• 한국생물정보학회:학술대회논문집
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• 한국생물정보시스템생물학회 2005년도 BIOINFO 2005
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• pp.366-370
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• 2005

Tissue microarry is one of the high throughput technologies in the post-genomic era. Using tissue microarray, the researchers are able to investigate large amount of gene expressions at the level of DNA, RNA, and protein The important aspect of tissue microarry is its ability to assess a lot of biomarkers which have been used in clinical practice. To manipulate the categorical data of tissue microarray, we applied Bayesian network classifier algorithm. We identified that Bayesian network classifier algorithm could analyze tissue microarray data and integrating prior knowledge about gastric cancer could achieve better performance result. The results showed that relevant integration of prior knowledge promote the prediction accuracy of survival status of the immunohistochemical tissue microarray data of 18 tumor suppressor genes. In conclusion, the application of Bayesian network classifier seemed appropriate for the analysis of the tissue microarray data with clinical information.

• Journal of Multimedia Information System
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• 제3권3호
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• pp.47-52
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• 2016

This research paper examines the usage of graphic imaging in Holographic Projections to further advance the medical field. It highlights the importance and necessity of this technology as well as avant-garde techniques applied in the process of displaying images in digital holography. This paper also discusses the different types of applications for holograms in society today. Different tools were utilized to transfer a set of a cancer patient's brain tumor data into data used to produce a 3D holographic image. This image was produced through the transfer of data from one program to another. Through the use of semi-automatic segmentation through the seed region method, we were able to create a 3D visualization from Computed Tomography (CT) data.

• Communications for Statistical Applications and Methods
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• 제29권4호
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• pp.453-469
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• 2022

The study of immune cellular composition has been of great scientific interest in immunology because of the generation of multiple large-scale data. From the statistical point of view, such immune cellular data should be treated as compositional. In compositional data, each element is positive, and all the elements sum to a constant, which can be set to one in general. Standard statistical methods are not directly applicable for the analysis of compositional data because they do not appropriately handle correlations between the compositional elements. In this paper, we review statistical methods for compositional data analysis and illustrate them in the context of immunology. Specifically, we focus on regression analyses using log-ratio transformations and the alternative approach using Dirichlet regression analysis, discuss their theoretical foundations, and illustrate their applications with immune cellular fraction data generated from colorectal cancer patients.

• Genomics & Informatics
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• 제18권2호
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• pp.24.1-24.7
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• 2020

Despite a growing number of natural language processing shared-tasks dedicated to the use of Twitter data, there is currently no ad-hoc annotation tool for the purpose. During the 6th edition of Biomedical Linked Annotation Hackathon (BLAH), after a short review of 19 generic annotation tools, we adapted GATE and TextAE for annotating Twitter timelines. Although none of the tools reviewed allow the annotation of all information inherent of Twitter timelines, a few may be suitable provided the willingness by annotators to compromise on some functionality.

• Genomics & Informatics
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• 제18권2호
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• pp.13.1-13.6
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• 2020

The prototype version of the full-text corpus of Genomics & Informatics has recently been archived in a GitHub repository. The full-text publications of volumes 10 through 17 are also directly downloadable from PubMed Central (PMC) as XML files. During the Biomedical Linked Annotation Hackathon 6 (BLAH6), we experimented with converting, annotating, and updating 301 PMC full-text articles of Genomics & Informatics using PubAnnotation, a system that provides a convenient way to add PMC publications based on PMCID. Thus, this review aims to provide a tutorial overview of practicing the iterative task of named entity recognition with the PubAnnotation/PubDictionaries/TextAE ecosystem. We also describe developing a conversion tool between the Genia tagger output and the JSON format of PubAnnotation during the hackathon.

• Journal of Microbiology and Biotechnology
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• 제12권6호
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• pp.1026-1028
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• 2002

Screening tests against fungus causing rice blast, Magnaporthe grisea, were performed in order to develop biopesticides. More than 400 actinomycetes collected at several sites near Hanla Mountain on Jeju Island, Korea were tested, and strain BG2-53 showed potent antifungal activity. The in vivo screening was performed with fermentation broth, and the strain taxon was identified.

• Genomics & Informatics
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• 제17권2호
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• pp.13.1-13.3
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• 2019

The usage of controlled biomedical vocabularies is the cornerstone that enables seamless interoperability when using a common data model across multiple data sites. The Observational Health Data Science and Informatics (OHDSI) initiative combines over 100 controlled vocabularies into its own. However, the OHDSI vocabulary is limited in the sense that it combines multiple terminologies and does not provide a direct way to link them outside of their own self-contained scope. This issue makes the tasks of enriching feature sets by using external resources extremely difficult. In order to address these shortcomings, we have created a linked data version of the OHDSI vocabulary, connecting it with already established linked resources like bioportal, bio2rdf, etc. with the ultimate purpose of enabling the interoperability of resources previously foreign to the OHDSI universe.

• Korean Journal of Radiology
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• 제23권5호
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• pp.495-499
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• 2022

• Journal of Computing Science and Engineering
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• 제2권2호
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• pp.109-136
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• 2008

In this survey paper, we discuss biomedical ontologies and major text mining techniques applied to biomedicine and healthcare. Biomedical ontologies such as UMLS are currently being adopted in text mining approaches because they provide domain knowledge for text mining approaches. In addition, biomedical ontologies enable us to resolve many linguistic problems when text mining approaches handle biomedical literature. As the first example of text mining, document clustering is surveyed. Because a document set is normally multiple topic, text mining approaches use document clustering as a preprocessing step to group similar documents. Additionally, document clustering is able to inform the biomedical literature searches required for the practice of evidence-based medicine. We introduce Swanson's UnDiscovered Public Knowledge (UDPK) model to generate biomedical hypotheses from biomedical literature such as MEDLINE by discovering novel connections among logically-related biomedical concepts. Another important area of text mining is document classification. Document classification is a valuable tool for biomedical tasks that involve large amounts of text. We survey well-known classification techniques in biomedicine. As the last example of text mining in biomedicine and healthcare, we survey information extraction. Information extraction is the process of scanning text for information relevant to some interest, including extracting entities, relations, and events. We also address techniques and issues of evaluating text mining applications in biomedicine and healthcare.

• Journal of Microbiology and Biotechnology
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• 제16권3호
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• pp.465-468
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• 2006

Even though many pesticides are known for barley powdery mildew and wheat leaf rust, alternative controls are necessary, because of consumer rejection of chemical pesticides and the appearance of fungi resistant to fungicides. To discover biopesticides, many broths of microorganisms were screened. Of those, a culture broth of Burkholderia ambifaria showed an excellent antifungal activity against both Erysiphe graminis and Puccinia recondita, which cause barley powdery mildew and wheat leaf rust, respectively.