• Genomics & Informatics
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• v.16 no.4
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• pp.23.1-23.5
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• 2018

Virus taxonomy was initially determined by clinical experiments based on phenotype. However, with the development of sequence analysis methods, genotype-based classification was also applied. With the development of genome sequence analysis technology, there is an increasing demand for virus taxonomy to be extended from in vivo and in vitro to in silico. In this study, we verified the consistency of the current International Committee on Taxonomy of Viruses taxonomy using an in silico approach, aiming to identify the specific sequence for each virus. We applied this approach to norovirus in Caliciviridae, which causes 90% of gastroenteritis cases worldwide. First, based on the dogma "protein structure determines its function," we hypothesized that the specific sequence can be identified by the specific structure. Firstly, we extracted the coding region (CDS). Secondly, the CDS protein sequences of each genus were annotated by the conserved domain database (CDD) search. Finally, the conserved domains of each genus in Caliciviridae are classified by RPS-BLAST with CDD. The analysis result is that Caliciviridae has sequences including RNA helicase in common. In case of Norovirus, Calicivirus coat protein C terminal and viral polyprotein N-terminal appears as a specific domain in Caliciviridae. It does not include in the other genera in Caliciviridae. If this method is utilized to detect specific conserved domains, it can be used as classification keywords based on protein functional structure. After determining the specific protein domains, the specific protein domain sequences would be converted to gene sequences. This sequences would be re-used one of viral bio-marks.

• Journal of Microbiology
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• v.45 no.6
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• pp.541-546
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• 2007

Red algae are distributed globally, and the group contains several commercially important species. Griffithsia okiensis is one of the most extensively studied red algal species. In this study, we conducted expressed sequence tag (ESTs) analysis and synonymous codon usage analysis using cultured G. okiensis samples. A total of 1,104 cDNA clones were sequenced using a cDNA library made from samples collected from Dolsan Island, on the southern coast of Korea. The clustering analysis of these sequences allowed for the identification of 1,048 unigene clusters consisting of 36 consensus and 1,012 singleton sequences. BLASTX searches generated 532 significant hits (E-value <$10^{-4}$) and via further Gene Ontology analysis, we constructed a functional classification of 434 unigenes. Our codon usage analysis showed that unigene clusters with more than three ESTs had higher GC contents (76.5%) at the third position of the codons than the singletons. Also, the majority of the optimal codons of G. okiensis and Chondrus crispus belonging to Bangiophycidae were G-ending, whereas those of Porphyra yezoensis belonging to Florideophycidae were G-ending. An orthologous gene search for the P. yezoensis EST database resulted in the identification of 39 unigenes commonly expressed in two rhodophytes, which have putative functions for structural proteins, protein degradation, signal transduction, stress response, and physiological processes. Although experiments have been conducted on a limited scale, this study provides a material basis for the development of microarrays useful for gene expression studies, as well as useful information for the comparative genomic analysis of red algae.

• Food Science of Animal Resources
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• v.38 no.4
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• pp.664-678
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• 2018

This study was carried out to establish shelf life for pork cutlet of ground meat and pork lard by using various quality indicators and to understand how quality changes in these products are accelerated by temperature. The samples were selected and purchased from markets in Korea, and the chosen quality indicators were total aerobic counts and coliform group in microbiological analyses, thiobarbituric acid reactive substances assay, volatile basic nitrogen, pH, acid value, and peroxide value in physical chemical analyses, and sensory evaluation. The pork cutlet samples were stored at $-18^{\circ}C$, $-6^{\circ}C$, and $-1^{\circ}C$, whereas pork lard samples were stored at $10^{\circ}C$, $25^{\circ}C$, $35^{\circ}C$, and $45^{\circ}C$. These temperature conditions were set to real distribution conditions. The samples were then analyzed using various models including of reaction orders, arrhenius equation, and $Q_{10}$ value. The quality limits for each sample were calculated, and shelf life was estimated. The results of this experiment highlighted the importance of temperature control during the distribution process of these products and revealed that temperature is a useful parameter for the establishment of a basic database for shelf life.

• The KIPS Transactions:PartD
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• v.10D no.2
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• pp.261-266
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• 2003

A protein, which is a linear polymer of amino acids, is one of the most important bio-molecules composing biological structures and regulating bio-chemical reactions. Since the characteristics and functions of proteins are determined by their amino acid sequences in principle, protein sequence determination is the starting point of protein function study. This paper proposes a protein sequence prediction method based on data mining techniques, which can overcome the limitation of previous bio-chemical sequencing methods. After applying multiple proteases to acquire overlapped protein fragments, we can identify candidate fragment sequences by comparing fragment mass values with peptide databases. We propose a method to construct multi-partite graph and search maximal paths to determine the protein sequence by assembling proper candidate sequences. In addition, experimental results based on the SWISS-PROT database showing the validity of the proposed method is presented.

• The Journal of Bigdata
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• v.4 no.1
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• pp.53-61
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• 2019

The extracellular matrix, which provides the structural and biochemical support of surrounding cells, is a cell physiological modulator that controls cell division and differentiation. In the bio sector, the company produces Scapold, a three-dimensional support for tissue engineering, and cultivates stem cells in the produced Scapold to be transplanted into animals to assess tissue regeneration. This depends on components such as collagen in the tissue. Therefore, it is very important to identify the inclusion rate and distribution of components in the tissue, and the data are obtained by analyzing the color of the dyed tissue image. The process from image collection to analysis is costly, and the data collected and analyzed are managed in different formats by different research institutions. Therefore, data integration management and analysis results search are not being performed. In this paper, we establish a database that can manage relevant bigdata in an integrated manner, and propose a bio-image integrated management and retrieval system that can be searched based on color, an important analytical measure in this field of study.

• Journal of Digital Contents Society
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• v.9 no.4
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• pp.601-606
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• 2008

U-Healthcare is one of the major applications in ubiquitous sensor network. U-Healthcare has potential to become a critical service for the people who immediately require emergency ambulatory attention. This paper describes about the real time pulse monitoring and reporting system, consisting of two components: thus, the one is a reliable bio-sensor that continuously monitors the pulse information of the subject, and the other is the automatic transfer system that transmits pulse information to both his/her family and hospital care system through the Base Station. In the hospital, this bio-information can be used to treat the patient accordingly. I designed the pulse information monitored by a bio-sensor module that transfers the pulse information to both the Base Station and the central monitoring system through transmitting protocols such as Zigbee and TCP/IP, as well as designed the architecture of information packets for the corresponding protocols. Furthermore, the central monitoring system automatically parses the pulse information of the subject into the web database server, which can continuously provides the real time information and status of the subject via an internet browser to the clients who are family members of the subject and the authenticated medical care personnel as well.

• Journal of Biomedical Engineering Research
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• v.26 no.6
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• pp.399-406
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• 2005

In these days, HIS(Hospital Information System) raise the quality of medical services by effective management of medical records. As computing environment was developed, it is possible to search information quickly. But, standard medical data exchange is not completed between medical clinic and another organ so far. In case of patient transfer, past medical record was not efficiently transmitted. It be feasible treatment delay or medical accident. It is trouble that medical records is transferred by a person and communicate with each other. Extensible Markup Language (XML) is a simple, very flexible text format derived from SGML. Originally designed to meet the challenges of large-scale electronic publishing, XML is also playing an increasingly important role in the exchange of a wide variety of data on the Web and elsewhere. Form in system of company product, relative organs that handle bio-signal data is each other dissimilar and integration and to transmit to supplement bottleneck this research uses XML. In this study, it is discussed about sharing of medical data using XML web technology to standard medical record between hospital and relative organization The data structure model was designed to manage bio-signal data and patient record. We experimented about data transmission and all-in-one between different systems (one make use of MS-SQL database system and the other manage existent bio-signal data in itself form in file in this research). In order to search and refer medical record, the web-based system was implemented. The system that can be shared medical data was tested to estimate the merits of XML. Implemented XML schema confirms data transmission between different data system and integration result.

• Proceedings of the KOSOMBE Conference
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• v.1997 no.11
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• pp.403-406
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• 1997

Electrogastrogaphy(EGG) is the technique by which gastric myoelectrical activity is recorded noninvasively, from electrodes on the abdominal skin. Despite many attempts made over the decades, the clinical application of the EGG signal has not improved to the identification of waveform characteristics using comparison of EGG signal to be detected other EGG system. Cutaneous measurements of EGG are yet to be standardized in methods of detection and analysis. This may be responsible in part for some of the variability in the results. Thus, we develope EGG system composed of amplifiers, analysis methods, patient database or standardization. we introduce configurations of EGG system and their functions. Several important EGG parameters are introduced, including the dominant frequency and power of the EGG, the relative, period EGG-dominant frequency and power, the instability coefficient of EGG-dominant frequency and power, standard deviation, the percentage of running spectrum activity of gastric slow waves.

• Journal of the Institute of Electronics Engineers of Korea CI
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• v.45 no.1
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• pp.62-69
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• 2008

In this paper, we proposed the real-time bio-signals monitoring system that is based on the ZigBee wireless sensor network and SIP. This system makes medical team and user easily confirm user's medical state irrelative to their location and time. The communication between medical sensors and the user's end device uses the ZigBee wireless sensor network. The power consumption was decreased because wireless sensor network does not use the Ad-hoc routing protocol but routing protocol that is based on tree structure. Our proposed system includes a wireless user's end device, monitoring console, SIP server and database server. This real-time bio-signals monitoring system makes possible to implement the U-health care services and improving efficiency of medical treatment services.

• Bulletin of the Korean Chemical Society
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• v.29 no.9
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• pp.1717-1722
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• 2008

The 70 kDa heat-shock protein (Hsp70) involved in various cellular functions, such as protein folding, translocation and degradation, regulates apoptosis in cancer cells. Recently, it has been reported that the green tea flavonoid (−)-epigallocatechin 3-gallate (EGCG) induces apoptosis in numerous cancer cell lines and could inhibit the anti-apoptotic effect of human Hsp70 ATPase domain (hATPase). In the present study, docking model between EGCG and hATPase was determined using automated docking study. Epi-gallo moiety in EGCG participated in hydrogen bonds with side chain of K71 and T204, and has metal chelating interaction with hATPase. Hydroxyl group of catechin moiety also participated in metal chelating hydrogen bond. Gallate moiety had two hydrogen bondings with side chains of E268 and K271, and hydrophobic interaction with Y15. Based on this docking model, we determined two pharmacophore maps consisted of six or seven features, including three or four hydrogen bonding acceptors, two hydrogen bonding donors, and one lipophilic. We searched a flavonoid database including 23 naturally occurring flavonoids and 10 polyphenolic flavonoids with two maps, and myricetin and GC were hit by map I. Three hydroxyl groups of B-ring in myricetin and gallo moiety of GC formed important hydrogen bonds with hATPase. 7-OH of A-ring in myricetin and OH group of catechin moiety in GC are hydrogen bond donors similar to gallate moiety in EGCG. From these results, it can be proposed that myricetin and GC can be potent inhibitors of hATPase. This study will be helpful to understand the mechanism of inhibition of hATPase by EGCG and give insights to develop potent inhibitors of hATPase.