, addresses the current issues in such systems, and utilizes an enhanced online divisive agglomerative clustering algorithm (EODAC); an algorithm that builds a top-down tree-like structure of clusters that evolves with streaming data to rationally cluster on-body sensor data and give accurate diagnoses remotely, guaranteeing high performance, and scalability. Furthermore it does not depend on the number of data points.

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