• KSII Transactions on Internet and Information Systems (TIIS)
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• 제15권8호
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• pp.2923-2943
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• 2021

The double helix structure of DNA makes it diverse, stable and can store information with high density, and these characteristics are consistent with the requirements of molecular communication for transport carriers. In this paper, a specific structure of molecular communication system based on DNA length coding is proposed. Transmitter (Tx) adopts the multi-layer golden foil design to control the release of DNA molecules of different lengths accurately, and receiver (Rx) adopts an effective and sensitive design of nanopore, and the biological information can be converted to the electric signal at Rx. The effect of some key factors, e.g., the length of time slot, transmission distance, the number of releasing molecules, the priori probability, on channel capacity is demonstrated exhaustively. Moreover, we also compare the transmission capacity of DNA-based molecular communication (DNA-MC) system and concentration-based molecular communication (MC) system under the same parameter setting, and the peak value of capacity of DNA-MC system can achieve 0.08 bps, while the capacity of MC system remains 0.025 bps. The simulation results show that DNA-MC system has obvious advantages over MC system in saving molecular resources and improving transmission stability.

• 한국수산과학회지
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• 제56권5호
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• pp.708-715
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• 2023

Hybridization is a major production method used to combine beneficial traits from two different species to obtain a potentially dominant trait. In China, Takifugu obscurus and T. rubripes were artificially crossed, and the resulting hybrids had an average body weight 38.06-8.93% higher than that of the parental species, which enabled the hybrids to be grown in freshwater. This study aimed to provide the basic data necessary for the classification of T. obscurus♀×T. rubripes♂ hybrids in terms of economic value and market potential. Morphological comparing the morphology of hybrids and parental species, we discovered that the hybrids had intermediate traits of the parental species. In morphometrics, the hybrid index (HI) value of head length against standard length was close to the trait of T. rubripes, and the HI values of preanal length and predorsal length were close to those of T. obscurus; however, the HI values of nasal length, snout length, length of anal fin, length of pectoral fin, caudal peduncle depth and caudal peduncle length were found to be unique characteristics of the hybrids. Regarding molecular analysis, a 99.8% nucleotide sequence similarity was found between the hybrid and T. obscurus.

• 한국의류학회지
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• 제24권7호
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• pp.1065-1072
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• 2000

The molecular areas and the interfacial tension behavior of ten nonionic surfactants, i.e., Span 20 and Tween 20, 40, 60. 80, 21, 61, 81, 65, & 85 are tested to assay their effects on the wetting and liquid retention properties of hydrophilic and hydrophobic fibrous materials. The molecular areas at water/air interface are derived from Gibbs’adsorption equations. The following conclusions are drawn from the results: 1) Span 20 is efficient in lowering the interfacial tension and effective in adsorption at the water/air interface, resulting in the low interfacial tension at critical micelle concentration (${\gamma}$$_{CMC}$) and a small molecular area($\omega$), 2) when the hydrophiles of the surfactants are constant, $\omega$’s increase as hydrophobe carbon numbers of the surfactants increase, 3) when the hydrophobes are constant, ${\gamma}$$_{CMC}$’s and $\omega$’s increase as the hydrophile ethylene oxide units increase, indicating effectiveness and efficiency is parallel in this case, 4) the ethylene oxide unit length as a hydrophile has greater influence on u than the hydrophobe chain length.han the hydrophobe chain length.gth.

• Molecules and Cells
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• 제21권1호
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• pp.135-140
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• 2006

Cytoplasmic male sterility (CMS) in plants, which is due to failure to produce functional pollen, is a maternally inherited trait. Specific nuclear genes that suppress CMS, termed fertility restorer (Rf) genes, have been identified in several plants. In this study, Rfl-inked molecular markers in pepper (Capsicum annuum L.) were detected by bulked segregant analysis of eight amplified fragment length polymorphisms (AFLPs). Only AFRF8 was successfully converted to a cleaved amplified polymorphic sequence (CAPS) marker. This was named AFRF8CAPS and genotype determination using it agreed with that obtained with the original AFRF8. A linkage map with a total size of 54.1 cM was constructed with AFRF8CAPS and the seven AFLP markers using the Kosambi function. The AFRF8CAPS marker was shown to be closest to Rf with a genetic distance of 1.8 cM. These markers will be useful for fast and reliable detection of restorer lines during $F_1$ hybrid seed production and breeding programs in pepper.

• 한국전산구조공학회:학술대회논문집
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• 한국전산구조공학회 2007년도 정기 학술대회 논문집
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• pp.421-426
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• 2007

A parametric study to investigate the effects of composition variables on the glass transition and mechanical properties of CNT-based nanocomposites was performed using molecular dynamics simulations. In this study, matrix chain length and CNT length were chosen as the candidate characteristic parameters. In order to understand the effect of both parameters in detail, three sample sets having different chain lengths with the same CNT configuration and two sample sets having different CNT lengths with same chain length were prepared. Other parameters such as volume fraction and density were fixed to enable rigorous comparisons. Amorphous polyethylene is used as matrix polymer and (10,0) zigzag CNT is embedded into the matrix to reinforce polymer matrix. As a result, longer polymer chain length of matrix solely increased glass transition temperature but no reinforcing enhancement was observed. CNT length showed similar increase with little enhancement of elastic modulus. In addition to this, nanocomposites showed temperature-dependent elastic modulus jump passing thorough the glass transition region agrees well with experimental results.

• Asian-Australasian Journal of Animal Sciences
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• 제17권7호
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• pp.897-902
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• 2004

PSMC5 subunit, which belongs to the 26S proteasomal subunit family, plays an important role in the antigen presentation mediated by MHC class I molecular. Full-length cDNA of porcine PSMC5 was isolated using the in silico cloning and rapid amplification of cDNA ends (RACE). Amino acid was deduced and the primary structure was analyzed. Results revealed that the porcine PSMC5 gene shares the high degree of sequence similarity with its mammalian counterparts at both the nucleotide level and the amino acid level. The RT-PCR was performed to detect the porcine PSMC5 expression pattern in seven tissues and the result showed that high express level was observed in spleen, lung, marrow and liver while the low express level was in muscle. The full-length genomic DNA sequence of porcine PSMC5 gene was amplified by PCR and the genomic structure revealed that this gene was comprised by 12 exons and 11 introns. Best alignment of the cDNA and genomic exon DNA sequence presents 4 mismatches and this information potentially bears further study in gene polymorphisms.

• Journal of Microbiology and Biotechnology
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• 제17권7호
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• pp.1098-1105
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• 2007

Quantum mechanical and molecular dynamics simulation analysis has been performed on the model system for CALB (Candida antarctica lipase B) with esters to study the reaction mechanism and conformational preference of catalytic hydrolysis and the esterification reaction. Using quantum mechanical analysis, the ping-pong bi-bi mechanism was applied and energies and 3-dimensional binding configurations of the whole reaction pathways were calculated. Further molecular dynamics simulation analysis was performed on the basis of the transition state obtained from quantum mechanical study to observe the effect of structures of the substrates. Calculation results using substrates of different chain length and chiral configurations were compared for conformational preference. The calculated results showed very small influence on chain length, whereas chiral conformation showed big differences. Calculated results from molecular modeling studies have been compared qualitatively with the experimental data using racemic mixtures of (${\pm}$)-cis-4-acetamido-cyclopent-2-ene-1-ethyl acetate as substrates.

• 멤브레인
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• 제28권1호
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• pp.67-74
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• 2018

고분자 분리막의 분자동역학 연구에서는 구성 원자 개수가 많고 투과 거동 계산시 긴 시간을 필요로 하기 때문에 적절한 고분자 주쇄의 길이를 선택하는 것이 매우 중요하다. 본 연구에서는 이러한 고분자 주쇄 길이와 투과 거동 간의 상관관계가 실제 분자동역학에서 어떻게 나타나는지 조사를 하고자 하였다. 널리 알려진 상용 고분자 Kapton(R) 폴리이미드 구조를 이용하여 분자동역학을 수행하였고 기체 투과 거동을 분석하였다. 고분자 주쇄의 움직임은 그 길이와 큰 연관성이 없었으며, 일반적인 인식과 달리 짧은 주쇄 길이를 갖고 있다고 해서 더 활발하게 움직이는 것은 아니라는 것을 확인할 수 있었다. 또한, 고분자 주쇄의 말단기는 상대적으로 움직이기 쉬울 것이라는 예상과 달리, 말단에 위치하지 않은 경우라도 말단기에 위치한 원자보다 더 높은 움직임을 보이는 경우도 많았다. 최종적으로 기체 분자의 투과 성능에서도 고분자 주쇄의 길이 및 말단기에 따른 영향은 관찰되지 않았다. 이는 기체 투과 전산모사에서 많이 언급되는 말단기 효과를 실제 전산모사에 적용할 경우, 각각의 모델 특성에 따라 제한적으로 적용을 하고 이에 대한 검증 과정을 반드시 수행하여야 한다는 것을 의미한다.

• Genomics & Informatics
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• 제3권3호
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• pp.53-62
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• 2005

MicroRNAs play an important role in regulating gene expression, but their target identification is a difficult task due to their short length and imperfect complementarity. Burge and coworkers developed a program called TargetScan that allowed imperfect complementarity and established a procedure favoring targets with multiple binding sites conserved in multiple organisms. We improved their algorithm in two major aspects - (i) using well-defined UTR (untranslated region) database, (ii) examining the extent of conservation inside the 3' UTR specifically. Average length in our UTR database, based on the ECgene annotation, is more than twice longer than the Ensembl. Then, TargetScan was used to identify putative binding sites. The extent of conservation varies significantly inside the 3' UTR. We used the 'tight' tracks in the UCSC genome browser to select the conserved binding sites in multiple species. By combining the longer 3' UTR data, TargetScan, and tightly conserved blocks of genomic DNA, we identified 107 putative target genes with multiple binding sites conserved in multiple species, of which 85 putative targets are novel.

• 한국염색가공학회:학술대회논문집
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• 한국염색가공학회 2008년도 제39차 학술발표회
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• pp.77-78
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• 2008

Affinity between alkyl substituted super hydrophobic dyes and polypropylene fiber has been analyzed by using the molecular descriptor as a method to predict chemical and physical characteristics of compounds. Hydrophobicity of synthesized dyes calculated by LogP which is one of molecular descriptors was increased continuously as the length of alkyl substituents increased.