• 한국생물정보학회:학술대회논문집
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• 한국생물정보시스템생물학회 2005년도 BIOINFO 2005
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• pp.383-387
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• 2005

One of the most important issues in post-genome era is identifying functions of genes and understanding the interaction among them. Such interactions from complex biochemical pathways, which are very useful to understand the organism system. We present an integrated biochemical pathway database system with a set of software tools for reconstruction, visualization, and simulation of the pathways from the database. The novel features of the presented system include: (a) automatic integration of the heterogeneous biochemical pathway databases, (b) gene ontology for high quality of database in the integration and query (c) various biochemical simulations on the pathway database, (d) dynamic pathway reconstruction for the gene list or sequence data, (e) graphical tools which enable users to view the reconstructed pathways in a dynamic form, (f) importing/exporting SBML documents, a data exchange standard for systems biology.

• 한국정보처리학회논문지
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• 제7권3호
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• pp.971-976
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• 2000

In this paper a new method for head gesture recognition is proposed. A the first stage, face image data are transformed into low dimensional vectors by principal component analysis (PCA), which utilizes the high correlation between face pose images. The a self organization map(SM) is trained by the transformed face vectors, in such a that the nodes at similar locations respond to similar poses. A sequence of poses which comprises each model gesture goes through PCA and SOM, and the result is stored in the database. At the recognition stage any sequence of frames goes through the PCA and SOM, and the result is compared with the model gesture stored in the database. To improve robustness of classification, probabilistic relaxation labeling(PRL) is used, which utilizes the contextural information imbedded in the adjacent poses.

• 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.

• 한국음향학회지
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• 제31권1호
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• pp.39-50
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• 2012

A voice transformation (VT) method that can make the utterance of a source speaker mimic that of a target speaker is described. Speaker individuality transformation is achieved by altering three feature parameters, which include the LPC cepstrum, pitch period and gain. The main objective of this study involves construction of an optimal sequence of features selected from a target speaker's database, to maximize both the correlation probabilities between the transformed and the source features and the likelihood of the transformed features with respect to the target model. A set of two-pass conversion rules is proposed, where the feature parameters are first selected from a database then the optimal sequence of the feature parameters is then constructed in the second pass. The conversion rules were developed using a statistical approach that employed a maximum likelihood criterion. In constructing an optimal sequence of the features, a hidden Markov model (HMM) was employed to find the most likely combination of the features with respect to the target speaker's model. The effectiveness of the proposed transformation method was evaluated using objective tests and informal listening tests. We confirmed that the proposed method leads to perceptually more preferred results, compared with the conventional methods.

• Journal of Microbiology and Biotechnology
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• 제22권7호
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• pp.902-906
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• 2012

Expressed sequence tags (ESTs) from the Antarctic green algae Pyramimonas gelidicola were analyzed to obtain molecular information on cold acclimation of psychrophilic microorganisms. A total of 2,112 EST clones were sequenced, generating 222 contigs and 219 singletons, and 200 contigs and 391 singletons from control ($4^{\circ}C$) and cold-shock conditions ($-2^{\circ}C$), respectively. The complete EST sequences were deposited to the DDBJ EST database (http://www.ddbj.nig.ac.jp/index-e.html) and the nucleotide sequences reported in this study are available in the DDBJ/EMBL/GenBank. These EST databases of Antarctic green algae can be used in a wide range of studies on psychrophilic genes expressed by polar microorganisms.

• 한국생물정보학회:학술대회논문집
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• 한국생물정보시스템생물학회 2005년도 BIOINFO 2005
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• pp.91-95
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• 2005

In the multidimensional protein identification technology of high-throughput proteomics, we use one-dimensional gel electrophoresis and after the separation by two-dimensional liquid chromatography, the sample is analyzed by tandem mass spectrometry. In this study, we have analyzed the Pseudomonas Putida KT2440 protein. From the protein identification, the protein database was combined with its reversed sequence database. From the peptide selection whose error rate is less than 1%, the SEQUEST database search for the tandem mass spectral data identified 2,045 proteins. For each protein, we compared the molecular weight calibrated from 1D-gel band position with the theoretical molecular weight computed from the amino acid sequence, by defining a variable MW$_{corr}$ Since the bacterial proteome is simpler than human proteome considering the complexity and modifications, the proteome analysis result for the Pseudomonas Putida KT2440 could suggest a guideline to build the protocol to analyze human proteome data.

• 한국생물정보학회:학술대회논문집
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• 한국생물정보시스템생물학회 2000년도 International Symposium on Bioinformatics
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• pp.83-85
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• 2000

A lot of microbial genome sequencing projects is being done in many genome centers around the world, since the first genome, Haemophilus influenzae, was sequenced in 1995. The deluge of microbial genome sequence data demands new and highly automatic data flow system in order for genome researchers to manage and analyze their own bulky sequence data from low-level to high-level. In such an aspect, we developed the automatic data management system for microbial genome projects, which consists mainly of local database, analysis programs, and user-friendly interface. We designed and implemented the local database for large-scale sequencing projects, which makes systematic and consistent data management and retrieval possible and is tightly coupled with analysis programs and web-based user interface, That is, parsing and storage of the results of analysis programs in local database is possible and user can retrieve the data in any level of data process by means of web-based graphical user interface. Contig assembly, homology search, and ORF prediction, which are essential in genome projects, make analysis programs in our system. All but Contig assembly program are open as public domain. These programs are connected with each other by means of a lot of utility programs. As a result, this system will maximize the efficiency in cost and time in genome research.

• 대한바이러스학회지
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• 제29권1호
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• pp.23-31
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• 1999

Hantavirus is a genus of the Bunyaviridae family causing two serious diseases, hemorrhagic fever with renal syndrome (HFRS) and hantavirus pulmonary syndrome (HPS). Puumala virus is a member of hantavirus originally found in Europe, and its natural reservoir is Clethrionomys glareolus. It is also associated with the human disease nephropathia epidemica, a milder form of HFRS. To identify the hantaviruses in bats, bats were collected from Jeong-Sun, Won-Joo, Chung-Ju and Hwa-Cheon area in Korea, and nested RT-PCR was performed with serotype specific primer from M segment. Interestingly, Puumala virus was detected in bats (Rhinolophus ferrum-equinum) only from Won-Joo. The 327 bp nested RT-PCR product, was sequenced. The sequence database search indicates that the sequence is homologous to the published sequence of Puumala viruses. The sequence similarities were ranged from 71% to 97%. The highest sequence similarity was 97% with Puumala virus Vranicam strain, and the lowest was 71% with Puumala virus K27 isolate. Puumala virus Vranicam strain was isolated from a bank vole (Clethrionomys glareolus) in Bosnia-Hercegovina. Puumala virus K27 was isolated from human in Russia. This analysis confirms that bats (Rhinolophus ferrum-equinum) in Korea are natural reservoir of Puumala virus.

• 한국해양공학회:학술대회논문집
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• 한국해양공학회 2004년도 학술대회지
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• pp.61-66
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• 2004

In this paper an effort is made to develop an innovative spatial arrangement concept pertaining to ship building industry. The spatial scheduling is the problem that concentrates on effective planning of available space and arrangements of blocks and in a priority manner. In order to create an effective spatial scheduling. a database providing the priority has to be available to make the erection sequence. Such a system works hand in hand with erection sequence generator program The erection sequence program works on the conventional network analysis method which uses a typical parent-children idea for the calculation of the ENT(possible earliest network start time) and LNT(possible latest network start time). This program works in a cyclic manner taking turns by calculating the ENT in upward trace and LNT on the return trace thereby generating the entire erection sequence diagram for the requisite problem The generated database serves as an input data for spatial scheduling problem. When the system works it takes into consideration the entire system based on heuristic concepts as mentioned. There system uses the spatial aspects such as the available area of the P. E area and plan area of the corresponding blocks and its priority of erection from the erection sequence generator program develops the spatial scheduling arrangement. In this paper using all these concepts an innovative spatial schedule development system developed.

• 한국정보통신학회:학술대회논문집
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• 한국해양정보통신학회 2005년도 추계종합학술대회
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• pp.1073-1076
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• 2005

유전자 데이터베이스의 크기는 매년 기하급수적으로 증가하기 때문에 기존의 Smith-Waterman 알고리즘으로 정확한 서열의 유사성을 검색하는 것은 비효율적이다. 따라서 빠른 유사성 검색을 위해 데이터베이스에 저장된 문자열에 대해 특정 길이의 모든 부분문자열에 나타나는 문자의 출현 빈도를 이용한 휴리스틱 방법들이 제안되었다. 그러나 이 방법은 문자의 출현 빈도만을 사용하므로 서로 다른 서열을 같은 서열로 취급하는 단점이 있어 정화도가 Smith-Waterman 알고리즘에 비해 현저히 떨어진다. 본 논문에서는 문자가 부분문자열에 나타나는 위치 정보를 포함하여 문자의 출현빈도를 색인함으로써 질의 처리를 효율적으로 수행하는 알고리즘을 제안한다. 실험결과 제안된 알고리즘은문자 빈도만을 사용하는 휴리스틱 알고리즘들에 비해 5${\sim}$20%정도 정확성이 향상되었다.