• Title/Summary/Keyword: repeat number

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PCR-based genotyping of Korean population for forensic applications

  • Ryu, Jae-Song;Gu, Yun-Mo;So, Jae-Seong
    • 한국생물공학회:학술대회논문집
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    • 2000.04a
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    • pp.592-595
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    • 2000
  • In human chromosome, a short sequence of DNA has been repeated a number of times. These repeats are called variable number of tandem repeat(VNTR) or short tandem repeat(STR) which has short repeat core. VNTR and STR are used in the field of forensic science, evolution, and anthropology. In this work, we examined allele frequencies of 3 VNTR(YNZ22, NeuR, D21S11) and one STR(Humth01) in a Korean population sample by polymerase chain reaction(PCR) followed by high-resolution polyacrylamide gelelectrophoresis(PAGE) with silver staining. Subsequently, the polymorphism information content(PIC) was calculated : the highest PIC was observed for the NeuR locus(0.95680) and lowest for the Humth01 locus(0.75809).

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PCR Analysis of Four Length-Polmorphic Loci in Korea Population for Genotyping

  • Ryu, Jae-Song;Koo, Yoon-Mo;So, Jae-Seong
    • Biotechnology and Bioprocess Engineering:BBE
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    • v.5 no.3
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    • pp.169-173
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    • 2000
  • On human chromoscomes, a short sequence of DNA is known to repeat a number of times. These are called variable number of tandem repeat (VNTR) or short tandem respeat (STR) which has a short core. VNTR and STR are used in the filed of forensic science, evolution, and anthropology. In this work, we examined allele frequencies of one VNTR (YNZ22) and three STRs (NeuR, D21S11, Humth01) in a korean population sample by polymerase chain reaction (RCP) followed by high-resolution polyacrylamide gel electro-phoresis (PAGE) with silver stain. Subsequently, the polymorphism information content (PIC) was calculated : the hifhest PIC was observed in the NeuR locus (0.95680) and lowest in the Humth01 locus (0.75809).

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Optimal Numbers of Repeat Inspections with Decreasing Detection Probability

  • Kim, S.B.;Bai, D.S.
    • Journal of Korean Institute of Industrial Engineers
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    • v.11 no.2
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    • pp.19-27
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    • 1985
  • Optimal numbers of repeat inspections are obtained for a single inspector who has a fixed probability of detecting a nonconforming item on each inspection and will continue to inspect until further inspection is not warranted when comparing the expected increase of total gain with the inspection cost. It is assumed that the detection probability decreases as the number of repeat inspections increases, and that the lot to be inspected contains an unknown but Poisson distributed number of nonconforming items.

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REPEATOME: A Database for Repeat Element Comparative Analysis in Human and Chimpanzee

  • Woo, Tae-Ha;Hong, Tae-Hui;Kim, Sang-Soo;Chung, Won-Hyong;Kang, Hyo-Jin;Kim, Chang-Bae;Seo, Jung-Min
    • Genomics & Informatics
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    • v.5 no.4
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    • pp.179-187
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    • 2007
  • An increasing number of primate genomes are being sequenced. A direct comparison of repeat elements in human genes and their corresponding chimpanzee orthologs will not only give information on their evolution, but also shed light on the major evolutionary events that shaped our species. We have developed REPEATOME to enable visualization and subsequent comparisons of human and chimpanzee repeat elements. REPEATOME (http://www.repeatome.org/) provides easy access to a complete repeat element map of the human genome, as well as repeat element-associated information. It provides a convenient and effective way to access the repeat elements within or spanning the functional regions in human and chimpanzee genome sequences. REPEATOME includes information to compare repeat elements and gene structures of human genes and their counterparts in chimpanzee. This database can be accessed using comparative search options such as intersection, union, and difference to find lineage-specific or common repeat elements. REPEATOME allows researchers to perform visualization and comparative analysis of repeat elements in human and chimpanzee.

Repeat analysis of intraoral digital imaging performed by undergraduate students using a complementary metal oxide semiconductor sensor: An institutional case study

  • Yusof, Mohd Yusmiaidil Putera Mohd;Rahman, Nur Liyana Abdul;Asri, Amiza Aqiela Ahmad;Othman, Noor Ilyani;Mokhtar, Ilham Wan
    • Imaging Science in Dentistry
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    • v.47 no.4
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    • pp.233-239
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    • 2017
  • Purpose: This study was performed to quantify the repeat rate of imaging acquisitions based on different clinical examinations, and to assess the prevalence of error types in intraoral bitewing and periapical imaging using a digital complementary metal-oxide-semiconductor(CMOS) intraoral sensor. Materials and Methods: A total of 8,030 intraoral images were retrospectively collected from 3 groups of undergraduate clinical dental students. The type of examination, stage of the procedure, and reasons for repetition were analysed and recorded. The repeat rate was calculated as the total number of repeated images divided by the total number of examinations. The weighted Cohen's kappa for inter- and intra-observer agreement was used after calibration and prior to image analysis. Results: The overall repeat rate on intraoral periapical images was 34.4%. A total of 1,978 repeated periapical images were from endodontic assessment, which included working length estimation (WLE), trial gutta-percha (tGP), obturation, and removal of gutta-percha (rGP). In the endodontic imaging, the highest repeat rate was from WLE (51.9%) followed by tGP (48.5%), obturation (42.2%), and rGP (35.6%). In bitewing images, the repeat rate was 15.1% and poor angulation was identified as the most common cause of error. A substantial level of intra- and inter-observer agreement was achieved. Conclusion: The repeat rates in this study were relatively high, especially for certain clinical procedures, warranting training in optimization techniques and radiation protection. Repeat analysis should be performed from time to time to enhance quality assurance and hence deliver high-quality health services to patients

Strain-specific Detection of Bacillus Anthracis using Multiple-locus Variable-number Tandem Repeat Analysis (Multiple-locus Variable-number Tandem Repeat 분석을 사용한 Bacillus Anthracis 균주간 특이성 규명)

  • Jung, Kyoung-Hwa;Kim, Sang-Hoon;Kim, Seong-Joo;Kim, Ji-Cheon;Chai, Young-Gyu
    • Journal of the Korea Institute of Military Science and Technology
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    • v.14 no.2
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    • pp.305-312
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    • 2011
  • Bacillus anthracis(Ba) is a Gram-positive spore-forming bacterium that causes the disease anthrax. The feature of Ba is the presence of two large virulence plasmids, pXO1 and pXO2. Molecular genotyping of Ba has been difficult to the lack of polymorphic DNA marker. Ba isolated from Korea has been genotyped using various nucleotide analysis methods, such as 16s rDNA sequencing and multiple-locus variable-number tandem repeat (MLVA) analysis. We identified genotypes that represent a genetic lineage in the B1 cluster. This study emphasized the need to perform molecular genotyping when attempting to verify a strain-specific Ba.

A Survey of Public Preferences on Repeat Dispensing (장기처방약의 조제방식에 대한 일반인의 선호도 조사: 분할조제 관점에서)

  • Young Mi Lee;Daejin Kim;Eunjoo Lee;Hyun Soon Sohn
    • Korean Journal of Clinical Pharmacy
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    • v.34 no.1
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    • pp.30-38
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    • 2024
  • Background: This study examined the public's perceptions of repeat dispensing as one of the measures to reduce the harmful effects of long-term prescriptions in Korea. Methods: From January 11 to 25, 2021, an online survey was conducted for adults using convenience sampling. A self-developed questionnaire was used. Results: There were 310 respondents, of which 228 (73.5%) preferred repeat dispensing. When considering the additional fee payment, 188 (60.6%) preferred repeat dispensing, and 54 (67.5%) out of a total of 80 chronic disease patients preferred it. It was confirmed that there was a difference in the willingness to repeat dispensing considering the additional cost depending on whether the patient had a chronic disease and the distance from home to the nearest pharmacy. As a result of subgroup analysis for patients with chronic diseases, frequency of outpatient visit, number of prescription days, method of packaging pharmaceuticals, and distance from home to the nearest pharmacy were identified as variables that could well predict the willingness to repeat dispensing considering paying additional fees. The preference for repeat dispensing may vary depending on conditions such as additional cost range, frequency and period of prescription use, disease and patient characteristics, so a careful approach is necessary. Conclusion: It is necessary for the government to consider the introduction of repeat dispensing with interest in the public demand.

Modelling for Repeated Measures Data with Composite Covariance Structures (복합구조 반복측정자료에 대한 모형 연구)

  • Lee, Jae-Hoon;Park, Tae-Sung
    • The Korean Journal of Applied Statistics
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    • v.22 no.6
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    • pp.1265-1275
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    • 2009
  • In this paper, we investigated the composite covariance structure models for repeated measures data with multiple repeat factors. When the number of repeat factors is more than three, it is infeasible to fit the composite covariance models using the existing statistical packages. In order to fit the composite covariance structure models to real data, we proposed two approaches: the dimension reduction approach for repeat factors and the random effect model approximation approach. Our proposed approaches were illustrated by using the blood pressure data with three repeat factors obtained from 883 subjects.

Enhancer Function of MicroRNA-3681 Derived from Long Terminal Repeats Represses the Activity of Variable Number Tandem Repeats in the 3' UTR of SHISA7

  • Lee, Hee-Eun;Park, Sang-Je;Huh, Jae-Won;Imai, Hiroo;Kim, Heui-Soo
    • Molecules and Cells
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    • v.43 no.7
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    • pp.607-618
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    • 2020
  • microRNAs (miRNAs) are non-coding RNA molecules involved in the regulation of gene expression. miRNAs inhibit gene expression by binding to the 3' untranslated region (UTR) of their target gene. miRNAs can originate from transposable elements (TEs), which comprise approximately half of the eukaryotic genome and one type of TE, called the long terminal repeat (LTR) is found in class of retrotransposons. Amongst the miRNAs derived from LTR, hsa-miR-3681 was chosen and analyzed using bioinformatics tools and experimental analysis. Studies on hsa-miR-3681 have been scarce and this study provides the relative expression analysis of hsa-miR-3681-5p from humans, chimpanzees, crab-eating monkeys, and mice. Luciferase assay for hsa-miR-3681-5p and its target gene SHISA7 supports our hypothesis that the number of miRNA binding sites affects target gene expression. Especially, the variable number tandem repeat (VNTR) and hsa-miR-3681-5p share the binding sites in the 3' UTR of SHISA7, which leads the enhancer function of hsamiR-3681-5p to inhibit the activity of VNTR. In conclusion, hsa-miR-3681-5p acts as a super-enhancer and the enhancer function of hsa-miR-3681-5p acts as a repressor of VNTR activity in the 3' UTR of SHISA7.

Atypical Correlation between CTG Repeat Size Variation and Clinical Manifestation in Brothers of Myotonic Dystrophy (임상양상과 유전자수가 비전형적인 연관관계를 갖는 근긴장성 이영양증 형제 1례)

  • Kim, Jung-Mee;Cho, Eun-Kyoung;Cho, Jeong-Seon;Choi, Yong-Suk;Han, Young-Su;Han, Jeong-Ho;Kim, Doo-Eung
    • Annals of Clinical Neurophysiology
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    • v.6 no.1
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    • pp.61-63
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    • 2004
  • The copy numbers of the CTG repeats are known to relate to the severity of clinical symptoms for myotonic dystrophy. The positive correlation between clinical manifestations and CTG repeat size has been demonstrated previously. A genetically confirmed myotonic dystrophy patient with 90 CTG repeat number had more severe clinical manifestation than brother with 120 CTG repeats, in adulthood.

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