• BMB Reports
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• v.36 no.2
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• pp.201-206
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• 2003

Two lymphoid-specific proteins, RAG1 and RAG2, are required for the initiation of the V(D)J recombination in vitro. The V(D)J cleavage that is mediated by RAG proteins at the border between the coding and signal sequences results in the production of a hairpin at the coding end and a double-stranded break at the signal end. Two hairpin coding ends are re-opened, modified, and sealed; whereas, the signal ends are directly ligated. Here I report that only RAG1 can carry out a distinct endonucleolytic activity in vitro using an oligonucleotide substrate that is tethered by a short single-stranded DNA. The purified RAG1 protein alone formed a nick at the near position to the recombination signal sequence. This endonucleolytic activity was eliminated by immunoprecipitation using the RAG1-specific antibody, and required the 3'-hydroxy group. All of the RAG1 mutants that were incapable of the nick and hairpin formation in the V(D)J cleavage analysis also showed this new endonucleolytic activity. This suggests that the nicking activity that was observed might be functionally different from the nick formation in the V(D)J cleavage.

• Journal of Microbiology and Biotechnology
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• v.18 no.12
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• pp.1890-1894
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• 2008

Apoemulsan is a biopolymer with potent emulsification activity, produced by Acinetobacter venetian us RAG-1 (RAG-1). The wee gene cluster is responsible for apoemulsan biosynthesis. The analysis of (i) a putative polysaccharide copolymerase mutant (${\Delta}wzc$), (ii) a putative polymerase mutant (${\Delta}wzy$), and (iii) an apoemulsan-deficient variant (${\Delta}2$) indicated that the wee gene cluster controls the synthesis of two polysaccharides: high molecular weight (HMW) and low molecular weight (LMW). LMW polysaccharide of wee origin was present in LPS isolated from RAG-1 cells, suggesting a link to the Lipid A-core of LPS molecules. SDS-PAGE analysis indicated that apoemulsan is copurified with LPS polysaccharide, with implications in the emulsification activity of RAG-1 polymer.

• Korean Journal of Fisheries and Aquatic Sciences
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• v.57 no.3
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• pp.239-252
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• 2024

Recombination activating genes (RAGs) play a crucial role in initiating V(D)J recombination, which is essential for developing adaptive immunity in vertebrates. In this study, we cloned and characterized RAG1/2 cDNA from the marine medaka Oryzias dancena (OdRAG1/2) and investigated their mRNA expression patterns during ontogenetic developmental stages. The OdRAG1 and OdRAG2 cDNA contained open reading frames (ORFs) encoding proteins containing 1,078 and 531 amino acids, respectively. Multiple sequence alignment and phylogenetic analysis revealed that OdRAG1 and OdRAG2 are highly conserved with their corresponding orthologs, featuring distinct core and non-core regions. Notably, expression analysis showed that, in contrast to other fish RAGs studied, OdRAG1/2 expression peaked at 0 days post-hatching (DPH). Additionally, for the expression of T and B cell differentiation markers, CD3γ and CD20, also peaked at 0 DPH. Collectively, adaptive immunity in O. dancena potentially begins during embryonic development, which is critical for V(D)J recombination and essential immune component development, suggesting the early ontogenetic stage interactions between innate and adaptive immunity.

• KSBB Journal
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• v.6 no.4
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• pp.389-394
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• 1991

Emulsan is an extracellular emulsifying agent produced by the hydrocarbon-degrading Acinetobacter species RAG-1. In this study emulsan production of Acinetobacter calcpaceticus RAG-1 was investigated under various culture modes such as batch, fed-batch, membrane cell recycle, and continuous culture. The productions of emulsan under both ethanol-sufficient fed-batch and membrane cell recycle cultures were all 15.0U/ml, which was 53% increase in emulsan activity compared to that of pH controlled batch culture. Emulsan production was found to be strongly dependent on the residual ethanol concentration. In continuous culture the emulsan productivity increased with dilution rate.

• Korean Journal of Ichthyology
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• v.22 no.4
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• pp.273-278
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• 2010

Partial nucleotide sequences of nuclear protein-coding recombination activating gene 1 (RAG1) gene of two Abbottina and five Microphysogobio species residing in Korea were analyzed to elucidate the molecular phylogenetic position of A. springeri Banarescu and Nalbant. In RAG1 tree A. rivularis was clearly separated from the monophyletic lineage composed of A. springeri, Biwia zezera and Microphysogobio species. Within this lineage B. zezera showed sister-group relationship to the monophyletic group composed of A. springeri and five Microphysogobio species. Thus, our phylogenetic tree revealed the polyphyletic nature of two Abbottina species from Korea, which result is well congruent with the previous phyletic assumption based on osteological features. The current classification of Abbottina and Microphysogobio based on morphological criteria, such as the presence or absence of papillae on lips and size of swim bladder with or without encapsulation, does not reflect their true evolutionary history.

• BMB Reports
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• v.40 no.3
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• pp.432-438
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• 2007

V(D)J recombination, a site-specific gene rearrangement process occurring during the lymphocyte development, begins with DNA double strand breaks by two recombination activating gene products (RAG1/2) and finishes with the repair process by several proteins including DNA-dependent protein kinase (DNA-PK). In this report, we found that RAG2 was specifically phosphorylated by DNA-PK at the $365^{th}$ serine residue, and this phosphorylated RAG2 affected the V(D)J recombination activity in cells in the GFP expression-based assay. While the V(D)J recombination activity between wild-type RAG2 and mutant S365A RAG2 in the assay using a signal joint substrate was undistinguishable in DNA-PK deficient cells (M059J), the activity with wild-type RAG2 was largely increased in DNA-PK proficient cells (M059K) in comparison with mutant RAG2, suggesting that RAG2 phosphorylation by DNA-PK plays a crucial role in the signal joint formation during V(D)J recombination.

• Korean Journal of Ichthyology
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• v.21 no.4
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• pp.287-290
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• 2009

A natural hybrid between the striped spine loach Cobitis tetralineata and the king spine loach Iksookimia longicorpa was genetically identified by sequence analyses of nuclear recombination activating gene 1 (RAG1) and mitochondrial cytochrome c oxidase I (COI) genes. Out of 850 base positions of RAG1, a total of 23 nucleotide substitutions were detected between the two parental species, whereas the electropherogram of the natural hybrid displayed double peaks at all of the 23 positions, which reflects their simple Mendelian inheritance pattern. Meanwhile, comparison of partial sequences of mitochondrial genes (COI in this study), which are well characterized by the maternal inheritance pattern, revealed that the maternal species of the hybrid was C. tetralineata because of their 100% sequence identity.

• Korean Journal of Remote Sensing
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• v.22 no.6
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• pp.601-612
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• 2006

This study proposes RAG (Region Adjancency Graph)-based image segmentation for large imagery in remote sensing. The proposed algorithm uses CN-chain linking for computational efficiency and multi-window operation of sliding structure for memory efficiency. Region-merging due to RAG is a process to find an edge of the best merge and update the graph according to the merge. The CN-chain linking constructs a chain of the closest neighbors and finds the edge for merging two adjacent regions. It makes the computation time increase as much as an exact multiple in the increasement of image size. An RNV (Regional Neighbor Vector) is used to update the RAG according to the change in image configuration due to merging at each step. The analysis of large images requires an enormous amount of computational memory. The proposed sliding multi-window operation with horizontal structure considerably the memory capacity required for the analysis and then make it possible to apply the RAG-based segmentation for very large images. In this study, the proposed algorithm has been extensively evaluated using simulated images and the results have shown its potentiality for the application of remotely-sensed imagery.

• Annual Conference on Human and Language Technology
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• 2023.10a
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• pp.683-689
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• 2023

자연어 처리 분야는 최근에 큰 발전을 보였으며, 특히 초대규모 언어 모델의 등장은 이 분야에 큰 영향을 미쳤다. GPT와 같은 모델은 다양한 NLP 작업에서 높은 성능을 보이고 있으며, 특히 챗봇 분야에서 중요하게 다루어지고 있다. 하지만, 이러한 모델에도 여러 한계와 문제점이 있으며, 그 중 하나는 모델이 기대하지 않은 결과를 생성하는 것이다. 이를 해결하기 위한 다양한 방법 중, Retrieval-Augmented Generation(RAG) 방법이 주목받았다. 이 논문에서는 지식베이스와의 통합을 통한 도메인 특화형 질의응답 시스템의 효율성 개선 방안과 벡터 데이터 베이스의 수정을 통한 챗봇 답변 수정 및 업데이트 방안을 제안한다. 본 논문의 주요 기여는 다음과 같다: 1) QA Pair Passage RAG을 활용한 새로운 RAG 시스템 제안 및 성능 향상 분석 2) 기존의 LLM 및 RAG 시스템의 성능 측정 및 한계점 제시 3) RDBMS 기반의 벡터 검색 및 업데이트를 활용한 챗봇 제어 방법론 제안

• Journal of the Korean Society for Aviation and Aeronautics
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• v.29 no.1
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• pp.38-46
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• 2021

The Organization's ability to respond to social disasters has begun to be treated as important through social shock situations that have never been experienced, such as COVID-19. Among them, the ability to respond to unexpected risks and resilience is emerging. Since social disasters such as infectious diseases are periodically repeated, compounded, and enlarged, they develop into a global crisis situation, so this crisis response capability is treated as national competitiveness. Therefore, this study aims to improve the organization's response capability in terms of risk response and resilience under rapid social disasters such as COVID-19. The aviation safety field was taken as an example. From the Safety-II perspective, safety management focuses on the ability to resilience in response to system vulnerabilities in various situations. In this study, I intend to apply RAG(Resilience Assessment Grid) of Respond, Monitor, Learn and Anticipate, the four major potential of resilience engineering. Based on Hollnagel's research, potential elements were classified into four, and items were organized through an expert panel using Delphi techniques. The final configured RAG items are 15 Respond, 15 Monitor, 15 Learn and 11 Anticipate. The RAG was evaluated by 42 experts in the field of aviation safety.