• Proceedings of the Korean Institute of Information and Commucation Sciences Conference
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• 1999.05a
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• pp.70-77
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• 1999

This paper was studied on utilization method of information in Tong-yeong area of which main industry is fisheries. The three kinds of network models such as Marine Information Network Model, Fisheries Industry Information Network Model, Fisheries Products Marketing Information Model were suggested with a method maximizing the utilization value of information. Marine Information Network Model dealt with information on marine environment and marine biology, Fisheries Industry Information Network with information on fisheries and fisheries culture industry, and fisheries Products Marketing Information with information on fish and fisheries culture products marketing. Service on the Web base was made possible so that a final user got the most recent information, treating on real-time base data collected from each information network.

• Journal of Physiology & Pathology in Korean Medicine
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• v.30 no.6
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• pp.419-425
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• 2016

This study analyzed research methodologies based on network pharmacology to build a new system architecture optimized for Korean Medicine research. Results form studies using network pharmacology were collected and analyzed to evaluate the strength and weakness. Finally, an improved system architecture was proposed. Whether the predicted effects of drugs or herbs from network pharmacological analyses were in agreement with those from conventioanl knowledge of Korean Medicine was evaluated. These results were used to verify the applicability of research methodologies to the modern pharmacology and Korean Medicine respectively. Eighteen papers using TCMSP were collected and analyzed. The results suggest that the research methodology based on network pharmacology is appropriate only for the modern pharmacology but not for Korean Medicine. Information about compound-compound, herb-herb and drug-compound interactions need to be considered. We propose the modified system architecture with those information.

• Genomics & Informatics
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• v.21 no.1
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• pp.6.1-6.8
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• 2023

Glaucoma is the second leading cause of irreversible blindness, and primary open-angle glaucoma (POAG) is the most common type. Due to inadequate diagnosis, treatment is often not administered until symptoms occur. Hence, approaches enabling earlier prediction or diagnosis of POAG are necessary. We aimed to identify novel drugs for glaucoma through bioinformatics and network analysis. Data from 36 samples, obtained from the trabecular meshwork of healthy individuals and patients with POAG, were acquired from a dataset. Next, differentially expressed genes (DEGs) were identified to construct a protein-protein interaction (PPI) network. In both stages, the genes were enriched by studying the critical biological processes and pathways related to POAG. Finally, a drug-gene network was constructed, and novel drugs for POAG treatment were proposed. Genes with p < 0.01 and |log fold change| > 0.3 (1,350 genes) were considered DEGs and utilized to construct a PPI network. Enrichment analysis yielded several key pathways that were upregulated or downregulated. For example, extracellular matrix organization, the immune system, neutrophil degranulation, and cytokine signaling were upregulated among immune pathways, while signal transduction, the immune system, extracellular matrix organization, and receptor tyrosine kinase signaling were downregulated. Finally, novel drugs including metformin hydrochloride, ixazomib citrate, and cisplatin warrant further analysis of their potential roles in POAG treatment. The candidate drugs identified in this computational analysis require in vitro and in vivo validation to confirm their effectiveness in POAG treatment. This may pave the way for understanding life-threatening disorders such as cancer.

• Proceedings of the Zoological Society Korea Conference
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• 2006.08a
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• pp.20-20
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• 2006

• Korean Journal of Environmental Biology
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• v.25 no.2
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• pp.149-157
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• 2007

This study focused on patterning waterbirds occurrences at the western costal area of the Korean Peninsula in winter and relating the occurrence patterns with their environmental factors. Waterbird communities were monitored at 10 different study areas, and the composition of land cover as environmental factors was estimated at each study area. Overall dabbling ducks were the most abundant with 84% of total individuals, followed by shorebird and diving ducks. Species Anae platyrhynchos was the first dominant species, and Anas formosa was the second one. Self-organizing map (SOM), an unsupervised artificial neural network, was applied for patterning wintering waterbird communities, and identified 6 groups according to the differences of communities compositions. Each group reflected the differences of indicator species as well as their habitats.

• Journal of Microbiology and Biotechnology
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• v.26 no.10
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• pp.1696-1700
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• 2016

In order to discover plant-derived signaling pathway inhibitors with antifungal properties, a two-component screening system utilizing the calcineurin and Hog1 mitogen-activated protein kinase pathways responsible for the virulence networks of Cryptococcus neoformans was employed, owing to the counter-regulatory actions of these pathways. Of the 1,000 plant extracts tested, two bioactive compounds from Miliusa sinensis were found to act specifically on the calcineurin pathway of C. neoformans. These compounds, identified as pashanone and 5-hydroxy-6,7-dimethoxyflavanone, exhibited potent antifungal activities against various human pathogenic fungi with minimum inhibitory concentration values ranging from 4.0 to >128 μg/ml.

• Korean Journal of Environmental Biology
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• v.26 no.3
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• pp.203-213
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• 2008

Benthic macro invertebrate communities were collected at six different sampling sites in the Musucheon stream in Korea from July 2006 to July 2007, and ecological exergy values were calculated based on five different functional feeding groups (collector-gatherer, collector-filterer, predator, scrapper, and shredder) of benthic macro invertebrates. Each sampling site was categorized to three stream types (perennial, intermittent and drought) based on the water flow condition. Exergy values were low at all study sites right after a heavy rain and relatively higher in the perennial stream type than in the intermittent or the drought stream type. Self-Organizing Map (SOM), unsupervised artificial neural network, was implemented to pattern spatial and temporal dynamics of ecological exergy of the study sites. SOM classified samples into four clusters. The classification reflected the effects of floods and droughts on benthic macroinvertebrate communities, and was mainly related with the stream types of the sampling sites. Exergy values of each functional feeding group also responded differently according to the different stream types. Finally, the results showed that exergy is an effective ecological indicator, and patterning changes of exergy using SOM is an effective way to evaluate target ecosystems.

• IMMUNE NETWORK
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• v.15 no.3
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• pp.161-166
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• 2015

Early growth response (Egr)-1 is a $Cys_2-His_2-type$ zincfinger transcription factor. It has been shown to induce survival and proliferation of immature and mature B cells, respectively, but its role in the differentiation of B cells into plasma cells remains unclear. To examine the effects of Egr-1 deficiency on the activation of B cells, naive B cells from $Egr1^{-/-}$mice and their wild-type (WT) littermates were activated to proliferate and differentiate, and then assayed by FACS. Proportions of cells undergoing proliferation and apoptosis did not differ between $Egr1^{-/-}$ and WT mice. However, $Egr1^{-/-}$ B cells gave rise to fewer plasma cells than WT B cells. Consistently, $Egr1^{-/-}$ mice produced significantly lower titer of antigen-specific IgG than their WT littermates upon immunization. Our results demonstrate that Egr-1 participates in the differentiation program of B cells into plasma cells, while it is dispensable for the proliferation and survival of mature B cells.

• IMMUNE NETWORK
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• v.15 no.1
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• pp.44-49
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• 2015

Interactions between microbes and epithelial cells in the gastrointestinal tract are closely associated with regulation of intestinal mucosal immune responses. Recent studies have highlighted the modulation of mucosal immunity by microbe-derived molecules such as ATP and short-chain fatty acids. In this study, we undertook to characterize the expression of the ATP-gated $P2X_7$ receptor ($P2X_7R$) on M cells and its role in gastrointestinal mucosal immune regulation because it was poorly characterized in Peyer's patches, although purinergic signaling via $P2X_7R$ and luminal ATP have been considered to play an important role in the gastrointestinal tract. Here, we present the first report on the expression of $P2X_7R$ on M cells and characterize the role of $P2X_7R$ in immune enhancement by ATP or LL-37.

• Journal of Veterinary Science
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• v.19 no.6
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• pp.798-807
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• 2018

Several studies have reported the effect of absorption of procyanidins and their contribution to the small intestine. However, differences between dietary interventions of procyanidins and interventions via antibiotic feeding in pigs are rarely reported. Following 16S rRNA gene Illumina MiSeq sequencing, we observed that both procyanidin administration for 2 months (procyanidin-1 group) and continuous antibiotic feeding for 1 month followed by procyanidin for 1 month (procyanidin-2 group) increased the number of operational taxonomic units, as well as the Chao 1 and ACE indices, compared to those in pigs undergoing antibiotic administration for 2 months (antibiotic group). The genera Fibrobacter and Spirochaete were more abundant in the antibiotic group than in the procyanidin-1 and procyanidin-2 groups. Principal component analysis revealed clear separations among the three groups. Additionally, using the online Molecular Ecological Network Analyses pipeline, three co-occurrence networks were constructed; Lactobacillus was in a co-occurrence relationship with Trichococcus and Desulfovibrio and a co-exclusion relationship with Bacillus and Spharerochaeta. Furthermore, metabolic function analysis by phylogenetic investigation of communities by reconstruction of unobserved states demonstrated modulation of pathways involved in the metabolism of carbohydrates, amino acids, energy, and nucleotides. These data suggest that procyanidin influences the gut microbiota and the intestinal metabolic function to produce beneficial effects on metabolic homeostasis.