• The KIPS Transactions:PartA
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• v.8A no.4
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• pp.509-516
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• 2001

As results of many genome projects, genomic sequences of many organisms are revealed. Various methods such as global alignment, local alignment are used to analyze the sequences of the organisms, and k -mer analysis is one of the methods for analyzing the genomic sequences. The k -mer analysis explores the frequencies of all k-mers or the symmetry of them where the k -mer is the sequenced base with the length of k. However, existing on-memory algorithms are not applicable to the k -mer analysis because a whole genomic sequence is usually a large text. Therefore, efficient data structures and algorithms are needed. String B-tree is a good data structure that supports external memory and fits into pattern matching. In this paper, we improve the string B-tree in order to efficiently apply the data structure to k -mer analysis, and the results of k -mer analysis for C. elegans and other 30 genomic sequences are shown. We present a visualization system which enables users to investigate the distribution and symmetry of the frequencies of all k -mers using CGR (Chaotic Game Representation). We also describe the method to find the signature which is the part of the sequence that is similar to the whole genomic sequence.

• Journal of KIISE
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• v.41 no.9
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• pp.728-743
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• 2014

Finger printing and sequence alignment are well-known approaches for document similarity comparison. A fingerprinting method is simple and fast, but it can not find particular similar regions. A string alignment method is used for identifying regions of similarity by arranging the sequences of a string. It has an advantage of finding particular similar regions, but it also has a disadvantage of taking more computing time. The Multi-Level Alignment (MLA) is a new method designed for taking the advantages of both methods. The MLA divides input documents into uniform length blocks, and then extracts fingerprints from each block and calculates similarity of block pairs by comparing the fingerprints. A similarity table is created in this process. Finally, sequence alignment is used for specifying longest similar regions in the similarity table. The MLA allows users to change block's size to control proportion of the fingerprint algorithm and the sequence alignment. As a document is divided into several blocks, similar regions are also fragmented into two or more blocks. To solve this fragmentation problem, we proposed a united block method. Experimentally, we show that computing document's similarity with the united block is more accurate than the original MLA method, with minor time loss.

• KSII Transactions on Internet and Information Systems (TIIS)
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• v.6 no.6
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• pp.1627-1648
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• 2012

We propose an adaptive method for detecting plagiarized pairs from a large set of source code. This method is adaptive in that it uses an adaptive algorithm and it provides an adaptive threshold for determining plagiarism. Conventional algorithms are based on greedy string tiling or on local alignments of two code strings. However, most of them are not adaptive; they do not consider the characteristics of the program set, thereby causing a problem for a program set in which all the programs are inherently similar. We propose adaptive local alignment-a variant of local alignment that uses an adaptive similarity matrix. Each entry of this matrix is the logarithm of the probabilities of the keywords based on their frequency in a given program set. We also propose an adaptive threshold based on the local outlier factor (LOF), which represents the likelihood of an entity being an outlier. Experimental results indicate that our method is more sensitive than JPlag, which uses greedy string tiling for detecting plagiarism-suspected code pairs. Further, the adaptive threshold based on the LOF is shown to be effective, and the detection performance shows high sensitivity with negligible loss of specificity, compared with that using a fixed threshold.

• Journal of KIISE:Computer Systems and Theory
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• v.37 no.6
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• pp.354-367
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• 2010

There are many methods for analyzing patterns in time series data. Although stock data represents a time series, there are few studies on stock pattern analysis and prediction. Since people believe that stock price changes randomly we cannot predict stock prices using a scientific method. In this paper, we measured the degree of the randomness of stock prices using Kolmogorov complexity, and we showed that there is a strong correlation between the degree and the accuracy of stock price prediction using our semi-global alignment method. We transformed the stock price data to quantized string sequences. Then we measured randomness of stock prices using Kolmogorov complexity of the string sequences. We use KOSPI 690 stock data during 28 years for our experiments and to evaluate our methodology. When a high Kolmogorov complexity, the stock price cannot be predicted, when a low complexity, the stock price can be predicted, but the prediction ratio of stock price changes of interest to investors, is 12% prediction ratio for short-term predictions and a 54% prediction ratio for long-term predictions.

• Phonetics and Speech Sciences
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• v.3 no.2
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• pp.37-52
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• 2011

This study investigates patterns of the alignment of the accentual peaks in bisyllabic words of the CVNCV, CVNV, and CVNNV structures in North Kyungsang Korean. Based on the tonal alignment, patterns of the F0 pitch excursion are discussed relative to one another. Issues are addressed concerning how the tonal targets are aligned, and how the tonal specifications of nasals in postvocalic, intervocalic, and prevocalic environments are supplied in the LH, HL, and HH classes. Tonal specification of nasals in various environments is accounted for by extension of the L target, displacement of the pitch peak, and interpolation between two tonal targets, depending on the tonal class. The results in this study provide preliminary evidence that the categorical alignment of the tonal targets is implemented by simply checking the presence or absence of a nasal before or after the nucleus vowel on the segmental string, without reference to the constituency of the nasal in the syllable structure. However, the prosodic structure has a key role to play in explaining speaker-dependent variations in the tonal alignment. Sensitivity to tautosyllabicity has an effect on the shape of the F0 contour, and disparity in the patterns of the pitch excursion is represented as a function of syllable structure correlated with segmental composition of the nasal.

• Journal of KIISE:Software and Applications
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• v.33 no.12
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• pp.1090-1102
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• 2006

This paper suggests a new algorithm for detecting the plagiarism among a set of source codes, constrained to be functionally equivalent, such are submitted for a programming assignment or for a programming contest problem. The typical algorithms largely exploited up to now are based on Greedy-String Tiling, which seeks for a perfect match of substrings, and analysis of similarity between strings based on the local alignment of the two strings. This paper introduces a new method for detecting the similar interval of the given programs based on an adaptive similarity matrix, each entry of which is the logarithm of the probabilities of the keywords based on the frequencies of them in the given set of programs. We experimented this method using a set of programs submitted for more than 10 real programming contests. According to the experimental results, we can find several advantages of this method compared to the previous one which uses fixed similarity matrix(+1 for match, -1 for mismatch, -2 for gap) and also can find that the adaptive similarity matrix can be used for detecting various plagiarism cases.

• Journal of KIISE:Software and Applications
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• v.36 no.4
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• pp.329-334
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• 2009

The ontology alignment has two kinds of major problems. First, the features used for ontology alignment are usually defined by experts, but it is highly possible for some critical features to be excluded from the feature set. Second, the semantic and the structural similarities are usually computed independently, and then they are combined in an ad-hoc way where the weights are determined heuristically. This paper proposes the modified parse tree kernel (MPTK) for ontology alignment. In order to compute the similarity between entities in the ontologies, a tree is adopted as a representation of an ontology. After transforming an ontology into a set of trees, their similarity is computed using MPTK without explicit enumeration of features. In computing the similarity between trees, the approximate string matching is adopted to naturally reflect not only the structural information but also the semantic information. According to a series of experiments with a standard data set, the kernel method outperforms other structural similarities such as GMO. In addition, the proposed method shows the state-of-the-art performance in the ontology alignment.

• The KIPS Transactions:PartB
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• v.11B no.3
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• pp.387-394
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• 2004

In this paper, we propose a modified unsupervised linear alignment algorithm for building an aligned corpus. The original algorithm inserts null characters into both of two aligned strings (source string and target string), because the two strings are different from each other in length. This can cause some difficulties like the search space explosion for applications using the aligned corpus with null characters and no possibility of applying to several machine learning algorithms. To alleviate these difficulties, we modify the algorithm not to contain null characters in the aligned source strings. We have shown the usability of our approach by applying it to different areas such as Korean-English back-trans literation, English grapheme-phoneme conversion, and Korean morphological analysis.

• Journal of KIISE:Software and Applications
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• v.37 no.10
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• pp.788-801
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• 2010

Advancing of mobile device is remarkable, so the research on mobile input device is getting more important issue. There are lots of input devices such as keypad, QWERTY keypad, touch and speech recognizer, but they are not as convenient as typical keyboard-based desktop input devices so input strings usually contain many typing errors. These input errors are not trouble with communication among person, but it has very critical problem with searching in database, such as dictionary and address book, we can not obtain correct results. Especially, Hangeul has more than 10,000 different characters because one Hangeul character is made by combination of consonants and vowels, frequency of error is higher than English. Generally, suffix tree is the most widely used data structure to deal with errors of query, but it is not enough for variety errors. In this paper, we propose fast approximate Korean word searching system, which allows variety typing errors. This system includes several algorithms for applying general approximate string searching to Hangeul. And we present profanity filters by using proposed system. This system filters over than 90% of coined profanities.

• Proceedings of the Korean Information Science Society Conference
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• 2008.06c
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• pp.248-251
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• 2008

문서 표절이 사회적으로 이슈가 됨에 따라 표절 문서를 판별할 수 있는 시스템의 필요성이 대두되었다. 문서 표절 검사 시스템에서 가장 중요한 이슈는 성능과 속도인데 이 두 가지를 모두 만족시키기 위해서는 표절을 상세하게 검사하기 전에 표절 의심 문서에 대한 비교 문서군이 크기를 최적화하여 표절 검사 범위를 최대한 작게 만들어야 한다. 비교 문서군의 크기를 최적화하기 위해서는 표절 의심 문서와 상관이 없는 문서를 필터링 하는 작업이 필요하다. 이 논문에서는 문서를 빠르게 필터링 하기 위해서 웹 문서 검색에 사용되는 Inverted Index을 이용하여 적당한 시간 안에 비교 문서군의 크기를 최적화 하는 방법들을 알아보고 각각의 방법들의 성능을 비교 분석하는 방법을 제시하며 그 방법들을 바탕으로 성능을 분석하여 최적화된 문서 필터링 방법을 알아본다.