• The Journal of the Korea Contents Association
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• v.22 no.5
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• pp.15-25
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• 2022

This study aims to identify the family and lineage of a part of a "Fish Tribe Conference" in the section Tokkijeon by utilizing computer literature analysis techniques. First of all, we encode the classification for a pairwise comparison's type of each paragraph to build a corpus, and based on this, we use the Hamming distance to calculate the distance matrix between each classification for a pairwise comparison's. We visualized classification for a pairwise comparison's clustering pattern by applying multidimensional scale method, and hierarchical clustering to explore the characteristics of the 'fish family' line and lineage compared to the existing cluster analysis study on entire paragraphs of "Tokkijeon". As a result, unlike the cluster analysis of the entire paragraph of "Tokkijeon", which consists of six categories, the "Fish Tribe Conference" section has five categories and some classification for a pairwise comparison's accesses. The results of this study are that the relative distance between Yibon was measured and systematic classification was performed in an objective and empirical way by calculation, and the characteristics of the line of the fish family were revealed compared to the analysis of the entire rabbit exhibition.

• BMB Reports
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• v.43 no.2
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• pp.115-121
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• 2010

A large data set of Hanwoo (Korean cattle) ESTs was analyzed to obtain differential gene expression results for the following three libraries: intramuscular fat, longissimus dorsi muscle and liver. To better understand the gene expression profiles, we identified differentially expressed genes (DEGs) via digital gene expression analysis. Hierarchical clustering of genes was performed according to their relative abundance within the six separate groups (Hanwoo fat versus non-Hanwoo fat, Hanwoo muscle versus non-Hanwoo muscle and Hanwoo liver versus non-Hanwoo liver), producing detailed patterns of gene expression. We determined the quantitative traits associated with the highly expressed genes. We also provide the first list of putative regulatory elements associated with differential tissue expression in Hanwoo cattle. In addition, we conducted evolutionary analysis that suggests a subset of genes accelerated in the bovine lineage are strongly correlated with their expression in Hanwoo muscle.

• Genomics & Informatics
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• v.15 no.1
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• pp.28-37
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• 2017

Obesity is a highly prevalent, chronic disorder that has been increasing in incidence in young patients. Both epigenetic and genetic aberrations may play a role in the pathogenesis of obesity. Therefore, in-depth epigenomic and genomic analyses will advance our understanding of the detailed molecular mechanisms underlying obesity and aid in the selection of potential biomarkers for obesity in youth. Here, we performed microarray-based DNA methylation and gene expression profiling of peripheral white blood cells obtained from six young, obese individuals and six healthy controls. We observed that the hierarchical clustering of DNA methylation, but not gene expression, clearly segregates the obese individuals from the controls, suggesting that the metabolic disturbance that occurs as a result of obesity at a young age may affect the DNA methylation of peripheral blood cells without accompanying transcriptional changes. To examine the genome-wide differences in the DNA methylation profiles of young obese and control individuals, we identified differentially methylated CpG sites and investigated their genomic and epigenomic contexts. The aberrant DNA methylation patterns in obese individuals can be summarized as relative gains and losses of DNA methylation in gene promoters and gene bodies, respectively. We also observed that the CpG islands of obese individuals are more susceptible to DNA methylation compared to controls. Our pilot study suggests that the genome-wide aberrant DNA methylation patterns of obese individuals may advance not only our understanding of the epigenomic pathogenesis but also early screening of obesity in youth.

• Food Science of Animal Resources
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• v.42 no.5
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• pp.874-888
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• 2022

This study aimed to compare the similarities, physicochemical properties, and muscle fiber characteristics of porcine skeletal muscles. Fourteen types of muscles were collected from nine pig carcasses at 24 h post-mortem and classified by muscle architecture into two main groups, namely parallel and pennate. The muscles were further differentiated into three subtypes per group. These included fan-shaped, fusiform, and strap for the parallel group, and unipennate, bipennate, and multipennate for the pennate group. Parallel-fibered muscles, which were composed of larger I, IIA, IIX, and IIXB fibers and a lower density of IIA fibers, showed higher redness and yellowness values than pennate-fibered muscles (p<0.05). However, the relative fiber area was not significantly different between the parallel and pennate groups (p>0.05). In the subtypes of parallel architecture, the strap group showed lower moisture content and higher redness values than the other subtypes and had considerably higher amounts of oxidative fibers (I and IIA; 72.3%) than the fan-shaped and fusiform groups (p<0.05). In the pennate group, unipennate showed comparatively lower moisture content and higher lightness than other pennate subtypes and was composed of smaller I, IIA, and IIX fibers than the bipennate and multipennate groups (p<0.05). Finally, a different trend of muscle clustering by hierarchical cluster analysis was found between physicochemical properties and muscle fiber characteristics. These results suggest that the physicochemical properties and muscle fiber characteristics of porcine skeletal muscles are not significantly dependent on morphological properties but are rather related to the intrinsic properties of the individual muscles.

• Korean Journal of Environmental Biology
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• v.31 no.1
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• pp.19-36
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• 2013

Physiochemical characters of sea waters during summer flood- and winter dry-seasons and their spatial variations were investigated along the coastal area off the eastern South Sea, Korea. Using the hierarchical clustering method, in this study, we present comprehensive analyses of coastal waters masses and their seasonal variations. The results revealed that the coastal water of the study area was classified into six water masses (A to F). During summer season, the surface water was mainly occupied by the coastal pseudo-estuarine water (water mass B) with low salinity and high nutrients and the river-dominated coastal water (water mass C) with low nutrients, respectively. The bottom water was dominated by cold water (water mass D) with very low temperature, high salinity and high nutrients, compared to masses of surface water. Notably, the water mass B, with high concentrations of nutrients (silicate and nitrogen) and low salinity, which is strongly controlled by the water quality of river freshwater, seems to play an important role in controlling the water quality and further regulating physical processes on ecosystem in the eastern coastal area of South Sea. The water mass D (bottom cold water) coupled with a strong thermocline, which exists in near-bottom layer along the western margin of Korea Strait, has a low temperature, pH and DO, but abundant nutrients. This water mass disappears in winter owing to strong vertical mixing, and subsequently may act as a pool for nutrients during winter dry-season. On the other hand, vertically well-mixed water column during the winter season was typically occupied by the Tsushima (water mass E) and the coastal water (water mass F) with a development of coastal front formed in a transition zone between them. These winter water masses were characterized by low nutrient concentration and balance in N/P ratio, compared with summer season with high nutrient concentrations and strong N-limitation. Accordingly, the analysis of water masses will help one to better chemical and biological processes in coastal area. In most of the study area, characteristically, the growth of phytoplankton community is limited by nitrogen, which is clearly different with coastal environment of West Sea of Korea, with a relative lack of phosphorus. It showed the western and the southern coasts in Korea are substantially different from each other in environmental and ecological characteristics.