• Plant Biotechnology Reports
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• 제3권2호
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• pp.127-134
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• 2009

Members of the NAM-ATAF-CUC (NAC) protein family are plant-specific transcription factors that contain a highly conserved N-terminal NAC-domain and diverse C-terminal regions. They have been implicated in plant development and abiotic stress responses. To identify interacters of rice NAC-domain proteins (OsNACs), we performed yeast two-hybrid screening of rice cDNA library using OsNAC5 as a bait, and the results showed that OsNAC5 interacts with other OsNACs including itself. To delineate an interacting domain, a series of deletion constructs of four OsNACs were made and transformed into yeast in various combinations. The results revealed that the conserved NAC domain of OsNACs plays a primary role in homodimer and heterodimer formation, and a part of C-terminal sequence is also necessary for the interaction. In vitro pull-down assays using recombinant OsNAC proteins verified the dimer formations, together suggesting that OsNACs may act by forming homodimers and/or heterodimers in plants.

• Molecules and Cells
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• 제23권2호
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• pp.207-214
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• 2007

lant ${\beta}$-1, 3-glucanases are involved in plant defense and in development. Very little data are available on the expression of rice glucanases both in developmental tissues and under various stresses. In this study, we cloned and characterized twenty-seven rice ${\beta}$-1, 3-glucanases (OsGlu) from at total of 71 putative glucanases. The OsGlu genes were obtained by PCR from a cDNA library and were classified into seven groups (Group I to VII) according to their DNA or amino acid sequence homology. Analysis of the expression of the twenty-seven OsGlu genes by Northern blotting revealed that they were differentially expressed in different developmental tissues as well as in response to plant hormones, biotic stress, high salt etc. OsGlu11 and 27 in Group IV were clearly expressed only in stem and leaf and were also induced strongly by SA (5 mM), ABA ($200{\mu}M$), and M. grisea. OsGlu1, 10, 11, and 14 were induced earlier and to higher levels in incompatible M. grisea interaction than in compatible one. Taken together, our findings suggest that the twenty-seven rice OsGlu gene products play diverse roles not only in plant defense but also in hormonal responses and in development.

• 한국자동차공학회논문집
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• 제13권1호
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• pp.68-75
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• 2005

By utilizing a semi-empirical soot model, the applicability of the laminar flamelet concept fur simulating the formation and oxidation of soot in the laminar diffusion flame has been studied. The source terms for two transport equations of the soot formation and oxidation are calculated in the mixture fraction/scalar dissipation rate space for laminar flamelets and stored in a library. In this study, emphasis is given to the interaction associated with radiation and soot formation. The radiative heat loss is obtained by solving the radiative transfer equation using the unstructured grid finite volume method with the WSGGM. The calculated temperatures and soot volume fractions agree relatively well with the experimental data and the previous numerical results of Kaplan et al. using the detailed chemistry.

• Journal of Information Science Theory and Practice
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• 제1권3호
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• pp.12-32
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• 2013

The paper introduces the research area of interactive information retrieval (IIR) from a historical point of view. Further, the focus here is on evaluation, because much research in IR deals with IR evaluation methodology due to the core research interest in IR performance, system interaction and satisfaction with retrieved information. In order to position IIR evaluation, the Cranfield model and the series of tests that led to the Cranfield model are outlined. Three iconic user-oriented studies and projects that all have contributed to how IIR is perceived and understood today are presented: The MEDLARS test, the Book House fiction retrieval system, and the OKAPI project. On this basis the call for alternative IIR evaluation approaches motivated by the three revolutions (the cognitive, the relevance, and the interactive revolutions) put forward by Robertson & Hancock-Beaulieu (1992) is presented. As a response to this call the 'IIR evaluation model' by Borlund (e.g., 2003a) is introduced. The objective of the IIR evaluation model is to facilitate IIR evaluation as close as possible to actual information searching and IR processes, though still in a relatively controlled evaluation environment, in which the test instrument of a simulated work task situation plays a central part.

• Animal cells and systems
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• 제12권3호
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• pp.143-148
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• 2008

Heterogeneous nuclear ribonucleoprotein E1(hnRNP E1) is one of the primary pre-mRNA binding proteins in human cells. It consists of 356 amino acid residues and harbors three hnRNP K homology(KH) domains that mediate RNA-binding. The hnRNP E1 protein was shown to play important roles in mRNA stabilization and translational control. In order to enhance our understanding of the cellular functions of hnRNP E1, we searched for interacting proteins through a yeast two-hybrid screening while using HeLa cDNA library as target. One of the cDNA clones was found to be human ribosomal protein L18a cDNA(GenBank accession number BC071920). We demonstrated in this study that human ribosomal protein L18a, a constituent of ribosomal protein large subunit, interacts specifically with hnRNP E1 in the yeast two-hybrid system. Such an interaction was observed for the first time in this study, and was also verified by biochemical assay.

• 한국추진공학회:학술대회논문집
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• 한국추진공학회 2010년도 제35회 추계학술대회논문집
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• pp.85-88
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• 2010

본 연구에서는 액체로켓 분사기에서 임계압력 이상의 추진제의 혼합과 연소과정을 수치적으로 모사하여 분석하고자 하였다. 이 과정에서 확장된 $k-{\varepsilon}$ 난류 모델을 이용하여 난류 속도장을 예측하였고 고압에서의 실제 유체 효과를 고려하기 위하여 혼합 추진제의 물성치는 SRK 상태 방정식을 이용하여 계산하였다. 또한 난류 확산 화염에서의 좀 더 정확한 난류와 화학반응의 상호작용을 고려하기 위하여 실제 유체 효과를 고려할 수 있는 층류 화염편 모델을 이용하였다. 수치적인 계산을 바탕으로 이상기체 가정을 사용한 결과와 비교하여 실제 유체의 효과와 기체메탄/액체산소 동축 전단 분사기의 제트화염 구조를 상세하게 살펴보았다.

• 한국시뮬레이션학회:학술대회논문집
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• 한국시뮬레이션학회 1997년도 춘계 학술대회 발표집
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• pp.23-28
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• 1997

We discuss development of a simulator for automated manufacturing systems (AMSs) which have sophisticated automated material handling equipments and complicated work flows. The simulator is designed to satisfy the following requirements. A user should be able to easily configure or specify an AMS through a graphical user interface (GUI) and minimal data input. The user should be able to model diverse and complied control logic for automated material handling systems like automated guided vehicle (AGV) systems, robot workcell systems and conveyor systems as well as complicated job flow program. Real time animation is desired. Finally, the simulator should be easily maintained and extended. To satisfy the requirements, we use an object-oriented paradigm for modeling, designing, and programming of the simulator. We use an object-oriented modeling framework to design the modeling elements library, and take the process interaction approach for scheduling processes and events. To model a user-defined diverse control logic, we also develop a script language and its interpreter. We explain design and implementation strategies. We implement the simulator using Visual C++ 4.2 and Open GL on Windows NT and the Windows95. Some modeling examples will be demonstrated.

• Bulletin of the Korean Chemical Society
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• 제33권12호
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• pp.4074-4078
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• 2012

The first step in the common pathway for the biosynthesis of branched chain amino acids is catalyzed by acetohydroxyacid synthase (AHAS). The AHAS is found in plants, fungi and bacteria. With an aim to identify new anti-tuberculosis drugs that inhibit branched chain amino acid biosynthesis, we screened a chemical library against Mycobacterium tuberculosis AHAS. The screening identified four compounds, AVS 2087, AVS 2093, AVS 2236, and AVS 2387 with $IC_{50}$ values of 0.28, 0.21, 3.88, and $0.25{\mu}M$, respectively. Moreover, these four compounds also showed strong inhibition against reconstituted AHAS with $IC_{50}$ values of 0.37, 0.26, 1.0, and $1.18{\mu}M$, respectively. The basic scaffold of the AVS group consists of 1-pyrimidin-2-yl-1H-[1,2,4]-triazole-3-sulfonamide. The most active compound, AVS 2387, showed the lowest total interaction energy -8.75 Kcal/mol and illustrates its binding mode by hydrogen bonding with $H_{\varepsilon}$ of Gln517 with the distance of $2.24{\AA}$.

• Journal of Information Science Theory and Practice
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• 제2권1호
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• pp.6-21
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• 2014

This paper proposes a novel knowledge extraction system, TAKES (Two-step Approach for Knowledge Extraction System), which integrates advanced techniques from Information Retrieval (IR), Information Extraction (IE), and Natural Language Processing (NLP). In particular, TAKES adopts a novel keyphrase extraction-based query expansion technique to collect promising documents. It also uses a Conditional Random Field-based machine learning technique to extract important biological entities and relations. TAKES is applied to biological knowledge extraction, particularly retrieving promising documents that contain Protein-Protein Interaction (PPI) and extracting PPI pairs. TAKES consists of two major components: DocSpotter, which is used to query and retrieve promising documents for extraction, and a Conditional Random Field (CRF)-based entity extraction component known as FCRF. The present paper investigated research problems addressing the issues with a knowledge extraction system and conducted a series of experiments to test our hypotheses. The findings from the experiments are as follows: First, the author verified, using three different test collections to measure the performance of our query expansion technique, that DocSpotter is robust and highly accurate when compared to Okapi BM25 and SLIPPER. Second, the author verified that our relation extraction algorithm, FCRF, is highly accurate in terms of F-Measure compared to four other competitive extraction algorithms: Support Vector Machine, Maximum Entropy, Single POS HMM, and Rapier.

• Bulletin of the Korean Chemical Society
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• 제20권11호
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• pp.1335-1339
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• 1999

The function of 5S rRNA, a constituent of a large subunit of ribosome, is not clearly known yet. To identify RNA motifs interacting with 5S rRNA, and thereby to get an insight into the function of 5S rRNA in the ribosome, a SELEX (Systematic Evolution of Ligands by Exponential Enrichment) experiment was performed. RNA molecules binding to Escherichia coli 5S rRNA were selected from a 48-mer random sequence library through 12 rounds of selection, cloned, and sequenced. Two groups of the selected RNA molecules had the consensus sequences GCGG and GUGAAA, respectively, which are present in the segment, G688 through A696, of E. coli 16S rRNA. The gel mobility shift assay showed that 5S rRNA interacted with the 16S rRNA fragment containing the GCGG and GUGAAA sequences. The enzymatic protection experiment shows that the A29CCUGA34 and G51AAGUG56 sequences of 5S rRNA and the C680AGG683 and G688CGG691 sequences of the 16S rRNA fragment are involved in the interaction between the two RNA molecules. On the basis of this observation, we suggest that 5S rRNA and 16S rRNA play a role for the association of two ribosomal subunits.