• Title/Summary/Keyword: Sequence Pattern

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Molecular Detection of Phytoplasmas of the 16SrI and 16SrXXXII Groups in Elaeocarpus sylvestris Trees with Decline Disease in Jeju Island, South Korea

  • Geon-Woo, Lee;Sang-Sub, Han
    • The Plant Pathology Journal
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    • v.39 no.1
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    • pp.149-157
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    • 2023
  • Phytoplasmas were discovered in diseased Elaeocarpus sylvestris trees growing on Jeju Island that showed symptoms of yellowing and darkening in the leaves. Leaf samples from 14 symptomatic plants in Jeju-si and Seogwipo-si were collected and phytoplasma 16S rRNA was successfully amplified by nested polymerase chain reaction using universal primers. The sequence analysis detected two phytoplasmas, which showed 99.5% identity to 'Candidatus Phytoplasma asteris' and 'Ca. P. malaysianum' affiliated to 16SrI and 16SrXXXII groups, respectively. Through polymerase chain reaction-restriction fragment length polymorphism (RFLP) analyses using the AfaI (RsaI) restriction enzyme, the presence of two phytoplasmas strains as well as cases of mixed infection of these strains was detected. In a virtual RFLP analysis with 17 restriction enzymes, the 16S rRNA sequence of the 'Ca. P. asteris' strain was found to match the pattern of the 16SrI-B subgroup. In addition, the phytoplasmas in the mixed-infection cases could be distinguished using specific primer sets. In conclusion, this study confirmed mixed infection of two phytoplasmas in one E. sylvestris plant, and also the presence of two phytoplasmas (of the 16SrI and 16SrXXXII groups) in Jeju Island (Republic of Korea).

A New Block-based Gradient Descent Search Algorithm for a Fast Block Matching (고속 블록 정합을 위한 새로운 블록 기반 경사 하강 탐색 알고리즘)

  • 곽성근
    • Journal of the Korea Computer Industry Society
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    • v.4 no.10
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    • pp.731-740
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    • 2003
  • Since motion estimation remove the redundant data to employ the temporal correlations between adjacent frames in a video sequence, it plays an important role in digital video coding. And in the block matching algorithm, search patterns of different shapes or sizes and the distribution of motion vectors have a large impact on both the searching speed and the image quality. In this paper, we propose a new fast block matching algorithm using the small-cross search pattern and the block-based gradient descent search pattern. Our algorithm first finds the motion vectors that are close to the center of search window using the small-cross search pattern, and then quickly finds the other motion vectors that are not close to the center of search window using the block-based gradient descent search pattern. Through experiments, compared with the block-based gradient descent search algorithm(BBGDS), the proposed search algorithm improves as high as 26-40% in terms of average number of search point per motion vector estimation.

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A Study on the Historical Reconstruction of Corps à Baleine in 18th Century France (18세기 프랑스 꼬르 아 발렌느(corps à baleine) 고증제작 연구)

  • Kim, Yang-Hee;Na, Young-Joo;Kim, Hyun-Joo
    • Journal of the Korean Society of Clothing and Textiles
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    • v.35 no.8
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    • pp.991-1005
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    • 2011
  • This study researches the historical production, process, and design method for 3 pairs of corsets in $18^{th}$ century France. In the analytical stage of historical materials, it grasped the kind, form, origin, and change in style through a lexical definition of relevant terms. Through a precedent study on Garsault's 'L'art du tailleur', preservation costume, and historical reconstruction of pattern in preservation costume, it confirmed corps size, silhouette, pattern form, and material for historical production. The sewing method and the producing sequence were analyzed. In the production stage, 3 selective models in corps plein baleine, corps demi-baleine, and corset were historically produced. With neckline of forming broad Letter U, the bust part is covered roundly. The bodice was composed of 10 panels based on the corps form in the mid-$18^{th}$ century of following a curve of a human body. A shoulder strap was allowed to make the arm movement comfortable by producing and attaching it separately. The cutting line except the center in the front and the back of vertical line was distributed according to the natural flow of a form and movement of the human body. The curve-based pattern line was confirmed.

Product Recommendation System on VLDB using k-means Clustering and Sequential Pattern Technique (k-means 클러스터링과 순차 패턴 기법을 이용한 VLDB 기반의 상품 추천시스템)

  • Shim, Jang-Sup;Woo, Seon-Mi;Lee, Dong-Ha;Kim, Yong-Sung;Chung, Soon-Key
    • The KIPS Transactions:PartD
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    • v.13D no.7 s.110
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    • pp.1027-1038
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    • 2006
  • There are many technical problems in the recommendation system based on very large database(VLDB). So, it is necessary to study the recommendation system' structure and the data-mining technique suitable for the large scale Internet shopping mail. Thus we design and implement the product recommendation system using k-means clustering algorithm and sequential pattern technique which can be used in large scale Internet shopping mall. This paper processes user information by batch processing, defines the various categories by hierarchical structure, and uses a sequential pattern mining technique for the search engine. For predictive modeling and experiment, we use the real data(user's interest and preference of given category) extracted from log file of the major Internet shopping mall in Korea during 30 days. And we define PRP(Predictive Recommend Precision), PRR(Predictive Recommend Recall), and PF1(Predictive Factor One-measure) for evaluation. In the result of experiments, the best recommendation time and the best learning time of our system are much as O(N) and the values of measures are very excellent.

Analysis of human HoxA gene control region and its effects on anterior-posterior axial pattern formation using transgenic mouse embryo (Transgenic mouse embryo를 이용한 human HoxA 유전자의 조절부위 분석과 전후축 형태형성(anterior-posterior axial pattern formation)에 미치는 영향)

  • Jang, Seung-ik;Min, Won-gi;Park, Jong-hoon;Lee, Chul-sang;Lee, Kyung-kwang;Lee, Young-won;Jun, Moo-hyung;Kim, Myoung-hee
    • Korean Journal of Veterinary Research
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    • v.35 no.1
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    • pp.95-105
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    • 1995
  • The human homolog of position specific element of mouse Hoxa-7 was studied using transgene. It contains a 1.1 kb human DNA (HCR)- a homolog to the intergenic region between Hoxa-7 and -9, which directs the position specific expression of Hoxa-7-, tk promoter, LacZ (${\beta}$-galactosidase) gene as a reporter, and polyadenylation signal of SV40 large T antigen. It was injected into the mice embryos, and the resulting transgenic embryos were analysed through PCR as well as genomic Southern blotting with placenta DNA. Out of 20 embryos analysed, two were transgenic. Among them, one transgenic embryo expressed transgene when stained with X-gal. The expression pattern was in analogy to that of the mouse Hoxa-7, showing spatially restricted expression pattern, Since the expression of ${\beta}$-galactosidase is regulated by the upstream human HCR sequence, it implies that the HCR is the plausible position specific regulatory element of human.

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Hepatoscintiangiography of Normal Liver and Its Alteration in Hepatomas and Liver Abscess (간혈관신티그램의 정상성과 간암 및 간농양에서의 변화)

  • Bahk, Yong-Whee;Chung, Soo-Kyo
    • The Korean Journal of Nuclear Medicine
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    • v.20 no.1
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    • pp.25-31
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    • 1986
  • This study was performed to establish normal hepatoscintiangiographic(HSA) pattern of hepatic blood flow and to investigate dynamic differential HSA findings of primary and metastatic carcinomas and abscess of the liver. HSA was carried out after intravenous bolus injection of 10 mCi of Tc-99m-phytate by obtaining sequential anterior images of 1-second exposure for 16 seconds. Observations included (1) baseline study of normal hepatic blood flow pattern by correlating with contrast angiogram, (2) time sequence phasing of normal HSA, and (3) analysis of altered patterns in primary and metastatic carcinomas and abscesses of the liver. Materials consisted of 20 normal subjects, 28 primary hepatocellular carcinomas, 16 metastatic carcinomas and 7 liver abscesses. Results were: (1) Normal HSA demonstrated 3 distinct phases of arterialization(AP), of arterial hepatogram(AHP), and of portal venous hepatogram(PVHP). The means of each phase were 5.3, 6.3 and 8.3 seconds, respectively. Portal vein could be seen in all but one of 20 normal subjects. (2) Pattern changes in diseases groups were early start of AP in carcinomas and very early start of AP in abscesses. AP became prolonged in all disease group. (3) Distinction between AHP was sharp in metastasis and abscesses but un sharp in primary hepatoma. Cold area or areas became vascularized in primary hepatoma but not in abscess. Cold areas of metastasis were inhomogeneously vascularized in late AP and throughout AHP and became relatively vascular as PVHP began. The cold area of abscess showed rim enhancement during AH and APH. These differences in HSA pattern were very useful in differential diagnosis of the diseases studied.

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A Language-Specific Physiological Motor Constraint in Korean Non-Assimilating Consonant Sequences

  • Son, Min-Jung
    • Phonetics and Speech Sciences
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    • v.3 no.3
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    • pp.27-33
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    • 2011
  • This paper explores two articulatory characteristics of inter-consonantal coordination observed in lingual-lingual (/kt/, /ks/) and labial-lingual (/pt/) sequences. Using electromagnetic articulometry (EMMA), temporal aspects of the lip movement and lingual movement (of the tongue tip and the tongue dorsum) were examined. Three sequences (/ks/, /kt/, /pt/) were investigated in two respects: gestural overlap in C1C2 and formation duration of coronals in C2 (/t/ or /s/). Results are summarized as follows. First, in a sequence of two stop consonants gestural overlap did not vary with order contrast or a low-level motor constraint on lingual articulators. Gestural overlap between two stop consonants was similar in both /kt/ (lingual-lingual; back-to-front) and /pt/ (labial-lingual; front-to-back). Second, gestural overlap was not simply constrained by place of articulation. Two coronals (/s/ and /t/) shared the same articulator, the tongue tip, but they showed a distinctive gestural overlap pattern with respect to /k/ in C1 (/ks/ (less overlap) < /kt/ (more overlap)). Third, temporal duration of the tongue tip gesture varied as a function of manner of articulation of the target segment in C2 (/ks/ (shorter) < /kt/ (longer)) as well as a function of place of articulation of the segmental context in C1 (/pt/ (shorter) < /kt/ (longer)). There are several implications associated with the results from Korean non-assimilating contexts. First, Korean can be better explained in the way of its language-specific gestural pattern; gestural overlap in Korean is not simply attributed to order contrast (front-to-back vs. back-to-front) or a physiological motor constraint on lingual articulators (lingual-lingual vs. nonlingual-lingual). Taking all factors into consideration, inter-gestural coordination is influenced not only by C1 (place of articulation) but also C2 (manner of articulation). Second, the jaw articulator could have been a factor behind a distinctive gestural overlap pattern in different C1C2 sequences (/ks/ (less overlap) vs. /kt/ and /pt/ (more overlap)). A language-specific gestural pattern occurred with reference to a physiological motor constraint on the jaw articulator.

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A Fast Block Matching Motion Estimation Algorithm by using an Enhanced Cross-Flat Hexagon Search Pattern (개선된 크로스-납작한 육각 탐색 패턴을 이용한 고속 블록 정합 움직임 예측 알고리즘)

  • Nam, Hyeon-Woo
    • Journal of the Korea Society of Computer and Information
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    • v.13 no.7
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    • pp.99-108
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    • 2008
  • For video compression, we have to consider two performance factors that are the search speed and coded video's quality. In this paper, we propose an enhanced fast block matching algorithm using the spatial correlation of the video sequence and the center-biased characteristic of motion vectors(MV). The proposed algorithm first finds a predicted motion vector from the adjacent macro blocks of the current frame and determines an exact motion vector using the cross pattern and a flat hexagon search pattern. From the performance evaluations, we can see that our algorithm outperforms both the hexagon-based search(HEXBS) and the cross-hexagon search(CHS) algorithms in terms of the search speed and coded video's quality. Using our algorithm, we can improve the search speed by up to 31%, and also increase the PSNR(Peak Signal Noise Ratio) by at most 0.5 dB, thereby improving the video quality.

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High Level of Sequence-Variation in Sacbrood Virus (SBV) from Apis mellifera

  • Truong, A-Tai;Kim, Jung-Min;Lim, Su-Jin;Yoo, Mi-Sun;Cho, Yun Sang;Yoon, Byoung-Su
    • Journal of Apiculture
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    • v.32 no.4
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    • pp.281-293
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    • 2017
  • Sacbrood virus (SBV) is one of the main pathogenic RNA viruses of honeybee. SBV is found worldwide and many local strains have been reported, such as kSBV, cSBV, and wSBV. In this study, SBV-specific DNA fragments were cloned and sequenced by reverse-transcription PCR from 4 populations of A. mellifera, 4 sequences from 1 population belonged to the 2134D51 genotype (349 nucleotides, nt) and 12 sequences from 3 populations belonged to the 2100D0 genotype (400 nt) among the 16 determined sequences. A total of 87 points of mismatches were found by comparison with the most similar sequences in GenBank. Seventeen single-nucleotide polymorphisms (SNP) were detected, and 6 SNP-patterns in the 2100D0 genotype and 2 SNP-patterns in the 2134D51 genotype were identified based on SNP positions. In SNP-pattern 2, 10 SNPs were detected, but only 2 SNPs were found in SNP-pattern7. Meanwhile, one SNP-pattern was found from one RNA-sample, multi SNP-patterns were detected from other RNA-samples. Large numbers of SNP variants indicate that vast numbers of point-mutations on SBV have occurred since SBV invaded Korea and that SNP smay have been introduced individually over time. Thorough analysis of SNP variants will not only define the local infection-route, but also the relationships between SNP-pattern and SBV-pathogenic abilities.

Galectin-1 from redlip mullet Liza haematocheilia: identification, immune responses, and functional characterization as pattern recognition receptors (PRRs) in host immune defense system

  • Chaehyeon Lim;Hyukjae Kwon;Jehee Lee
    • Fisheries and Aquatic Sciences
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    • v.25 no.11
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    • pp.559-571
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    • 2022
  • Galectins, a family of ß-galactoside-binding lectins, have emerged as soluble mediators in infected cells and pattern recognition receptors (PRRs) responsible for evoking and regulating innate immunity. The present study aimed to evaluate the role of galectin-1 in the host immune response of redlip mullet (Liza haematocheilia). We established a cDNA database for redlip mullet, and the cDNA sequence of galectin-1 (LhGal-1) was characterized. In silico analysis was performed, and the spatial and temporal expression patterns in gills and blood in response to lipopolysaccharide polyinosinic:polycytidylic acid, and Lactococcus garvieae were estimated via quantitative real-time PCR. Functional assays were conducted using recombinant protein to investigate carbohydrate binding, bacterial binding, and bacterial agglutination activity. LhGal-1 was composed of 135 amino acids. Conserved motifs (H-NPR, -N- and -W-E-R) within the carbohydrate recognition domain were found in LhGal-1. The tissue distribution revealed that the healthy stomach expressed high levels of LhGal-1. The temporal monitoring of LhGal-1 mRNA expression in the gill and blood showed its significant upregulation in response to immune challenges with different stimulants. rLhGal-1 exhibited binding activity in response to carbohydrates and bacteria. Moreover, the agglutination of rLhGal-1 against Escherichia coli was observed. Collectively, our findings suggest that LhGal-1 may function as a PRR in redlip mullet. Furthermore, LhGal-1 can be considered a significant gene to play a protective role in redlip mullet immune system.