• 제어로봇시스템학회:학술대회논문집
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• 제어로봇시스템학회 2004년도 ICCAS
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• pp.132-137
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• 2004

On-Board Diagnostic(OBD) systems are in most cars and light trucks on the load today. During the 1970's and early 1980's manufacturers started using electronic means to control engine functions and diagnose engine problems. The CARB's diagnostic requirements to meet EPA emission standards have been designated as OBD with a goal of monitoring all of the emissions-related components, as well as the chassis, body, accessory devices and the diagnostic control network of the vehicle for proper operation. In this paper, we present a remote measurement system for the wireless monitoring of diagnosis signal and sensors output signals of ECU adopted KWP2000, united the OBD communication protocol, on OBD-compliant vehicle using the wirless communication technique of Bluetooth. In order to measure the ECU signals, the interface circuit is designed to communicate ECU and designed terminal wirelessly according to the ISO, SAE regulation of communication protocol standard. A microprocessor S3C3410X is used for communicating ECU signals. The embedded system's software is programmed to measure the ECU signals using the ARM compiler and ANCI C based on MicroC/OS kernel to communicate between bluetooth modules using bluetooth stack. The diagnostic system is developed using Visual C++ MFC and protocol stack of bluetooth for Windows environment. The self-diagnosis and sensor output signals of ECU is able to monitor using PC with bluetooth board connected in serial port of PC. The algorithms for measuring the ECU sensor output and self-diagnostic signals are verified to monitor ECU state. At the same time, the information to fix the vehicle's problem can be shown on the developed monitoring software. The possibility for remote measurement of self-diagnosis and sensor signals of ECU adopted KWP2000 in embedded system verified through the developed systems and algorithms.

• Asian Pacific Journal of Cancer Prevention
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• 제17권5호
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• pp.2519-2525
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• 2016

There are several existing reports of microarray chip use for assessment of altered gene expression in different diseases. In fact, there have been over 1.5 million assays of this kind performed over the last twenty years, which have influenced clinical and translational research studies. The most commonly used DNA microarray platforms are Affymetrix GeneChip and Quality Control Software along with their GeneChip Probe Arrays. These chips are created using several quality controls to confirm the success of each assay, but their actual impact on gene expression profiles had not been previously analyzed until the appearance of several bioinformatics tools for this purpose. We here performed a data mining analysis, in this case specifically focused on ovarian cancer, as well as healthy ovarian tissue and ovarian cell lines, in order to confirm quality control results and associated variation in gene expression profiles. The microarray data used in our research were downloaded from ArrayExpress and Gene Expression Omnibus (GEO) and analyzed with Expression Console Software using RMA, MAS5 and Plier algorithms. The gene expression profiles were obtained using Partek Genomics Suite v6.6 and data were visualized using principal component analysis, heat map, and Venn diagrams. Microarray quality control analysis showed that roughly 40% of the microarray files were false negative, demonstrating over- and under-estimation of expressed genes. Additionally, we confirmed the results performing second analysis using independent samples. About 70% of the significant expressed genes were correlated in both analyses. These results demonstrate the importance of appropriate microarray processing to obtain a reliable gene expression profile.

• 한국정보과학회논문지:소프트웨어및응용
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• 제36권11호
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• pp.875-890
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• 2009

대사체학은 대사 경로 네트워크를 통해 생명 활동을 이해하고자 하는 분야로서, 대사 경로 내의 흐름을 한 눈에 알 수 있도록 가시화하여 보여 주는 도구가 반드시 필요하다. 이러한 가시화 도구의 경우 노드수가 증가할수록 에지 교차가 기하급수적으로 증가하는 문제가 있다. 따라서 유전체 수준의 대사경로를 연구하기 위해서는 대사 경로 그래프 레이아웃 상에 나타나는 에지 교차를 줄이는 것이 시각화의 매우 중요한 부분이다. 본 논문에서는 대사 경로의 구조적인 특징에 기반한 3차원 공간 상에 대사 경로 그래프를 레이아웃해 주는 모듈을 설계, 구현하였다. 2-계층 레이아웃을 이용하여 대사 경로 그래프를 계층적으로 레이아웃함으로써 표현영역을, 3차원으로 확장시키고 기존의 2차원 레이아웃 알고리즘 적용시 번번히 나타나는 에지 교차의 수를 감소시키는 결과를 얻었다.

• 한국동물생명공학회지
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• 제38권3호
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• pp.158-166
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• 2023

Background: Copy number variation (CNV) can be identified using next-generation sequencing and microarray technologies, the research on the analysis of its association with meat traits in livestock breeding has significantly increased in recent years. Hanwoo is an inherent species raised in the Republic of Korea. It is now considered one of the most economically important species and a major food source mainly used for meat (Hanwoo beef). Methods: In this study, CNVs and the relationship between the obtained CNV regions (CNVRs) can be identified in the Hanwoo steer samples (n = 473) using Illumina Hanwoo SNP 50K bead chip and bioinformatic tools, which were used to locate the required data and meat traits were investigated. The PennCNV software was used for the identification of CNVs, followed by the use of the CNV Ruler software for locating the different CNVRs. Furthermore, bioinformatics analysis was performed. Results: We found a total of 2,575 autosomal CNVs (933 losses, 1,642 gains) and 416 CNVRs (289 gains, 111 losses, and 16 mixed), which were established with ranged in size from 2,183 bp to 983,333 bp and 10,004 bp to 381,836 bp, respectively. Upon analyzing the restriction of minor alleles frequency > 0.05 for meat traits association, 6 CNVRs in the carcass weight, 2 CNVRs in the marbling score, 3 CNVRs in the backfat thickness, and 2 CNVRs in the longissimus muscle area were related to the meat traits. In addition, we identified an overlap of 347 CNVRs. Moreover, 3 CNVRs were determined to have a gene that affects meat quality. Conclusions: Our results confirmed the relationship between Hanwoo CNVR and meat traits, and the possibility of overlapping candidate genes, annotations, and quantitative trait loci that results depended on to contribute to the greater understanding of CNVs in Hanwoo and its role in genetic variation among cattle livestock.

• BMB Reports
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• 제43권5호
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• pp.375-381
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• 2010

In this study, the cDNA library of Chang-liver cells was immunoscreened using common ADAMs antibody to obtain ADAM related genes. We found one positive clone that was confirmed as a new gene by Blast, which is an uncharacterized helical and coil protein and processes protease activity, and named protease-related protein 1 (ARP1). The submitted GenBank accession number is AY078070. Molecular characterizations of ARP1 were analyzed with appropriate bioinformatics software. To analyse its expression and function, ARP1 was subcloned into glutathione S-transferase fusion plasmid pGEX-2T and expressed by E. coli system. The in vitro expression product of ARP1 was recognized by common ADAMs antibody with western blot. Interestingly, ARP1 cleaves gelatine at pH9.5, which suggests it is an alkaline protease. Semi-quantitative RT-PCR result indicates that ARP1 mRNA is strongly transcribed in the liver and the treated Chang-liver cells.

• 한국정보과학회논문지:소프트웨어및응용
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• 제35권8호
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• pp.463-478
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• 2008

본 논문에서는 유전자 사이의 상관계수가 높은 마이크로어레이 데이타에 대하여 제안하는 알고리즘을 통해 상관계수가 낮은 유전자들의 부집합을 만들고, 이에 대해 적합 함수를 통한 평가로 기존 방법론이 가지는 한계를 극복할 수 있도록 하였다. 기존 방법론은 개별 특징의 평가를 통해 중복 특징을 제거하며, 상관계수에 대한 고려가 없어 선택된 유전자 부집합들의 상관계수가 논은 문제가 있었다. 이에 따라 제안하는 알고리즘은 특징간의 관계를 평가하는 Feature Wrapping 기법을 활용하여, 추출된 유전자 부집합에 포함된 유전자 사이의 상관관계가 낮고, 클래스 구분력이 높은 특징을 갖도록 하였다.

• 한국콘텐츠학회논문지
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• 제10권7호
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• pp.81-87
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• 2010

본 논문에서는 현재 생물정보학 연구에서 가장 많이 사용하고 있는 BLAST의 문제점을 분석하고 이에 따른 해결책을 제시하기 위하여 그리드 컴퓨팅을 이용한 G-BLAST(Grid Computing을 이용한 Basic Local Alignment Search Tool)를 제안한다. 본 연구에서 제안하고 있는 G-BLAST을 이용한 시스템은 이기종 분산 환경에서 수행이 가능한 서열분석 통합 소프트웨어 패키지이며 기존 서열분석 서비스의 취약점인 검색 성능을 개선하여 BLAST 검색 기능을 강화 하였다. 또한, BLAST 결과를 사용자가 관리 및 분석이 용이하도록 데이터베이스 및 유전체 서열분석 서비스 시스템을 구현하였다. 본 논문에서는 G-BLAST시스템의 성능확인을 위하여 병렬컴퓨팅 성능테스트 기법을 도입하여 구현된 시스템을 기존 BLAST와 속도 및 효율부분에서 비교하여 성능개선을 확인하였으며 서열결과 분석에 필요한 자료를 사용자관점에서 제공해주고 있다.

• 한국정보과학회논문지:소프트웨어및응용
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• 제37권1호
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• pp.74-79
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• 2010

단백질의 아미노산 조성은 생물정보학의 여러 문제를 해결하기 위한 기초적인 정보로 자주 활용된다. 본 논문에서는 아미노산간의 진화적인 연관성을 정의한 BLOSUM 행렬에서 유도한 유사도 함수를 사용하여 아미노산 조성을 결정한다. 이러한 방법은 생물학적인 연관성이 있는 단백질 서열일수록 비슷한 아미노산 조성을 갖도록 한다. 또한 단백질의 구조와 기능에 중요한 역할을 하는 위치-특이적인 아미노산의 분포를 추정하기 위해서 레이더나 음성 신호의 스펙트럼 분석에 사용되는 개념인 시간-종속 분석, 시간 해상도와 주파수 해상도의 개념을 적용하였다. 제안한 방법을 단백질의 세포내 위치예측에 적용하여 기존의 아미노산 조성 추정 방법을 사용하는 것보다 크게 향상된 성능을 보임을 확인하였다.

• Journal of Microbiology and Biotechnology
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• 제16권2호
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• pp.178-183
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• 2006

Microbes are one of the most important bioresources in bioindustry and provide high economic values. Although there are currently about 6,000 bacterial species with validly published names, microbiologists generally assume that the number may account for less than 1% of the bacterial species present on Earth. To discover the remaining species, studies of metagenomes, metabolomes, and proteomes related to microbes have recently been carried out in various fields. We have constructed an information system that integrates various data on microbial resources and manages bioinformation to support efficient research of microorganisms. We have designated this system 'Bio-Meta Information System (Bio-MIS).' Bio-MIS consists of an integrated microbial resource database, a microbial resource input system, an integrated microbial resource search engine, a microbial resource online distribution system, a portal service, and management via the Internet. In the future, this system is expected to be connected with various public databases. We plan to implement useful bioinformatics software for analyzing microbial genome resources. The Web site is accessible at http://biomis.probionic.com.

• Molecular & Cellular Toxicology
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• 제4권4호
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• pp.267-277
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• 2008

Benzene and ethylbenzene (BE), the volatile organic compounds (VOCs) are common constituents of cleaning and degreasing agents, paints, pesticides, personal care products, gasoline and solvents. VOCs are evaporated at room temperature and most of them exhibit acute and chronic toxicity to human. Chronic exposure of benzene is responsible for myeloid leukemia and also ethylbenzene is also recognized as a possible carcinogen. To evaluate the BE effect on human, whole human genome 35 K oligonucleotide microarray were screened for the identification of the differential expression profiling. We identified 280 up-regulated and 201 down-regulated genes changed by more than 1.5 fold by BE exposure. Functional analysis was carried out by using DAVID bioinformatics software. Clustering of these differentially expressed genes were associated with immune response, cytokine-cytokine receptor interaction, toll-like signaling pathway, small cell lung cancer, immune response, apoptosis, p53 signaling pathway and MAPKKK cascade possibly constituting alternative or subordinate pathways of hematotoxicity and immune toxicity. Gene ontology analysis methods including biological process, cellular components, molecular function and KEGG pathway thus provide a fundamental basis of the molecular pathways through BEs exposure in human lymphoma cells. This may provides a valuable information to do further analysis to explore the mechanism of BE induced hematotoxicity.