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Development of KHapmap Browser using DAS for Korean HapMap Research

  • Jin, Hoon;Kim, Seung-Ho;Kim, Young-Uk;Park, Young-Kyu;Ji, Mi-Hyun;Kim, Young-Joo
    • Genomics & Informatics
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    • v.6 no.2
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    • pp.57-63
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    • 2008
  • The Korean HapMap Project has been carried out for the last 5 years since it started in June, 2003. The project generated data for a sum of 1,764,000 Korean SNPs and formally registered the data to the dbSNP of NCBI (The dbSNP website. 2008). We have developed a series of software programs for association studies as well as for the comparison and analysis of Korean HapMap data with four other populations (CEPH, Yoruba, Han Chinese, and Japanese populations). The KHapmap Browser was developed and integrated to provide haplotype retrieval and comparative study tools of human ethnicities for comprehensive disease association studies (http://www.khapmap.org). On that basis, GBrowse was adopted in the KHapmap Browser for inherent Korean genetic data, and a provision of extended services was pledged with the distributed sequence annotation system (DAS). The dynamic linking service of the KHapmap Browser to other tools in our intranetwork environment provides many enhanced functions over GBrowse without DAS. KHapmap Browser is expected to be an invaluable tool for the study of Korean and international Hapmap data.

Review of the Korean Vernacular Names of Cetaceans (한반도 근해 고래류의 한국어 일반명에 대한 고찰)

  • Sohn, Hawsun;An, Du Hae;Kim, Doo Nam
    • Korean Journal of Fisheries and Aquatic Sciences
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    • v.45 no.5
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    • pp.513-522
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    • 2012
  • This paper reviews the Korean vernacular names of 35 cetacean species found in Korean waters and mentioned in 19 references, including laws, high school textbooks, and books on whales. The vernacular names of 16 species were identical in all sources examined. Some names have their origins in old Korean books, while others have recently entered public awareness through movies, TV programs, and the mass media; some species are frequently studied by researchers. Given the nature of vernacular names, that is, names used by people who live in sympatry with the animals, priority was not given high consideration in this paper. Instead, we carefully investigated the origin, publicity, and rationale of the Korean common names for the 35 species. All of these Korean names are also listed in "The World Cetacea Database (http://www.marinespecies.org/cetacea/)," which contains the most accurate cetacean systematic information on the Web.

A Theoretical Framework for Closeness Centralization Measurements in a Workflow-Supported Organization

  • Kim, Min-Joon;Ahn, Hyun;Park, Min-Jae
    • KSII Transactions on Internet and Information Systems (TIIS)
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    • v.9 no.9
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    • pp.3611-3634
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    • 2015
  • In this paper, we build a theoretical framework for quantitatively measuring and graphically representing the degrees of closeness centralization among performers assigned to enact a workflow procedure. The degree of closeness centralization of a workflow-performer reflects how near the performer is to the other performers in enacting a corresponding workflow model designed for workflow-supported organizational operations. The proposed framework comprises three procedural phases and four functional transformations, such as discovery, analysis, and quantitation phases, which carry out ICN-to-WsoN, WsoN-to-SocioMatrix, SocioMatrix-to-DistanceMatrix, and DistanceMatrix-to-CCV transformations. We develop a series of algorithmic formalisms for the procedural phases and their transformative functionalities, and verify the proposed framework through an operational example. Finally, we expatiate on the functional expansion of the closeness centralization formulas so as for the theoretical framework to handle a group of workflow procedures (or a workflow package) with organization-wide workflow-performers.

New Trend of Scholarly Communication : Open Access (학술 커뮤니케이션의 새로운 동향 : 자유이용을 중심으로)

  • Lee, Too-Young;Hwang, Ok-Gyung
    • Journal of Information Management
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    • v.34 no.2
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    • pp.1-23
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    • 2003
  • The serials pricing and licensing crises have caused the problem of limited access to scholarly information and the problem of its preservation. To cope with these crises, various types of scholarly communication models are under study now. Open Access is one of the possible solutions among these new trials. This study has investigated the history of Open Access, articulated the first considerations for the spread of Open Access, and proposed the role of librarians during the progress.

Sustainability education in textile and apparel programs in higher education - A web-based content analysis -

  • Yoh, Eunah;Kim, Hye-Shin
    • The Research Journal of the Costume Culture
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    • v.26 no.2
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    • pp.203-216
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    • 2018
  • This study explores sustainability education in textile and apparel (T&A) programs in U.S. higher education institutions. Specifically, the researchers study whether more courses with sustainability focus are offered in higher-ranked institutions and explore whether sustainability is taught more in specific T&A related subject fields. Content analysis was conducted for 3,200 courses found in online course catalogs or the course information sites of 69 institutions. Institutions were selected from the 2015 rankings of the top 50 fashion design and top 50 fashion merchandising schools in the US on www.fashion-schools.org. All cases were coded by two coders with a Cohen's Kappa score of 97.5%, indicating good interrater reliability. Coded data were analyzed through descriptive statistics, correlation analysis, and t-tests. The findings show that sustainability is being integrated into the curricula and across courses of T&A programs in the U.S. Over half of the institution surveyed offered at least one sustainability embedded course. Higher ranked institutions provided more sustainability-related courses than power-ranked institutions. A natural match between the subject field and specific sustainability theme was observed (e.g., cultural diversity in history/culture and social psychology/education; recycle/reuse in textile science; sustainability in fashion design; social responsibility and ethics in industry/consumer). The need to introduce sustainability in courses holistically is discussed, whereby sustainability within the industry supply chain is examined in a connected way.

A Study on the Delayed-Retardation of Fatigue Crack Growth Following Single Peak Overload (단일과대하중에 의한 피로균열추전의 지대지연현상에 관한 연구)

  • 오세욱;강상훈
    • Transactions of the Korean Society of Mechanical Engineers
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    • v.14 no.5
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    • pp.1186-1192
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    • 1990
  • It is well known that the fatigue crack growth retardation following overloads can be estimated reasonably well by the models of Wheeler and Willenborg. These models, however, can not explain the delayed-retardation revealed by every experimental result. This means that they necessarily have some qualitative defects in themselves despite of a fair approximation of quantity. In fact, they did not take into account the effects of the compressive portion of the overload cycle such as the change of reversed plastic zone size. The present study is focused on the acceleration effect in the reversed plastic zone in order to analyze qualitatively delayed-retardation phenomenon following single peak overload on the fatigue crack growth behavior using 2024-T3 aluminum alloy.

Evaluation of a New Episomal Vector Based on the GAP Promoter for Structural Genomics in Pichia pastoris

  • Hong In-Pyo;Anderson Stephen;Choi Shin-Geon
    • Journal of Microbiology and Biotechnology
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    • v.16 no.9
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    • pp.1362-1368
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    • 2006
  • A new constitutive episomal expression vector, pGAPZ-E, was constructed and used for initial screening of eukaryotic target gene expression in Pichia pastoris. Two reporter genes such as beta-galactosidase gene and GFPuv gene were overexpressed in P. pastoris. The expression level of the episomal pGAPZ-E strain was higher than that of the integrated form when the beta-galactosidase gene was used as the reporter gene in P. pastoris X33. The avoiding of both the integration procedure and an induction step simplified the overall screening process for eukaryotic target gene expression in P. pastoris. Nine human protein targets from the Core 50, family of Northeast Structural Genomics Consortium (http://www.nesg.org), which were intractable when expressed in E. coli, were subjected to rapid screening for soluble expression in P. pastoris. HR547, HR919, and HR1697 human proteins, which had previously been found to express poorly or to be insoluble in E. coli, expressed in soluble form in P. pastoris. Therefore, the new episomal GAP promoter vector provides a convenient and alternative system for high-throughput screening of eukaryotic protein expression in P. pastoris.

BioCC: An Openfree Hypertext Bio Community Cluster for Biology

  • Gong Sung-Sam;Kim Tae-Hyung;Oh Jung-Su;Kwon Je-Keun;Cho Su-An;Bolser Dan;Bhak Jong
    • Genomics & Informatics
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    • v.4 no.3
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    • pp.125-128
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    • 2006
  • We present an openfree hypertext (also known as wiki) web cluster called BioCC. BioCC is a novel wiki farm that lets researchers create hundreds of biological web sites. The web sites form an organic information network. The contents of all the sites on the BioCC wiki farm are modifiable by anonymous as well as registered users. This enables biologists with diverse backgrounds to form their own Internet bio-communities. Each community can have custom-made layouts for information, discussion, and knowledge exchange. BioCC aims to form an ever-expanding network of openfree biological knowledge databases used and maintained by biological experts, students, and general users. The philosophy behind BioCC is that the formation of biological knowledge is best achieved by open-minded individuals freely exchanging information. In the near future, the amount of genomic information will have flooded society. BioGG can be an effective and quickly updated knowledge database system. BioCC uses an opensource wiki system called Mediawiki. However, for easier editing, a modified version of Mediawiki, called Biowiki, has been applied. Unlike Mediawiki, Biowiki uses a WYSIWYG (What You See Is What You Get) text editor. BioCC is under a share-alike license called BioLicense (http://biolicense.org). The BioCC top level site is found at http://bio.cc/

Standard-based Integration of Heterogeneous Large-scale DNA Microarray Data for Improving Reusability

  • Jung, Yong;Seo, Hwa-Jeong;Park, Yu-Rang;Kim, Ji-Hun;Bien, Sang Jay;Kim, Ju-Han
    • Genomics & Informatics
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    • v.9 no.1
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    • pp.19-27
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    • 2011
  • Gene Expression Omnibus (GEO) has kept the largest amount of gene-expression microarray data that have grown exponentially. Microarray data in GEO have been generated in many different formats and often lack standardized annotation and documentation. It is hard to know if preprocessing has been applied to a dataset or not and in what way. Standard-based integration of heterogeneous data formats and metadata is necessary for comprehensive data query, analysis and mining. We attempted to integrate the heterogeneous microarray data in GEO based on Minimum Information About a Microarray Experiment (MIAME) standard. We unified the data fields of GEO Data table and mapped the attributes of GEO metadata into MIAME elements. We also discriminated non-preprocessed raw datasets from others and processed ones by using a two-step classification method. Most of the procedures were developed as semi-automated algorithms with some degree of text mining techniques. We localized 2,967 Platforms, 4,867 Series and 103,590 Samples with covering 279 organisms, integrated them into a standard-based relational schema and developed a comprehensive query interface to extract. Our tool, GEOQuest is available at http://www.snubi.org/software/GEOQuest/.

Living Science of Table Salt in Human Ecology -Common Salt, Health and Environment- (인간생태계에서의 소금의 생활과학 - 소금. 건강. 환경 -)

  • Fujino, Yasuhiko
    • Journal of the East Asian Society of Dietary Life
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    • v.9 no.2
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    • pp.230-244
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    • 1999
  • 1) Table salt (=NaCl=common salt=salt) is scientifically characterized, and the significant role in dietary and daily life has generally been discussed from the standpoint of human ecology. 2) In dietary life, salt fundamentally gives a deliciousness to dishes and nutro-physiologically functions to keep homeostasis in the body. Meanwhile, the excessive intake of salt often causes the high blood pressure and induces several fatal diseases. 3) In daily life, salt derivatives(Na-, Cl-compound) are quite useful widely over food, clothing and housing. Meanwhile, some of them especially organochlorine compounds often pollute the environment and damage the humans and or ecology as so-called environmental hormone resulting in dioxins. 4) For the ambivalence of salt in health and environment, humans, but not salt, are wholly responsible. The fact would go not only to salt but also generally to resources on the earth. 5) Humans should adequately be moderate in utilizations and consumptions of salt and or resources. Everything must be kept with in bounds. This conception would surely bring the stable maintenance and the sound development to the system of human ecology as well as global ecology.

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