• Proceedings of the Korean Society for Bioinformatics Conference
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• 2003.10a
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• pp.164-169
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• 2003

In this paper, we propose the integrated Bayesian network framework to reconstruct genetic regulatory networks from genome expression data. The proposed model overcomes the dimensionality problem of multivariate analysis by building coherent sub-networks from confined gene clusters and combining these networks via intermediary points. Gene Shaving algorithm is used to cluster genes that share a common function or co-regulation. Retrieved clusters incorporate prior biological knowledge such as Gene Ontology, pathway, and protein protein interaction information for extracting other related genes. With these extended gene list, system builds genetic sub-networks using Bayesian network with MDL score and Sparse Candidate algorithm. Identifying functional modules of genes is done by not only microarray data itself but also well-proved biological knowledge. This integrated approach can improve there liability of a network in that false relations due to the lack of data can be reduced. Another advantage is the decreased computational complexity by constrained gene sets. To evaluate the proposed system, S. Cerevisiae cell cycle data [1] is applied. The result analysis presents new hypotheses about novel genetic interactions as well as typical relationships known by previous researches [2].

• Journal of Biomedical Engineering Research
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• v.36 no.5
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• pp.221-227
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• 2015

In this study, Multi-Array Electrodes (MAE) and Programmable Multi-channel Electrical Stimulator (PMES) were implemented for firing Trigger Points (TPs) of the patient with Myofascial Pain Syndrome (MPS). MAE has 25 Ag/AgCl electrodes arranged in the form of array ($5{\times}5$) fabricated with flexible pad, which are applicable to be easy-attached to curved specific region of the human body. PMES consisted of 25 channels. Each channel was to generate various electric stimulus patterns (ESPs) by changing the mono-phasic or bi-phasic of ESP, On/Off duration of ESP, the interval between ESP, and amplitude of ESP. PMES hardware was composed of Host PC, Stimulation Pattern Editing Program (SPEP), and Multi-channel Electrical Stimulator (MES). Experiments were performed using MAE and PMES as the following. First experiment was performed to evaluate the function for each channel of Sub- Micro Controller Unit (SMCU) in MES. Second experiment was conducted on whether ESP applied from each channel of SMCU in PMES was focused to the electrode set to the ground, after applying ESP being output from each channel of SMCU in PMES to MAE.

• Interdisciplinary Bio Central
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• v.2 no.4
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• pp.13.1-13.8
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• 2010

The National BioResource Project of Japan is a governmental project to promote domestic/international research activities using biological resources. The project has 27 biological resources including three cereal resources. The core center and sub-center which historically collected the cereal resources were selected for each cereal program. These resources are categorized into several different types in the project; germplasm, genetic stocks, genome resources and database information. Contents of rice resources are wild species, local varieties in East and Southwest Asia & wild relatives, MNU-induced chemical mutant lines, marker tester lines, chromosome substitution lines and other experimental lines. Contents of wheat resources are wild strains, cultivated strains, experimental lines, rye wild and cultivated strains; EST clones and full-length cDNA clones. Contents of barley resources are cultivar and experimental lines, core collection, EST/cDNA clones, BAC clones, their filters and superpool DNA. Each resource is accessible from the online database to see the contents and information about the resources. Links to the genome information and genomic tools are also important function of each database. The major contents and some examples are presented here.

• Animal cells and systems
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• v.16 no.1
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• pp.27-33
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• 2012

The suprachiasmatic nucleus (SCN) of the teleost hypothalamus contains a central circadian pacemaker, which adjusts circadian rhythms within the body to environmental light-dark cycles. It has been shown that exposure to darkness during the day causes phase shifts in circadian rhythms. In this study, we examined the effect of exposure to darkness on the mRNA expression levels of two circadian clock genes, namely, $Period2$ ($Per2$) and $Cryptochrome1$ ($Cry1$), and the rate-limiting enzyme in melatonin synthesis, arylalkylamine $N$-acetyltransferase-2 (Aanat2), in the pineal gland of olive flounder, $Paralichthys$ $olivaceus$. The expression of these genes showed circadian variations and was significantly higher during the dark phase. These changes may be involved in the mechanism of dark-induced phase shifts. Furthermore, this study suggests that olive flounder may be a teleost model to investigate the localization and function of circadian oscillators.

• Korean Journal of Agricultural Science
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• v.39 no.4
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• pp.545-553
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• 2012

In Asia, including Japan and Korea, rice paddies occupy the largest cultivated area in agricultural land. Rice paddies provide the habitats for many organisms including endemic species, sustaining high biodiversity. Insect natural enemies inhabiting rice paddies have an important function for rice production as agents of 'ecosystem services' because they play a major role in suppressing rice pests. The diversity and abundance of natural enemies can be a good index reflecting the 'healthiness' of agro-ecosystem services in rice paddies. The present study investigates whether insect natural enemies could be good biological indicators for general arthropod biodiversity and agricultural practice. First, the concept of ideal bio-indicators was summarized. The strategy to explore and select such bio-indicators was then proposed. Lastly, field survey was made to evaluate the abundance and biodiversity of natural enemies in Japanese rice paddies where chemical inputs, i.e., insecticide use, were different. The results showed that reduction of chemical inputs led to an increase in species richness or diversity of natural enemies including parasitoids and predators. Then, the data were analyzed to examine suitable indicator species to assess environmental soundness of agricultural practice and biodiversity in rice paddies. The density of several species of natural enemies did respond both to pesticide use and to general arthropod biodiversity. The analyses thus have indicated that natural enemies can be suitable as bio-indicators. Usefulness of indicator species in rice paddies is discussed in the context of ecologically sound agriculture.

• Bulletin of the Korean Chemical Society
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• v.28 no.6
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• pp.941-946
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• 2007

Bacillus halodurans O-methyltransferase (BhOMT) is a S-adenosylmethionine (SAM or AdoMet) dependent methyltransferase. Three dimensional structure of the BhOMT bound to S-adenosyl-L-homocysteine (SAH or AdoHcy) has been determined by comparative homology modeling. BhOMT has 40% sequence identity with caffeoyl-CoA 3-O-methyltransferase (CCoAOMT) from alfalfa. Based on x-ray structure of CCoAOMT, three dimensional structure of BhOMT was determined using MODELLER. The substrate binding sites of these two proteins showed slight differences, but these differences were important to characterize the substrate of BhOMT. Automated docking study showed that four flavonoids, quercetin, fisetin, myricetin, and luteolin which have two hydroxyl groups simultaneously at 3'- and 4'-position in the B-ring and structural rigidity of Cring resulting from the double bond characters between C2 and C3, were well docked as ligands of BhOMT. These flavonoids form stable hydrogen bondings with K211, R170, and hydroxyl group at 3'-position in the Bring has stable electrostatic interaction with Ca2+ ion in BhOMT. This study will be helpful to understand the biochemical function of BhOMT as an O-methyltransferase for flavonoids.

• Journal of Environmental Science International
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• v.29 no.5
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• pp.457-468
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• 2020

With continuous industrial development, the types, and amount of particulate matter (PM) have been increasing. Since 2018, environmental standards regarding PM have become more stringent. Pulse air jet bag filters are suitable for PM under the 20 ㎛ and, can function regardless of size, concentration and type. Filtration velocity and shape are important factors in the operation and design of the pulse air jet bag filters however, few established studies support this theory. In this research, numerical simulations were conducted based on experimental values and, several methods were employed for minimizing the pressure drop. In the pilot system, as the inlet duct velocity was faster than 19 m/sec, flow was not distributed equally and, re-entrainment occurred due to the hopper directional vortex. The multi-inlet system decelerated the hopper directional vortex by 25 ~ 30%, thereby decreasing total pressure drop by 6.6 ~ 14.7%. The guide vane system blocked the hopper directional vortex, which resulted optimal vane angle of 53°. The total pressure of the guide vane system increased by 0.5 ~ 3% at 1.5 m/min conditions. However, the filtration pressure drop decreased by 4.8 ~ 12.3% in all conditions, thereby reducing the operating cost of filter bags.

• Molecules and Cells
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• v.46 no.7
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• pp.451-460
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• 2023

Animals generally prefer nutrients and avoid toxic and harmful chemicals. Recent behavioral and physiological studies have identified that sweet-sensing gustatory receptor neurons (GRNs) in Drosophila melanogaster mediate appetitive behaviors toward fatty acids. Sweet-sensing GRN activation requires the function of the ionotropic receptors IR25a, IR56d, and IR76b, as well as the gustatory receptor GR64e. However, we reveal that hexanoic acid (HA) is toxic rather than nutritious to D. melanogaster. HA is one of the major components of the fruit Morinda citrifolia (noni). Thus, we analyzed the gustatory responses to one of major noni fatty acids, HA, via electrophysiology and proboscis extension response (PER) assay. Electrophysiological tests show this is reminiscent of arginine-mediated neuronal responses. Here, we determined that a low concentration of HA induced attraction, which was mediated by sweet-sensing GRNs, and a high concentration of HA induced aversion, which was mediated by bitter-sensing GRNs. We also demonstrated that a low concentration of HA elicits attraction mainly mediated by GR64d and IR56d expressed by sweet-sensing GRNs, but a high concentration of HA activates three gustatory receptors (GR32a, GR33a, and GR66a) expressed by bitter-sensing GRNs. The mechanism of sensing HA is biphasic in a dose dependent manner. Furthermore, HA inhibit sugar-mediated activation like other bitter compounds. Taken together, we discovered a binary HA-sensing mechanism that may be evolutionarily meaningful in the foraging niche of insects.

• Journal of Marine Life Science
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• v.1 no.1
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• pp.41-49
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• 2016

Kisspeptin (Kiss) and its cognate receptor, kisspeptin receptor (KissR; G protein coupled receptor 54, GPR54), have recently been recognized as potent regulators of reproduction in teleosts. Additionally, leptin plays an important role in energy homeostasis and reproductive function in teleosts. The purpose of this study was to examine differences in the concentration of the hormones of the Kiss/KissR system and leptin and the expression of their underlying genes, all of which are involved in the sexual maturation of female goldfish, Carassius auratus, following treatment with Kiss. The expression levels of KissR increased after the Kiss injection. Furthermore, the peptide hormone leptin also increased after the injection (in vivo and in vitro). Additionally, the expression of GnRH and GTHs (GTHα, FSHβ, and LHβ) increased in the brain and pituitary (in vitro and in vitro). These results support the hypothesis that Kiss plays important roles in the direct regulation of the hypothalamus-pituitary-gonad axis and leptin in goldfish. Therefore, we suggest that Kiss system gene expression is correlated with energy balance and reproduction.

• Proceedings of the ESK Conference
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• 1997.04a
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• pp.107-113
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• 1997

In this paper, an interfacing method to control rehabilitation assitance system with bio-signal is proposed. Controlling with EMG signals method has certain advantage on signal-collecting, but has some drawbacks in the function resolution of EMG signals because data-processing process is not efficient. To improve function-resolution and to increase the efficiency of EMG signal interfacing with rehabilitation assistance system, Multi-layer Perception which is highly effective with static signal and hidden-Markov model for dynamic signal resolving are fused together. In proposed method. The direction and average speed of the rehabilitation assitance system are controlled by the trajectory control and estimation of the moving direction result from the fused model. From the experiment, proposed GMM and 2-level MLP hybrid-classifier yielded 8.6% perception-error rate, improving function resolution. New acceleration control method constructed with 3 nested linear filter produced continuous acceleration paths without the information of destination point. Thus, the mass output caused by non- continuous acceleration-deceleration was eliminated. In the simulation, the necessary calculation, in the case of multiplication, was reduced by 11.54%.