• Molecules and Cells
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• v.42 no.1
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• pp.87-95
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• 2019

Long interspersed element-1 (LINE-1 or L1) is an autonomous retrotransposon, which is capable of inserting into a new region of genome. Previous studies have reported that these elements lead to genomic variations and altered functions by affecting gene expression and genetic networks. Mounting evidence strongly indicates that genetic diseases or various cancers can occur as a result of retrotransposition events that involve L1s. Therefore, the development of methodologies to study the structural variations and interpersonal insertion polymorphisms by L1 element-associated changes in an individual genome is invaluable. In this study, we applied a systematic approach to identify human-specific L1s (i.e., L1Hs) through the bioinformatics analysis of high-throughput next-generation sequencing data. We identified 525 candidates that could be inferred to carry non-reference L1Hs in a Korean individual genome (KPGP9). Among them, we randomly selected 40 candidates and validated that approximately 92.5% of non-reference L1Hs were inserted into a KPGP9 genome. In addition, unlike conventional methods, our relatively simple and expedited approach was highly reproducible in confirming the L1 insertions. Taken together, our findings strongly support that the identification of non-reference L1Hs by our novel target enrichment method demonstrates its future application to genomic variation studies on the risk of cancer and genetic disorders.

• Journal of Microbiology and Biotechnology
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• v.29 no.5
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• pp.794-808
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• 2019

Bacillus velezensis strain WRN014 was isolated from banana fields in Hainan, China. Bacillus velezensis is an important member of the plant growth-promoting rhizobacteria (PGPR) which can enhance plant growth and control soil-borne disease. The complete genome of Bacillus velezensis WRN014 was sequenced by combining Illumina Hiseq 2500 system and Pacific Biosciences SMRT high-throughput sequencing technologies. Then, the genome of Bacillus velezensis WRN014, together with 45 other completed genome sequences of the Bacillus velezensis strains, were comparatively studied. The genome of Bacillus velezensis WRN014 was 4,063,541bp in length and contained 4,062 coding sequences, 9 genomic islands and 13 gene clusters. The results of comparative genomic analysis provide evidence that (i) The 46 Bacillus velezensis strains formed 2 obviously closely related clades in phylogenetic trees. (ii) The pangenome in this study is open and is increasing with the addition of new sequenced genomes. (iii) Analysis of single nucleotide polymorphisms (SNPs) revealed local diversification of the 46 Bacillus velezensis genomes. Surprisingly, SNPs were not evenly distributed throughout the whole genome. (iv) Analysis of gene clusters revealed that rich gene clusters spread over Bacillus velezensis strains and some gene clusters are conserved in different strains. This study reveals that the strain WRN014 and other Bacillus velezensis strains have potential to be used as PGPR and biopesticide.

• Journal of the Korea Institute of Information and Communication Engineering
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• v.23 no.4
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• pp.431-437
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• 2019

PLC(Power Line Communication) is being used in various ways in smart grid system because of the advantages of low cost and high data throughput. However, power line channel has many problems due to impulse noise and various studies have been conducted to solve the problem. Recently, ACDL(Adaptive Cannonical Differential Limiter) which is based on an adaptive clipping with analog nonlinear filter, has been proposed and performs better than the others. In this paper, we show that ACDL is similar to the detection of slew rate with oversampled digital signal by simplification and analysis. Through the simulation under the PRIME standard it is shown that the proposed performs equal to or better than that of ACDL, but significantly reduce the complexity to implement. The BER performance is equal but the complexity is reduced to less than 10%.

• Proceedings of the Korean Radioactive Waste Society Conference
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• 2017.05a
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• pp.83-83
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• 2017

Electrorefining is a key step in pyroprocessing. The electrorefining process is generally composed of two recovery steps - the deposit of uranium onto a solid cathode and the recovery of the remaining uranium and TRU elements simultaneously by a liquid cadmium cathode. The solid cathode processing is necessary to separate the salt from the cathode since the uranium deposit in a solid cathode contains electrolyte salt. Distillation process was employed for the cathode processing. It is very important to increase the throughput of the salt separation system due to the high uranium content of spent nuclear fuel and high salt fraction of uranium dendrites. In this study, a mesh-covered crucible was investigated for the sat distillation of electrorefiner uranium deposits. A liquid salt separation step and a vacuum distillation step were combined for salt separation. The adhered salt in uranium deposits was efficiently removed in the mesh-covered crucible. The salt distiller was operated simply since repeated cooling - heating step was not necessary for the change of the crucible. The operation time could be reduced by the use of the mesh-covered crucible and the combined operation of the two steps. A method to preserve a vacuum level was proposed by double O-rings during the operation of the distiller with the mesh-covered crucible. After the salt distillation, the salt content was measured and was below 0.1wt% after the salt distillation. The residual salt after the salt distillation can be removed further during melting of uranium metal.

• Animal Bioscience
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• v.34 no.1
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• pp.134-142
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• 2021

Objective: To understand the athletic characteristics of Thoroughbreds, high-throughput analysis has been conducted using horse muscle tissue. However, an in vitro system has been lacking for studying and validating genes from in silico data. The aim of this study is to validate genes from differentially expressed genes (DEGs) of our previous RNA-sequencing data in vitro. Also, we investigated the effects of exercise-induced stress including heat, oxidative, hypoxic and cortisol stress on horse skeletal muscle derived cells with the top six upregulated genes of DEGs. Methods: Enriched pathway analysis was conducted using the Database for Annotation, Visualization, and Integrated Discovery (DAVID) tool with upregulated genes in horse skeletal muscle tissue after exercise. Among the candidates, the top six genes were analysed through geneMANIA to investigate gene networks. Muscle cells derived from neonatal horse skeletal tissue were maintained and subjected to exercise-related stressors. Transcriptional changes in the top six genes followed by stressors were investigated using quantitative reverse transcription-polymerase chain reaction (qRT-PCR). Results: The inflammation response pathway was the most commonly upregulated pathway after horse exercise. Under non-cytotoxic conditions of exercise-related stressors, the transcriptional response of the top six genes was different among types of stress. Oxidative stress yielded the most similar expression pattern to DEGs. Conclusion: Our results indicate that transcriptional change after horse exercise in skeletal muscle tissue strongly relates to stress response. The qRT-PCR results showed that stressors contribute differently to the transcriptional regulation. These results would be valuable information to understand horse exercise in the stress aspect.

• Journal of the Korea Society of Computer and Information
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• v.25 no.12
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• pp.109-117
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• 2020

In this paper, we analyze LADN(Local Area Data Network) that provides high throughput, low latency and service localization for 5G wireless networks and propose an enhanced control protocol design for LADN in 5G wireless networks. The concept of LADN is newly introduced in 3GPP 5G communication system and the LADN is a data network to which the UE(User Equipment) can connect with a specific LADN session only when the UE is located in a certain service area. If the LADN information between the UE and core network is not identical, the LADN session cannot be properly established. The proposed approach promplty synchronizes the LADN information between the UE and core network by using the specific registration procedure and appropriately establishes the LADN session, when the establishment of the LADN session is failed. Consequently, the proposed enhanced control protocol design(ECP) can prevent unnecessary signalling overhead and communication delay for LADN in 5G wireless networks.

• The Plant Pathology Journal
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• v.37 no.2
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• pp.200-203
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• 2021

Rice blast caused by the filamentous fungus Magnaporthe oryzae, is arguably the most devastating rice disease worldwide. Development of a high-throughput and reliable field blast resistance evaluation system is essential for resistant germplasm screening, resistance genes identification and resistant varieties breeding. However, the occurrence of rice blast in paddy field is easily affected by various factors, particularly lack of sufficient inoculum, which always leads to the non-uniform occurrence and reduced disease severity. Here, we described a procedure for adequately inducing the occurrence of rice seedling blast in paddy field, which involves pretreatment of diseased straw, initiation of seedling blast for the first batch of spreader population, inducing the occurrence of the second batch of spreader population and test materials. This procedure enables uniform and consistent infection, which facilitates efficient and accurate assessment of seedling blast resistance for diverse rice materials.

• Animal Bioscience
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• v.35 no.7
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• pp.975-988
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• 2022

Objective: In this study, we aimed to identify long non-coding RNAs (lncRNAs) that play important roles in starvation stress, analyze their functions, and discover potential molecular targets to alleviate starvation stress to provide a theoretical reference for subsequent in-depth research. Methods: We generated a piglet starvation stress animal model. Nine Yorkshire weaned piglets were randomly divided into a long-term starvation stress group (starved for 72 h), short-term starvation stress group (starved for 48 h), and the control group. LncRNA libraries were constructed using high-throughput sequencing of piglet ileums. Results: We obtained 11,792 lncRNAs, among which, 2,500 lncRNAs were novel. In total, 509 differentially expressed (DE)lncRNAs were identified in this study. Target genes of DElncRNAs were predicted via cis and trans interactions, and functional and pathway analyses were performed. Gene ontology functions and Kyoto encyclopedia of genes and genomes analysis revealed that lncRNA-targeted genes mainly participated in metabolic pathways, cellular processes, immune system processes, digestive systems, and transport activities. To reveal the mechanism underlying starvation stress, the interaction network between lncRNAs and their targets was constructed based on 26 DElncRNAs and 72 DEmRNAs. We performed an interaction network analysis of 121 DElncRNA-DEmRNA pairs with a Pearson correlation coefficient greater than 0.99. Conclusion: We found that MSTRG.19894.13, MSTRG.16726.3, and MSTRG.12176.1 might play important roles in starvation stress. This study not only generated a library of enriched lncRNAs in piglets, but its outcomes also provide a strong foundation to screen key lncRNAs involved in starvation stress and a reference for subsequent in-depth research.

• The Journal of the Institute of Internet, Broadcasting and Communication
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• v.22 no.5
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• pp.49-54
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• 2022

With the recent widespread adoption of general-purpose GPUs (GPGPUs) in cloud systems, maximizing the resource utilization through multitasking in GPGPU has become an important issue. In this article, we show that resource allocation based on the workload classification of computing-bound and memory-bound is not sufficient with respect to resource utilization, and present a new thread block scheduling policy for GPGPU that makes use of fine-grained resource utilizations of each workload. Unlike previous approaches, the proposed policy reduces scheduling overhead by separating profiling and scheduling, and maximizes resource utilizations by co-locating workloads with different bottleneck resources. Through simulations under various virtual machine scenarios, we show that the proposed policy improves the GPGPU throughput by 130.6% on average and up to 161.4%.

• The Journal of the Korea institute of electronic communication sciences
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• v.17 no.6
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• pp.1039-1046
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• 2022

After the COVID-19 pandemic, the spread of the untact culture and the Fourth Industrial Revolution, which generates various types of data, generated so much data that it was not compared to before. This led to higher data throughput, revealing little by little the limitations of the existing network system centered on vendors and hardware. Recently, SDN technology centered on users and software that can overcome these limitations is attracting attention. In addition, SDN-based load balancing techniques are expected to increase efficiency in the load balancing area of the server cluster in the data center, which generates and processes vast and diverse data. Unlike existing SDN load distribution studies, this paper proposes a load distribution technique in which a controller checks the state of a server according to the occurrence of an event rather than periodic confirmation through a monitoring technique and allocates a user's request by weighting it according to a load ratio. As a result of the desired experiment, the proposed technique showed a better equal load balancing effect than the comparison technique, so it is expected to be more effective in a server cluster in a large and packet-flowing data center.