• Journal of Life Science
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• v.21 no.4
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• pp.616-620
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• 2011

Lysine residues of histone H3 and H4 are covalently modified in the chromatin of eukaryotic cells. Lysine 27 in histone H3 was acetylated (H3K27ac) or methylated at three levels; mono-, di-, and trimethylation (H3K27me1, H3K27me2, and H3K27me3). These modifications at H3K27 were related with gene transcription and/or chromatin structure in distinct patterns. Generally, H3K27ac and H3K27me1 were enriched in active chromatin, such as the locus control region or transcriptionally active genes, while transcriptionally inactive genes were highly marked by H3K27me2 and H3K27me3. These modifications appear to have been catalyzed by distinct histone-modifying enzymes. Recent studies suggest that the four kinds of modifications at H3K27 have inter-correlation in gene transcription or chromatin structure formation.

• KOREAN JOURNAL OF CROP SCIENCE
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• v.50 no.3
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• pp.151-155
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• 2005

This study was carried out to get information for diversifying of resistant genes to bacterial blight (BB) in Japonica cultivar breeding programs. TWo hundred nine rice varieties were tested for qualitive resistance to four races of BB; HB9101 isolate for race K1, HB9102 isolate for race K2, HB9103 isolate for race K3, and HB01001 isolate for race K3a. Two hundred nine rice varieties were divided into five groups according to their race reaction. Fourteen Tongil-type varieties and ninetyseven Japonica varieties showed susceptible reaction to four races; Kl, K2, K3 and K3a. Thirteen Tongil-type varieties and thirty-one Japonica varieties were resistant to only one race; K1. Nine Tongil-type varieties and one Japonica variety were resistant to two races; K1 and K2. One Tongil-type variety and twenty-eight Japonica varieties were resistant to the three races; K1, K2, and K3. Fourteen Tongil-type varieties and one Japonica variety were resistant to four races; K1, K2, K3, and K3a. A number of Tongil-type varieties showed broad spectrum resistance to four races, while a number of Japonica varieties showed broad spectrum resistance to three races; K1, K2, and K3.

• Biomedical Science Letters
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• v.28 no.2
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• pp.109-119
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• 2022

Histone proteins can be modified by the addition of acetyl group or methyl group to specific amino acids. The modifications have different distribution patterns in chromatin. Recently, histone modifications are studied based on ChIP-seq data, which requires reasonable analysis of sequencing data depending on their distribution patterns. Here we have analyzed histone H3K27ac and H3K27me3 ChIP-seq data and it showed that the H3K27ac is enriched at narrow regions while H3K27me3 distributes broadly. To properly analyze the ChIP-seq data, we called peaks for H3K27ac and H3K27me3 using MACS2 (narrow option and broad option) and SICER methods, and compared propriety of the peaks using signal-to-background ratio. As results, H3K27ac-enriched regions were well identified by both methods while H3K27me3 peaks were properly identified by SICER, which indicates that peak calling method is more critical for histone modifications distributed broadly. When ChIP-seq data were compared in different sequencing depth (15, 30, 60, 120 M), high sequencing depth caused high false-positive rate in H3K27ac peak calling, but it reflected more properly the broad distribution pattern of H3K27me3. These results suggest that sequencing depth affects peak calling from ChIP-seq data and high sequencing depth is required for H3K27me3. Taken together, peak calling tool and sequencing depth should be chosen depending on the distribution pattern of histone modification in ChIP-seq analysis.

• Asian-Australasian Journal of Animal Sciences
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• v.31 no.6
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• pp.791-797
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• 2018

Objective: Trimethylation of histone 3 (H3) at 4th lysine N-termini (H3K4me3) in gene promoter region was the universal marker of active genes specific to cell lineage. On the contrary, coexistence of trimethylation at 27th lysine (H3K27me3) in the same loci-the bivalent H3K4m3/H3K27me3 was known to suspend the gene transcription in germ cells, and could also be inherited to the developed stem cell. In galline species, throughout example of H3K4m3 and H3K27me3 ChIP-seq analysis was still not provided. We therefore designed and demonstrated such procedures using ChIP-seq and mRNA-seq data of chicken follicular mesenchymal cells and male germ cells. Methods: Analytical workflow was designed and provided in this study. ChIP-seq and RNA-seq datasets of follicular mesenchymal cells and male germ cells were acquired and properly preprocessed. Peak calling by Model-based analysis of ChIP-seq 2 was performed to identify H3K4m3 or H3K27me3 enriched regions ($Fold-change{\geq}2$, $FDR{\leq}0.01$) in gene promoter regions. Integrative genomics viewer was utilized for cellular retinoic acid binding protein 1 (CRABP1), growth differentiation factor 10 (GDF10), and gremlin 1 (GREM1) gene explorations. Results: The acquired results indicated that follicular mesenchymal cells and germ cells shared several unique gene promoter regions enriched with H3K4me3 (5,704 peaks) and also unique regions of bivalent H3K4m3/H3K27me3 shared between all cell types and germ cells (1,909 peaks). Subsequent observation of follicular mesenchyme-specific genes-CRABP1, GDF10, and GREM1 correctly revealed vigorous transcriptions of these genes in follicular mesenchymal cells. As expected, bivalent H3K4m3/H3K27me3 pattern was manifested in gene promoter regions of germ cells, and thus suspended their transcriptions. Conclusion: According the results, an example of chicken H3K4m3/H3K27me3 ChIP-seq data analysis was successfully demonstrated in this study. Hopefully, the provided methodology should hereby be useful for galline ChIP-seq data analysis in the future.

• Journal of the Korean Chemical Society
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• v.32 no.3
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• pp.171-178
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• 1988

The potential energy of adsorbate molecules in the main channel of $K^+$ ion exchanged zeolite L(K-L) was calculated. In K-L which adsorbs three molecules per unit cell, the interaction energies of $H_2O,\;NH_3,\;CH_3NH_2,\;(CH_3)_2NH,\;and\;(CH_3)_3N$ molecules with zeolite lattice are 61.11, 62.31, 65.68, 74.65, and 79.88kJ/mol, respectively. These values are less by 3.7∼12.6kJ/mol than $K^+$ ion affinities with adsorbing molecules. These results may be due to the facts that the electrostatic energies are reduced by the negative charge of the lattice oxygens. The distribution of adsorption sites of $NH_3$ and $CH_3NH_2$ in K-L was investigated by a technique of temperature programmed desorption. The experimental value of desorption energies of $NH_3$ and $CH_3NH_2$ on K-L are in good agreement with the theoritical values. It is concluded that the desorption of $NH_3$ and $CH_3NH_2$ on K-L is the first-order desorption with free readsorption.

• Journal of Korean Society for Atmospheric Environment
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• v.9 no.2
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• pp.154-159
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• 1993

Theoretical prediction of the equilibrium of temperature and relative humidity dependance involving $HNO_{3(g)}-NH_{3(g)}$ and $NH_4NH_{3(s, aq)}$ was compared with atmospheric measurement of particulate nitrate$(NO_3^-)$, Ammonia-Nitric Acid partial pressure product $([$NH_{3(g)}][HNO_{3(g)}]ppb^2$) by a triple filter pack sampler from Oct 1991 to July 1992. The measured $HNO_3NH_3$ concentration product K was greater than equilibrium constant $K_p$ calculated from thermodynamic data of $NH_4NO_{3(s, aq)}-HNO_{3(g)}-NH_{3(g)}$ during fall, winter and spring. But K was lower than $K_p$ in summer. K was greater than $K_p$ as the result of supersaturation by air pollution, particularly anthropogenic $NH_3$.The reason of $K < K_p$ was due to removal of particulate nitrate$(NO_3^-)$ by rainout and washout. $NH_4NO_3$ which consists mainly of particulate nitrate is formed by reaction between $HNO_3$ and $NH_3$. As a result of the removal of particulate nitrate$(NO_3^-)$ by rainout and washout, concentrations of $HNO_3$ and $NH_3$ are decreased by equilibrium transfer(Le Chatelier's Law) in atmosphere.

• Pediatric Infection and Vaccine
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• v.16 no.2
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• pp.199-204
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• 2009

Purpose : Various proteins encoded in the early region 3 (E3) of adenoviruses protect cells from being killed by cytotoxic T cells and death-inducing cytokines. We sought to find out whether the genetic heterogeneity of the E3 gene might contribute to the molecular diversity of adenoviruses. Methods : Sequences in the E3 region were analyzed for 14 adenovirus type 3 (Ad3) strains that were isolated from children with lower respiratory tract infections in the Seoul National University Children's Hospital during the period 1991-2000. Full-length adenoviral DNA was purified from the infected A549 cell lysates using a modified Hirt procedure. Results : There was 98% homology between 14 Korean Ad3 strains with a reference strain (M15952). Homology within the Korean Ad3 strains was 98.7%. Variation was found in the region of transcripts 20.1 kDa, 20.6 kDa, truncated 7.7 kDa, 10.3 kDa, 14.9 kDa, and 15.3 kDa. In particular, all 14 Korean strains showed a missense single point mutation at the start codon of the truncated 7.7 kDa. In addition, a deletion was found in the truncated 7.7 kDa region by 58 base pairs in 10 strains and 94 base pairs in 4 strains. Variations in amino acids were observed in the receptor internalization and degradation complex (10.3 kDa/14.9 kDa) which stimulates the clearance from the cell surface and subsequent degradation of the receptors for the Fas ligand and TRAIL, while no variations were observed in another immunoregulatory transcript, 19 kDa. Conclusion : Sequence analysis of the immunoregulatory region of adenovirus E3 shows that genetic heterogeneities are related to genome type patterns.

• 한국정보디스플레이학회:학술대회논문집
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• 2003.07a
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• pp.191-192
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• 2003

For the CNT-FED to be cost-effective, many efforts for the lower voltage operation have been made in the under-gate cathode structure. In this study, the effects of the frit proportion in the CNT paste, cathode electrode width, CNT-to-counter electrode gap, and the CNT length in the cathode structure were examined.

• 한국정보디스플레이학회:학술대회논문집
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• 2002.08a
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• pp.303-304
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• 2002

32"-diagonal gated carbon nanotube(CNT) cathodes named under-gate cathodes for large-size display applications have been fabricated and characterized. The emission uniformity looks fine, even without the resistive layer. The emission performance has been improved by scaling down the cathode electrode dimension.

• Journal of the Korean Crystal Growth and Crystal Technology
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• v.20 no.6
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• pp.249-253
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• 2010

After the specimen of A-site defect perovskite $La_{1/3}NbO_3$ single crystal was manufactured, the dielectric properties were studied between the temperature range of 10 and 800 K. The dielectric anomaly appeared at 50 K and 650 K, and, at about 650 K, the thermal hysteresis of dielectric constant was shown. The ac-conductivity of bulk showed the lowest activation energy of 0.43 eV at 560~690 K. Based on the results, it is assumed that the dielectric anomaly at 50K and 650 K was due to the antiparallel shift of $Nb^{5+}$-ion and the rearrangement of $Nb^{3+}$-ion, respectively.