• Bulletin of the Korean Chemical Society
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• 제32권2호
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• pp.599-604
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• 2011

In typical proteomic analysis, trypsin digestion is one of the most time-consuming steps. Conventional proteomic sample preparation methods use an overnight trypsin digestion method. In this study, we compared high-pressure cycling technology (PCT) during enzyme digestion for proteome analysis to the conventional method. We examined the effect of PCT on enzyme activity at temperatures of 25, 37, and $50^{\circ}C$. Although a fast digestion (1 h) was used for the standard protein mixture analysis, the PCT-assisted method with urea showed better results for protein sequence coverage and the number of peptides identified compared with the conventional method. There was no significant difference between temperatures for PCT-assisted digestion; however, we selected PCT-assisted digestion with urea at $25^{\circ}C$ as an optimized method for fast enzyme digestion, based on peptide carbamylation at these conditions. The optimized method was used for stem cell proteome analysis. We identified 233, 264 and 137 proteins using the conventional method with urea at $37^{\circ}C$ for 16h, the PCT-assisted digestion with urea at $25^{\circ}C$ for 1 h, and the non-PCT-assisted digestion with urea at $25^{\circ}C$ for 1 h, respectively. A comparison of these results suggests that PCT enhanced the enzyme digestion by permitting better access to cleavage sites on the proteins.

• 인터넷정보학회논문지
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• 제2권1호
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• pp.1-11
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• 2001

프로토콜을 시험하기 위하여 페트리 네트나 동적인 FSM을 이용하여 시험열을 생성하는 방법이 제시되고 있지만, 이 방법은 프로토콜 오류를 허용하거나 루핑 경로가 포함되어 있는 경우에는 에러가 발생하거나 상태가 폭발하여 시험열 생성이 불가능하다. 또 프로토콜을 구현하고 시험하기 위한 시험 범위를 결정하는 것은 시간적 기술적 및 경제적으로 어려운 문제이다. 이를 위하여 정규 표현식을 이용하여 정적으로 간단하게 프로토콜 기능을 커버하는 시험열 생성 방안을 제시하였다. 제안한 방법에 의하여 Q.2971 프로토콜의 최소 시험열을 생성한 결과 38가지의 시험열을 구하였으며, 동적인 방법을 사용할 때 루프 상태의 형성에 기인하는 반복 시험 횟수 문제는 표현식을 단순화하는 과정에서 최소화시킬 수 있었다. 이 과정에서, 시험열의 생성은 정규 표현식을 사용하는 것이 간단하고 쉽다는 것을 확인하였다. 또한 구해진 정규 표현식에서 임의의 시험열의 포함 관계를 검출하기 위한 방법도 검토하였다.

• Journal of Information Processing Systems
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• 제8권2호
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• pp.213-240
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• 2012

Safety critical systems, real time systems, and event-based systems have a complex set of events and their own interdependency, which makes them difficult to test ma Safety critic Safety critical systems, real time systems, and event-based systems have a complex set of events and their own interdependency, which makes them difficult to test manually. In order to cut down on costs, save time, and increase reliability, the model based testing approach is the best solution. Such an approach does not require applications or codes prior to generating test cases, so it leads to the early detection of faults, which helps in reducing the development time. Several model-based testing approaches have used different UML models but very few works have been reported to show the generation of test cases that use events. Test cases that use events are an apt choice for these types of systems. However, these works have considered events that happen at a user interface level in a system while other events that happen in a system are not considered. Such works have limited applications in testing the GUI of a system. In this paper, a novel model-based testing approach is presented using business events, state events, and control events that have been captured directly from requirement specifications. The proposed approach documents events in event templates and then builds an event-flow model and a fault model for a system. Test coverage criterion and an algorithm are designed using these models to generate event sequence based test scenarios and test cases. Unlike other event based approaches, our approach is able to detect the proposed faults in a system. A prototype tool is developed to automate and evaluate the applicability of the entire process. Results have shown that the proposed approach and supportive tool is able to successfully derive test scenarios and test cases from the requirement specifications of safety critical systems, real time systems, and event based systems.

• Genomics & Informatics
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• 제13권3호
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• pp.81-85
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• 2015

Molecular characterization technology in genetically modified organisms, in addition to how transgenic biotechnologies are developed now require full transparency to assess the risk to living modified and non-modified organisms. Next generation sequencing (NGS) methodology is suggested as an effective means in genome characterization and detection of transgenic insertion locations. In the present study, we applied NGS to insert transgenic loci, specifically the epidermal growth factor (EGF) in genetically modified rice cells. A total of 29.3 Gb (${\sim}72{\times}coverage$) was sequenced with a $2{\times}150bp$ paired end method by Illumina HiSeq2500, which was consecutively mapped to the rice genome and T-vector sequence. The compatible pairs of reads were successfully mapped to 10 loci on the rice chromosome and vector sequences were validated to the insertion location by polymerase chain reaction (PCR) amplification. The EGF transgenic site was confirmed only on chromosome 4 by PCR. Results of this study demonstrated the success of NGS data to characterize the rice genome. Bioinformatics analyses must be developed in association with NGS data to identify highly accurate transgenic sites.

• 대한전기학회:학술대회논문집
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• 대한전기학회 2006년도 제37회 하계학술대회 논문집 C
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• pp.1629-1630
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• 2006

This paper describes a micro total analysis system ($\mu$ TAS) for detecting and digesting the target protein which includes a bead based temperature controllable microchip and computer based controllers for temperature and valve actuation. We firstly combined the temperature control function with a bead based microchip and realized the on-chip sequential reactions using two kinds of beads. The PEG-grafted bead, on which RNA aptamer was immobilized, was used for capturing and releasing the target protein. The target protein can be chosen by the type of RNA aptamer. In this paper, we used the RNA aptamer of HCV replicase. The trypsin coated bead was used for digesting the released protein prior to the matrix assisted laser desorption ionization time of flight mass spectrometer (MALDI TOF MS). Heat is applied for release of the captured protein binding on the bead, thermal denaturation and trypsin digestion. PDMS microchannel and PDMS micro pneumatic valves were also combined for the small volume liquid handling. The entire procedures for the detection and the digestion of the target protein were successfully carried out on a microchip without any other chemical treatment or off-chip handling using $20\;{\mu}l$ protein mixture within 20 min. We could acquire six matched peaks (7% sequence coverage) of HCV replicase.

• Journal of Biosystems Engineering
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• 제38권1호
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• pp.1-8
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• 2013

Purpose: Path planning and tracking algorithms applicable to various agricultural operations, such as tillage, planting, and spraying, are needed to generate steering angles for auto-guidance tractors to track a point ahead on the path. An optimal coverage path algorithm can enable a vehicle to effectively travel across a field by following a sequence of parallel paths with fixed spacing. This study proposes a path generation and tracking algorithm for an auto-guided Korean tractor with a tillage implement that generates a path with C-type turns and follows the generated path in a paddy field. A mathematical model was developed to generate a waypoint path for a tractor in a field. This waypoint path generation model was based on minimum tractor turning radius, waypoint intervals and LBOs (Limit of Boundary Offsets). At each location, the steering angle was calculated by comparing the waypoint angle and heading angle of the tractor. A path following program was developed with Labview-CVI to automatically read the waypoints and generate steering angles for the tractor to proceed to the next waypoint. A feasibility test of the developed program for real-time path tracking was performed with a mobile platform traveling on flat ground. The test results showed that the developed algorithm generated the desired path and steering angles with acceptable accuracy.

• 한국자원식물학회:학술대회논문집
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• 한국자원식물학회 2019년도 추계학술대회
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• pp.32-32
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• 2019

The aim of this study was to provide basic guidelines for conservation and management of endangered plants in the national parks of Korea. Iris dichotoma Pall. (Iridaceae), which is a popular garden plant, is considered a second-class endangered species by Korean government and it is listed as a EN (Endangered) species in Red Data Book of Korea. We analyzed ecological conditions of I. dichotoma habitats based on vegetation properties and soil characteristics. This species which is known to inhabit in grassland adjacent to the ocean of lowlands slope and its population was located at an elevation of 8 m to 11 m. In the study sites, the mean of soil organic matter, total nitrogen and soil pH were 6.16%, 0.234% and 5.39 respectively. Additionally, the genetic variation and structure of three populations were assessed using ISSR (Inter Simple Sequence Repeat) markers. The genetic diversity of I. dichotoma (P = 59.46%, H = 0.206, S = 0.310) at the species level was relatively high. Analysis of molecular variance (AMOVA) showed 82.1% of the total genetic diversity was occurred in within populations and 17.9% variation among populations. Lastly, we developed predicted distribution model based on climate and topographic factors by applying SDMs (Species Distribution Models). Consequently, current status of I. dichotoma habitats is limited with natural factors such as the increase of the coverage rate of the herbs due to ecological succession. Therefore, it is essential to establish in situ and ex situ conservation strategies for protecting natural habitats and to require exploring potential and alternative habitats for reintroduction.

• 한국기후변화학회지
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• 제7권3호
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• pp.299-314
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• 2016

The aim of this paper is to review integrated assessment studies conducted to address the impacts of climate change sea-level rise on agricultural sector and to derive suggestions for improving the integrated assessment process to assist decision-makers in establishing climate change adaptation policy. We collect integrated assessment studies which are based on the impact-pathway analysis, compare their step-by-step procedures and identify main factors addressed in each step. The assessment process is typically carried out in the sequence of scenario development, determination of assessment scope, physical impact assessment, economic analysis and synthesis of the outcomes from each step. We identify two types of integrated assessment. The first one examines the impacts of changes in temperature and/or precipitation on the crop-cultivation patterns and/or agricultural productivity and resulting economic effects on agricultural sector. The other investigates the impacts of sea-level rise on land use/coverage and resulting economic damages in terms of land-value loss where the effects on agriculture is treated as one sector among others. To enhance integrated assessment, we suggest that 1) scenarios need to incorporate the effects of climate change and sea-level rise simultaneously, 2) scope of the assessment needs to be extended to include ecosystem services as well as crop production, 3) social and cultural aspects need to be considered in addition to economic analysis, and 4) synthesis of the outcomes from each step should be able to combine quantitative as well as qualitative information.

• 대한치과보철학회지
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• 제40권3호
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• pp.296-305
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• 2002

The main disadvantage of cement-retained implant restorations is their difficulty in retrievability. Advocates of cemented implant restorations frequently state that retrievability of the restoration can be maintained if a provisional cement is used. The purpose of this study was to find the optimal properties of provisional luting cements and the surface treatment of abutments in single implant abutment system. 30 prefabricated implant abutments, height 8mm, diameter 6mm, 3-degree taper per side, with light chamfer margins were obtained. Three commercially available provisional luting agents which were all zinc oxide eugenol type ; Cavitec, TempBond and TempBond NE were evaluated. No cement served as the control. TempBond along with vaseline, a kind of petrolatum (2:1 ratio) was also evaluated. Ten out of thirty abutments were randomly selected and abutment surfaces were sandblasted with $50{\mu}m$ aluminum oxide. Another ten abutments were sandblasted with $250{\mu}m$ aluminum oxide. A vertical groove, 1 mm deep and 5mm long was cut in each twenty abutments. Ten of them were sandblasted with $50{\mu}m$ aluminum oxide. The full coverage casting crowns were cemented to the abutments with the designated provisional luting agent. Specimens were stored in distilled water at $37^{\circ}C$ for 24 hours. Each specimen was attached to a universal testing machine. A crosshead speed of 0.5mm/min was used to apply a tensile force to each specimen. Within the limitations of this in vitro study, the following conclusions were drawn: 1. Tensile bond strength of provisional luting cements in no surface treatment decreased with the sequence of TempBond NE, TempBond, Cavitec, TempBond with vaseline, no cement. 2. Tensile bond strength more increased by surface treatment. Sandblasting with $250{\mu}m$ aluminum oxide exhibited the highest tensile bond strength in the abutment cemented with TempBond NE and sandblasting with $50{\mu}m$ aluminum oxide exhibited the highest tensile bond strength in cemented with TempBond. 3. In the aspect of a groove formation, tensile bond strength significantly increased in TempBond with vaseline only and the others had no significant effect on tensile bond strength.

• 분석과학
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• 제24권6호
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• pp.510-518
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• 2011

최근 질량분석기와 다차원 크로마토그래피 분석법과 대용량 데이터를 처리하는 생물정보학 프로그램 등과 같은 복합적인 기술요소들의 발전은 대량 프로테옴을 분석하는 것을 가능하게 했다. 하지만, 이런 대량의 프로테옴을 분석하는 것은 단백질 절편화 과정의 긴 소요 시간과 낮은 재현성으로 인하여 한계를 가진다. 이 연구에서는 어쿠스틱 기술을 이용해 빠르게 단백질을 분해하는 새로운 방법을 제시했다. 이 어쿠스틱 기술의 시간과 강도를 최적화하기 위해서 여러 가지 조건에서 BSA 단백질을 트립신으로 절편화한 후 액체 크로마토그래피와 질량분석기로 분석하였다. 16시간동안 인큐베이션하는 기존의 방법과 슈퍼 어쿠스틱 기술을 사용한 방법을 비교하였을 때 슈퍼 어쿠스틱 기술이 기존의 방법보다 더 높은 아미노산 동정율을 보였으며, 유방암 세포와 같은 단백질 복합체에 적용하였을 때 30분의 절편화 시간에서도 효율적인 결과를 확인할 수 있었다. 이 새로운 방법은 샘플 전처리 과정에서 많은 양의 단백질일지라도 더 좋은 효율성을 가지게 되고 또한, 소비되는 시간도 줄여주며 일정 시간내의 샘플 처리량도 증가하게 된다.