• Proceedings of the Korean Information Science Society Conference
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• 2005.07b
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• pp.157-159
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• 2005

본 논문에서는 단일 색인을 사용하는 정규화 변환 지원 서브시퀀스 매칭 방법을 제안한다. 기존의 정규화 변환 지원 서브시퀀스 매칭 방법은 질의 시퀀스 길이가 커질수록 성능이 저하되고, 이를 해결하기 위하여 여러개의 색인을 사용하는 방법을 취하였다. 본 논문에서는 하나의 색인을 사용하면서도 다양한 길이의 정규화 변환 지원 서브시퀀스 매칭을 수행하는 효율적인 방법을 제시한다. 이를 위하여, 본 논문에서는 정규화 변환의 정의를 확장하여 일반화 정규화 변환 개념을 제시한다. 또한, 이러한 일반화 정규화 변환 개념을 기존 서브시퀀스 매칭 방법들에 적용하는 방안에 대한 이론적 근거를 각각의 정리로서 제시하고 증명하였다. 그리고, 이들 방안을 구현하기 위한 색인 구성 알고리즘 및 서브시퀀스 매칭 알고리즘을 각각 제시하였다. 본 논문에서 제안한 정규화 변환 지원 서브시퀀스 매칭은 다른 변환을 지원하는 서브시퀀스 매칭으로 일반화 될 수 있는 우수한 연구결과라 사료된다.

• Proceedings of the Korean Information Science Society Conference
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• 1999.10a
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• pp.334-336
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• 1999

본 논문에서는 시계열 데이터베이스에서 임의 계수의 이동평균 변환을 지원하는 서브시퀀스 매칭 알고리즘을 제안한다. 응용분야와 분석하려고 하는 시계열 데이터의 특성에 따라 잡음의 영향을 줄이는 정도와 경향을 파악하는 주기가 달라지므로 이동평균 계수의 선택도 달라진다. 본 논문에서는 하나의 이동평균 계수에 대해서 생성한 인덱스만을 이용하여 인덱스가 생성되어 있지 않은 계수에 대해서도 탐색을 수행하는 방법을 제안한다. 이때, 제안된 탐색 기법이 질의 결과로 반환되어야 할 서브시퀀스를 모두 찾아내지 못하는 착오 기각이 발생하지 않음을 증명한다. 실험 결과, 모든 이동평균 계수에 대해 인덱스가 생성되어 있는 경우와 비교하여 탐색 성능의 저하는 42%이내였으며, 제안된 알고리즘의 탐색 성능이 순차 검색에 비하여 초대 2.7배 우수하였다.

• Journal of the Korean Institute of Intelligent Systems
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• v.22 no.2
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• pp.181-186
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• 2012

Recently there has been many active researches on searching similar sequences from data generated with the passage of time. Those data are classified as time series data or sequence data and have different semantics from scalar data of traditional databases. In this paper similar sequence search retrieves sequences that have a similar trend of value changes. At first we have transformed the original sequences by applying DFT. The converted data are more suitable for trend analysis and they require less number of attributes for sequence comparisons. In addition we have developed a region-based query and we applied bitmap indexes which could show better performance in data warehouse. We have built bitmap indexes with varying number of attributes and we have found the least cost query plans for efficient similar sequence searches.

• Journal of KIISE:Databases
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• v.34 no.5
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• pp.409-419
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• 2007

Database community focuses on the similar music retrieval systems for music database when a humming query is given. One of the approaches is converting the midi data to time series, building their indices and performing the similarity search on them. Queries based on humming can be transformed to time series by using the known pitch detection algorithms. The recently suggested algorithm, scaled and warped matching, is based on dynamic time warping and uniform scaling. This paper proposes Humming BIRD(Humming Based sImilaR mini music retrieval system) using sliding window and center-aligned scaled and warped matching. Center-aligned scaled and warped matching is a mixed distance measure of center-aligned uniform scaling and time warping. The newly proposed measure gives tighter lower bound than previous ones which results in reduced search space. The empirical results show the superiority of this algorithm comparing the pruning power while it returns the same results.

• Journal of KIISE:Databases
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• v.34 no.6
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• pp.503-517
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• 2007

In this paper we address the MBR-safe property of Piecewise Aggregation Approximation(PAA), and propose an of efficient subsequence matching method based on the MBR-safe PAA. A transformation is said to be MBR-safe if a low-dimensional MBR to which a high- dimensional MBR is transformed by the transformation contains every individual low-dimensional sequence to which a high-dimensional sequence is transformed. Using an MBR-safe transformation we can reduce the number of lower-dimensional transformations required in similar sequence matching, since it transforms a high-dimensional MBR itself to a low-dimensional MBR directly. Furthermore, PAA is known as an excellent lower-dimensional transformation single its computation is very simple, and its performance is superior to other transformations. Thus, to integrate these advantages of PAA and MBR-safeness, we first formally confirm the MBR-safe property of PAA, and then improve subsequence matching performance using the MBR-safe PAA. Contributions of the paper can be summarized as follows. First, we propose a PAA-based MBR-safe transformation, called mbrPAA, and formally prove the MBR-safeness of mbrPAA. Second, we propose an mbrPAA-based subsequence matching method, and formally prove its correctness of the proposed method. Third, we present the notion of entry reuse property, and by using the property, we propose an efficient method of constructing high-dimensional MBRs in subsequence matching. Fourth, we show the superiority of mbrPAA through extensive experiments. Experimental results show that, compared with the previous approach, our mbrPAA is 24.2 times faster in the low-dimensional MBR construction and improves subsequence matching performance by up to 65.9%.

• Mycobiology
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• v.50 no.1
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• pp.1-11
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• 2022

The ascomycete fungus Cordyceps militaris infects lepidopteran larvae and pupae and forms characteristic fruiting bodies. Owing to its immune-enhancing effects, the fungus has been used as a medicine. For industrial application, this fungus can be grown on geminated soybeans as an alternative protein source. In our study, we performed a comprehensive transcriptomic analysis to identify core gene sets during C. militaris cultivation on germinated soybeans. RNA-Seq technology was applied to the fungal cultures at seven-time points (2, 4, and 7-day and 2, 3, 5, 7-week old cultures) to investigate the global transcriptomic change. We conducted a time-series analysis using a two-step regression strategy and chose 1460 significant genes and assigned them into five clusters. Characterization of each cluster based on Gene Ontology and Kyoto Encyclopedia of Genes and Genomes databases revealed that transcription profiles changed after two weeks of incubation. Gene mapping of cordycepin biosynthesis and isoflavone modification pathways also confirmed that gene expression in the early stage of GSC cultivation is important for these metabolic pathways. Our transcriptomic analysis and selected genes provided a comprehensive molecular basis for the cultivation of C. militaris on germinated soybeans.

• Journal of the Korean Association of Geographic Information Studies
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• v.9 no.3
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• pp.136-145
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• 2006

SWAT includes a lot of parameters related with geography, hydrological time series, land management and water pollution, etc. So, it needs many spatial, non-spatial and time series data to run SWAT. If SWAT is operated in conjunction with GIS, we can use database which includes model input data and do all the processes which covers data creation, model input and analysis of simulation results in a system. The objective of this study is to develop HyGIS-SWAT which is the interface system to couple the SWAT model and HyGIS. To achieve this object, system operation process based on HyGIS-SWAT data model is evaluated and databases are designed and established. As a result, HyGIS-SWAT prototype system is developed. HyGIS data model and HyGIS-Model operation process can be applied effectively to the development of HyGIS-SWAT. The technologies from this study can be used as base technology to develop another HyGIS application which connect HyGIS with models.

• Journal of KIISE:Databases
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• v.28 no.2
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• pp.217-232
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• 2001

본 논문에서는 시계열 데이터베이스에서 정규화 변환을 지원하는 서브시퀀스 매칭 알고리즘을 제안한다. 정규화 변환을 시계열 데이터 간의 절대적인 유클리드 거리에 관계 없이, 구성하는 값들의 상대적인 변화 추이가 유사한 패턴을 갖는 시계열 데이터를 검색하는 데에 유용하다. 기존의 서브시퀀스 매칭 알고리즘을 확장 없이 정규화 변환 서브시퀀스 매칭에 단순히 응용할 경우, 질의 결과로 반환되어야 할 서부시퀀스를 모두 찾아내지 못하는 착오 기각이 발생한다. 또한, 정규화 변환을 지원하는 기존의 전체 매칭 알고리즘의 경우, 모든 가능한 질의 시퀀스 길이 각각에 대하여 하나씩의 인덱스를 생성하여야 하므로, 저장 공간 및 데이터 시퀀스 삽입/삭제의 부담이 매우 심각하다. 본 논문에서는 인덱스 보간법을 이용하여 문제를 해결한다. 인덱스 보간법은 인덱스가 요구되는 모든 경우 중에서 적당한 간격의 일부에 대해서만 생성된 인덱스를 이용하며, 인덱스가 필요한 모든 경우에 대한 탐색을 수행하는 기법이다. 제안된 알고리즘은 몇 개의 질의 시퀀스 길이에 대해서만 각각 인덱스를 생성한 후, 이를 이용하여 모든 가능한 길이의 질의 시퀀스에 대해서 탐색을 수행한다. 이때, 착오 기각이 발생하지 않음을 증명한다. 제안된 알고리즘은 질의 시에 주어진 질의 시퀀스의 길이에 따라 생성되어 있는 인덱스 중에서 가장 적절한 것을 선택하여 탐색을 수행한다. 이때, 생성되어 있는 인덱스의 개수가 많을수록 탐색 성능이 향상된다. 필요에 따라 인덱스의 개수를 변화함으로써 탐색 성능과 저장 공간 간의 비율을 유연하게 조정할 수 있다. 질의 시퀀스의 길이 256 ~ 512중 다섯 개의 길이에 대해 인덱스를 생성하여 실험한 결과, 탐색 결과 선택률이 $10^{-2}$일 때 제안된 알고리즘의 탐색 성능이 순차 검색에 비하여 평균 2.40배, 선택률이 $10^{-5}$일 때 평균 14.6배 개선되었다. 제안된 알고리즘의 탐색 성능은 탐색 결과 선택률이 작아질수록 더욱 향상되므로, 실제 데이터베이스 응용에서의 효용성이 높다고 판단된다.

• Journal of Information Management
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• v.40 no.1
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• pp.217-234
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• 2009

In computer-based virtual lab, a bioscience researcher who wants to obtain bio information first uses a biodiversity-related database to retrieve information on species, ecology and distribution of an organism. The researcher also needs to access gene/protein databases such as GenBank or PDB to find information on the organism's genetic sequence and protein structure. Furthermore, the researcher should search for academic papers containing the information on the organism so that his research is based on comprehensive and accurate information. This series of activities often undermines research efficiency as it takes a lot of time and causes inconvenience on the part of researchers. To solve such inconvenience, we analyzed various methods for integrated search and chosen schema integration. In addition, we analyzed each databases and extracted metadata for designing schema integration. This paper introduces a biological information retrieval system(BIRS) using schema integration and it's interface that will increase research efficiency for bioscience.

• The KIPS Transactions:PartD
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• v.13D no.4 s.107
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• pp.513-524
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• 2006

Normalization transform is very useful for finding the overall trend of the time-series data since it enables finding sequences with similar fluctuation patterns. The previous subsequence matching method with normalization transform, however, would incur index overhead both in storage space and in update maintenance since it should build multiple indexes for supporting arbitrary length of query sequences. To solve this problem, we propose a single index approach for the normalization transformed subsequence matching that supports arbitrary length of query sequences. For the single index approach, we first provide the notion of inclusion-normalization transform by generalizing the original definition of normalization transform. The inclusion-normalization transform normalizes a window by using the mean and the standard deviation of a subsequence that includes the window. Next, we formally prove correctness of the proposed method that uses the inclusion-normalization transform for the normalization transformed subsequence matching. We then propose subsequence matching and index building algorithms to implement the proposed method. Experimental results for real stock data show that our method improves performance by up to $2.5{\sim}2.8$ times over the previous method. Our approach has an additional advantage of being generalized to support many sorts of other transforms as well as normalization transform. Therefore, we believe our work will be widely used in many sorts of transform-based subsequence matching methods.