• Title/Summary/Keyword: Sequence sorting

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In silico approaches to discover the functional impact of non-synonymous single nucleotide polymorphisms in selective sweep regions of the Landrace genome

  • Shin, Donghyun;Won, Kyung-Hye;Song, Ki-Duk
    • Asian-Australasian Journal of Animal Sciences
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    • v.31 no.12
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    • pp.1980-1990
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    • 2018
  • Objective: The aim of this study was to discover the functional impact of non-synonymous single nucleotide polymorphisms (nsSNPs) that were found in selective sweep regions of the Landrace genome Methods: Whole-genome re-sequencing data were obtained from 40 pigs, including 14 Landrace, 16 Yorkshire, and 10 wild boars, which were generated with the Illumina HiSeq 2000 platform. The nsSNPs in the selective sweep regions of the Landrace genome were identified, and the impacts of these variations on protein function were predicted to reveal their potential association with traits of the Landrace breed, such as reproductive capacity. Results: Total of 53,998 nsSNPs in the mapped regions of pigs were identified, and among them, 345 nsSNPs were found in the selective sweep regions of the Landrace genome which were reported previously. The genes featuring these nsSNPs fell into various functional categories, such as reproductive capacity or growth and development during the perinatal period. The impacts of amino acid sequence changes by nsSNPs on protein function were predicted using two in silico SNP prediction algorithms, i.e., sorting intolerant from tolerant and polymorphism phenotyping v2, to reveal their potential roles in biological processes that might be associated with the reproductive capacity of the Landrace breed. Conclusion: The findings elucidated the domestication history of the Landrace breed and illustrated how Landrace domestication led to patterns of genetic variation related to superior reproductive capacity. Our novel findings will help understand the process of Landrace domestication at the genome level and provide SNPs that are informative for breeding.

Measuring Psychological Support for the Unemployed: The Case of Kakao NEET Project

  • Jeong, Jaekwan;Park, Kahui;Hyun, Yaewon;Kim, Daewon
    • KSII Transactions on Internet and Information Systems (TIIS)
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    • v.15 no.4
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    • pp.1502-1520
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    • 2021
  • This paper attempts to investigate Korean youth Not in Education, Employment and Training (NEET) and how daily activities and community participation may influence their positive emotions and job search desire. First, we conducted a focus group interview with 16 NEETs who participated in the Kakao NEET Company project. The project allowed participants to experience employment by founding a virtual company in which each participant selected a daily activity to perform as part of the company's operations. Second, the interview responses were categorized and assigned emotional values using the card sorting technique and multi-dimensional analysis (MDS). A total of 11 emotional values were derived through this process. Finally, a social network analysis was conducted in order to measure the density of relations among the emotional values. Results suggest that immersion, confidence, belongingness were the three highest values evaluated by participants. Furthermore, network diagrams imply that the stronger participants perceived social support and belongingness with others, the stronger their responsibility grew, further leading them to establish steady goals. In particular, the high eigenvector score for "desire for job" suggests that emotional values are sequentially connected to the immersion-social support-responsibility-goal-job desire. This sequence suggests that digital services that are developed with the aim to enhance social values such as the Kakao NEET Project may engender motivation and confidence in youth NEETs. The overall results suggest that a systematic approach to policymaking should be considered in order to provide fundamental solutions and expand opportunities for social participation and emotional comfort, as social isolation due to low self-esteem has been reported as one of the reasons for NEETs' failure in the labor market.

Development of EUC-KR based Locale and Application Program Supporting North Korean Collating Sequence (북한 한글 순서를 지원하는 EUC-KR 기반의 로캘과 응용 프로그램 개발)

  • Jung Il-dong;Lee Jung-hwa;Kim Yong-ho;Kim Kyongsok
    • The KIPS Transactions:PartB
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    • v.11B no.7 s.96
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    • pp.875-884
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    • 2004
  • UCS (=ISO/IEC 10646, =Unicode) will be used widely as globalization. If UCS is used for official purpose in Koreas, UCS solves a Problem in different hangeul code between South and North Korea. But, UCS is not a solution for problems in unequal order with the same character. IS0/1EC 146sl : 2000 (International String Ordering), which is a international standard for string ordering, defines a framework sorting all char-acter strings consisting multi-national scripts. Because the Common Template Table in ISO/IEC 14651 defines orders of characters, we can change orders of characters without changes of characters sequences in programs. Therefore, we can solve a ordering problem without unifying order of hangeul in South and North Korea. Functions related ISO/IEC 14651 are contained by system librarys in unix-based operating system such as Linux, Solaris and FreeBSD. We implement EUC-KR-based North Korean locale, which includes North Korean hangeul order, in Linux in order to use North Korean locale in South Korea. And we develop a program ordering strings with South and North Korean hangout order.

Seismic exploration for understanding the subsurface condition of the Ilwall-dong housing construction site in Pohang-city, Kyongbook (경북 포항시 일월동 택지개발지구의 지반상태 파악을 위한 탄성파탐사)

  • Seo, Man Cheol
    • Journal of the Korean Geophysical Society
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    • v.2 no.1
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    • pp.45-56
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    • 1999
  • Seismic refracrion and reflection surveys were conducted along an E-W trending track of 482 m long in Ilwall-dong, Pohang. End-on spread was employed as source-receiver configuration with 2 m for both geophone interval and offset. Seismic data were acquired using 24 channels at every shot fired every 2 m along the track. Refraction data were interpreted using equations for multi-horizontal layers. Reflection data were processed in the sequence of trace edit, gain control, CMP sorting, NMO correction, mute, common offset gathering, and filtering to produce a single fold seismic section. There are two layers in shallow subsurface of the study area. Upper layer has the P-wave velocities ranging from 267 to 566 m/s and is interpreted as a layer of unconsolidated sediments. Lower layer has P-wave velocities of 1096-3108 m/s and is interpreted as weathered rock to hard rock. Most of the lower layer classified as soft rock. Upper layer has lateral variations in both P-wave velocity and thickness. The upper layer in the eastern part of the seismic line is 3-5 m thick and has P-wave velocity of 400 m/s in average. The upper layer in the western part is 8-10 m thick and has P-wave velocity of 340 m/s in average. The eastern part is interpreted as unconsolidated beach sand, while the western part is interpreted as infilled soil to develop a construction site. Three fault systems of high angle are imaged in seismic reflection section. It is interpreted that the area between these fault systems are relatively safe. Large buildings should be located in the safe ground condition of no fault and footings should be designed to be in the basement rock of 3-10 m deep below the surface.

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Identification of Quaternary Faults and shallow gas pockets through high-resolution reprocessing in the East Sea, Korea (탄성파 자료 고해상도 재처리를 통한 동해해역의 제4기 단층 및 천부 가스 인지)

  • Jeong, Mi Suk;Kim, Gi Yeong;Heo, Sik;Kim, Han Jun
    • Journal of the Korean Geophysical Society
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    • v.2 no.1
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    • pp.39-44
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    • 1999
  • High-resolution images are drawn from existing seismic data which were originally obtained by Korea Ocean Research & Development Institute (KORDI) during 1994-1997 for deep seismic studies on the East Sea of Korea. These images are analyzed for mapping Quaternary faults and near-bottom gas pockets. First 12 channels are selected from shot gathers for reprocessing. The processing sequence adopted for high-resolution seismic images comprises data copy, trace editing, true amplitude recovery, common-midpoint sorting, initial muting, prestack deconvolution, bandpass filtering, stacking, highpass filtering, poststack deconvolution, f-x migration, and automatic gain control (AGC). Among these processing steps, predictive deconvolution, highpass filtering, and short window AGC are the most significant in enhancement of resolution. More than 200 Quaternanry faults are interpreted on the migrated sections in the shallow depths beneath the seafloor. Although numerous faults are found mostly at the western continental slope and boundaries of the Ulleung Basin, significant amount of the faults are also indicated within the basin. Many of these faults are believed to be formed with reactivation of basement, from geotectonic activities including volcanism, and often originated in Tertiary, indicating that the tectonic regime of the East Sea might be unstable. Existence of shallow gas pockets casts real hazardous warnings to deep-sea drillings and/or to underwater constructions such as inter-island cables and gas pipelines. On the other hand, discovery of these gas pockets heightens the interests in developing natural resources in the East Sea. Reprocessed seismic sections, however, show no typical seismic characteristics for gas hydrates such as bottom-simulating reflectors in the western continental slope and ocean floor.

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