• Journal of electromagnetic engineering and science
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• v.10 no.4
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• pp.231-236
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• 2010

This study proposes a temperature compensation method of the complex permittivities of biological tissues and organs. The method is based on the temperature dependence of the Debye model of water, which has been thoroughly investigated. This method was applied to measured data at room temperature for whole blood, kidney cortex, bile, liver, and heart muscle. It is shown that our method can compensate for the Cole-Cole model using measured data at 20 $^{\circ}C$, given the Cole-Cole model based on measured data at 35 $^{\circ}C$, with a root-mean-squared deviation of 3~11 % and 2~6 % for the real and imaginary parts of the complex permittivities, respectively, among the measured tissues.

• Genomics & Informatics
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• v.2 no.2
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• pp.99-106
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• 2004

In this paper we introduce PubMiner, an intelligent machine learning based text mining system for mining biological information from the literature. PubMiner employs natural language processing techniques and machine learning based data mining techniques for mining useful biological information such as protein­protein interaction from the massive literature. The system recognizes biological terms such as gene, protein, and enzymes and extracts their interactions described in the document through natural language processing. The extracted interactions are further analyzed with a set of features of each entity that were collected from the related public databases to infer more interactions from the original interactions. An inferred interaction from the interaction analysis and native interaction are provided to the user with the link of literature sources. The performance of entity and interaction extraction was tested with selected MEDLINE abstracts. The evaluation of inference proceeded using the protein interaction data of S. cerevisiae (bakers yeast) from MIPS and SGD.

• Genomics & Informatics
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• v.11 no.4
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• pp.200-210
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• 2013

Studying biological networks, such as protein-protein interactions, is key to understanding complex biological activities. Various types of large-scale biological datasets have been collected and analyzed with high-throughput technologies, including DNA microarray, next-generation sequencing, and the two-hybrid screening system, for this purpose. In this review, we focus on network-based approaches that help in understanding biological systems and identifying biological functions. Accordingly, this paper covers two major topics in network biology: reconstruction of gene regulatory networks and network-based applications, including protein function prediction, disease gene prioritization, and network-based genome-wide association study.

• Journal of Biosystems Engineering
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• v.28 no.4
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• pp.343-350
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• 2003

This study was conducted to find out the coefficient relationships between intensity values of image processing and biological/physical parameters of soil in greenhouses. Soil images were obtained by an image processing system consisting of a personal computer and a CCD earners. A software written in Visual C$\^$++/ systematically integrated the functions of image capture, image processing, and image analysis. Image processing data of the soil samples were analyzed by the method of regression analysis. The results are as follows. For detecting soil density of unbroken soil samples, the highest correlation coefficients of 0.82 and 0.84, respectively were obtained fur R-value and S-value among image processing data while it was 0.97 for G-value. Considering the relationship between biological characteristics and image processing data of soil in greenhouse, the correlation was found generally low. For pH of unbroken soil sample, the correlation coefficients were found 0.87, 0.85, and 0.94, respectively with G, I, and H values of image processing data. In the case of bacteria, any correlation was not found with the image processing data For Actinomyctes, they were 0.86 and 0.85, respectively with G-value and B-value of image processing data showing high correlation coefficient compared to the other variables. The correlation coefficient between Fungi and H-value was shown 0.88, the highest among the variables higher than 0.8 while the other variables showed low correlation. For broken soil samples from greenhouse, the relation between biological parameter and image processing data were rarely shown in this study. The results of this study indicated that most of correlation coefficient between the variables were usually lower than 0.01. Accordingly, it was assumed that the soil should be used without broken to fairly estimate biological characteristics using CCD camera.

• The KIPS Transactions:PartD
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• v.15D no.6
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• pp.861-872
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• 2008

As rapid development of computing environment, field of automatic identification research which interoperates with various physical objects and digital information is making active progress. Although the automatic identification system is widely used in various industries, application of automatic identification system in the field of medical health doesn't reach other industry. Therefore research in medical health supplies such as medical equipment, blood, human tissues and etc is on progress. This paper suggests the application of automatic identification technology for biological resources which is core research material in human genome research. First of all, user environment requirements for the introduction of automatic identification technology are defined and through the experiments and research, barcode is selected as a suitable tag interface. Data Matrix which is 2D barcode symbology is chosen and data schema is designed based on UCC/EAN-128 for international defecto standard. To showapplicability of proposed method when applied to actual environment, we developed, tested and evaluated application as following methods. Experiments of barcode read time at 196 and 75 below zero which is actual temperature where biological resources are preserved resulted read speed of average of 1.6 second and the data schema satisfies requirements for the biological resources application. Therefore suggested method can provide data reliability as well as rapid input of data in biological resources information processing.

• Journal of Korean Biological Nursing Science
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• v.11 no.2
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• pp.183-194
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• 2009

Purpose: It is aimed to empirically apply and examine the effects of Creative Training Techniques (CTT) that focus on student-centered educational environment to an anatomy subject for biological nursing science education. Methods: A triangulation that combines cross-sectional survey and content analysis was used and the data were collected in 2008. Participants were 301 freshmen students attending one junior nursing college in Seoul, Korea. A questionnaire was distributed to 301 students, 289 of whom responded (response rate 96.0%), and used for data analysis. Factor analysis, reliability analysis, and descriptive statistics were conducted by using data analysis SPSS 14.0 KO for Windows programs. In addition contents analysis was conducted. Results: 1) CTT Increased the relationship between professor and students ($3.12{\pm}0.92$), 2) Students preferred the various team leader choosing method ($3.25{\pm}0.93$), 3) Model and image materials helped the learning ($3.71{\pm}0.89$). Conclusion: CTT can be used to enhance students' learning effectiveness. Intervention programs intensified by CTT may be useful to improve students' learning abilities in nursing science education.

• Genomics & Informatics
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• v.11 no.3
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• pp.102-113
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• 2013

Metagenomics has become one of the indispensable tools in microbial ecology for the last few decades, and a new revolution in metagenomic studies is now about to begin, with the help of recent advances of sequencing techniques. The massive data production and substantial cost reduction in next-generation sequencing have led to the rapid growth of metagenomic research both quantitatively and qualitatively. It is evident that metagenomics will be a standard tool for studying the diversity and function of microbes in the near future, as fingerprinting methods did previously. As the speed of data accumulation is accelerating, bioinformatic tools and associated databases for handling those datasets have become more urgent and necessary. To facilitate the bioinformatics analysis of metagenomic data, we review some recent tools and databases that are used widely in this field and give insights into the current challenges and future of metagenomics from a bioinformatics perspective.

• Journal of Life Science
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• v.16 no.3 s.76
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• pp.472-476
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• 2006

We have built a database server called HorseDB which contains the genome annotation information and biological information for horse from public database entries. The aims of HorseDB are the integration of biological information and horse genome data on genome scale using bioinformatic methods. To facilitate the extraction of useful information among collected horse genome and biological data, we developed a user-friendly interface system, HorseDB; an Integrated Horse Resource and web Service. The database is categorized by the general horse information data, a sequence annotation data, and a world-wide web analysis program interface. The database also provides an easy access for user to find out the useful information within horse genomes and support analyzed information, such as sequence alignment and gene annotation results. HorseDB can be accessed at http://www.primate.or.kr./horse.

• BMB Reports
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• v.53 no.6
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• pp.299-310
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• 2020

Chronic liver disease progresses through several stages, fatty liver, steatohepatitis, cirrhosis, and eventually, it leads to hepatocellular carcinoma (HCC) over a long period of time. Since a large proportion of patients with HCC are accompanied by cirrhosis, it is considered to be an important factor in the diagnosis of liver cancer. This is because cirrhosis leads to an irreversible harmful effect, but the early stages of chronic liver disease could be reversed to a healthy state. Therefore, the discovery of biomarkers that could identify the early stages of chronic liver disease is important to prevent serious liver damage. Biomarker discovery at liver cancer and cirrhosis has enhanced the development of sequencing technology. Next generation sequencing (NGS) is one of the representative technical innovations in the biological field in the recent decades and it is the most important thing to design for research on what type of sequencing methods are suitable and how to handle the analysis steps for data integration. In this review, we comprehensively summarized NGS techniques for identifying genome, transcriptome, DNA methylome and 3D/4D chromatin structure, and introduced framework of processing data set and integrating multi-omics data for uncovering biomarkers.

• Mycobiology
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• v.46 no.4
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• pp.297-304
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• 2018

Two new records of Trichocomaceae, namely Aspergillus allahabadii and Penicillium sizovae, were isolated in 2016 during a survey of fungal diversity in different crop fields locations in Gyeongnam, Korea. These species were identified based on morphological characters and phylogenetic analysis using internal transcribed spacer region and ${\beta}-tubulin$-encoding gene sequence data. A. allahabadii and P. sizovae have not yet been reported in Korea. Thus, this is the first report of these species in Korea, and their descriptions as well as details of their morphological characters are presented.