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Kim, Seungill,Kim, Myung-Shin,Kim, Yong-Min,Yeom, Seon-In,Cheong, Kyeongchae,Kim, Ki-Tae,Jeon, Jongbum,Kim, Sunggil,Kim, Do-Sun,Sohn, Seong-Han,Lee, Yong-Hwan,Choi, Doil Oxford University Press 2015 DNA research Vol.22 No.1
<P>The onion (<I>Allium cepa</I> L.) is one of the most widely cultivated and consumed vegetable crops in the world. Although a considerable amount of onion transcriptome data has been deposited into public databases, the sequences of the protein-coding genes are not accurate enough to be used, owing to non-coding sequences intermixed with the coding sequences. We generated a high-quality, annotated onion transcriptome from <I>de novo</I> sequence assembly and intensive structural annotation using the integrated structural gene annotation pipeline (ISGAP), which identified 54,165 protein-coding genes among 165,179 assembled transcripts totalling 203.0 Mb by eliminating the intron sequences. ISGAP performed reliable annotation, recognizing accurate gene structures based on reference proteins, and <I>ab initio</I> gene models of the assembled transcripts. Integrative functional annotation and gene-based SNP analysis revealed a whole biological repertoire of genes and transcriptomic variation in the onion. The method developed in this study provides a powerful tool for the construction of reference gene sets for organisms based solely on <I>de novo</I> transcriptome data. Furthermore, the reference genes and their variation described here for the onion represent essential tools for molecular breeding and gene cloning in <I>Allium</I> spp.</P>
Ubiquitous Cyber Aquarium to Use Crowd Behavior
Seungil Cho,Jongchan Kim,Cheeyong Kim,Eungkon Kim 한국멀티미디어학회 2008 한국멀티미디어학회 국제학술대회 Vol.2008 No.-
Recently, representing the crowd environment in animation becomes a hot issue to the digital entertainment industry. The goal of proper digital crowd animation is to design characters in animation that are defined by the reality of scenes, performance of system and interaction with users to show the crowd vividly and effectively in cyber underwater. In this paper, we implement a realistic 3D cyber aquarium using crowd animation and construct the aquarium to disappear the fish on screen after recognizing the approaching distance through supersonic distance sensor.
Kim, Seungill,Park, Minkyu,Yeom, Seon-In,Kim, Yong-Min,Lee, Je Min,Lee, Hyun-Ah,Seo, Eunyoung,Choi, Jaeyoung,Cheong, Kyeongchae,Kim, Ki-Tae,Jung, Kyongyong,Lee, Gir-Won,Oh, Sang-Keun,Bae, Chungyun,Kim Nature Publishing Group, a division of Macmillan P 2014 Nature genetics Vol.46 No.3
Hot pepper (Capsicum annuum), one of the oldest domesticated crops in the Americas, is the most widely grown spice crop in the world. We report whole-genome sequencing and assembly of the hot pepper (Mexican landrace of Capsicum annuum cv. CM334) at 186.6× coverage. We also report resequencing of two cultivated peppers and de novo sequencing of the wild species Capsicum chinense. The genome size of the hot pepper was approximately fourfold larger than that of its close relative tomato, and the genome showed an accumulation of Gypsy and Caulimoviridae family elements. Integrative genomic and transcriptomic analyses suggested that change in gene expression and neofunctionalization of capsaicin synthase have shaped capsaicinoid biosynthesis. We found differential molecular patterns of ripening regulators and ethylene synthesis in hot pepper and tomato. The reference genome will serve as a platform for improving the nutritional and medicinal values of Capsicum species.
Kim, Yong-Min,Kim, Seungill,Koo, Namjin,Shin, Ah-Young,Yeom, Seon-In,Seo, Eunyoung,Park, Seong-Jin,Kang, Won-Hee,Kim, Myung-Shin,Park, Jieun,Jang, Insu,Kim, Pan-Gyu,Byeon, Iksu,Kim, Min-Seo,Choi, JinH Oxford University Press 2017 DNA research Vol.24 No.1
<P><B>Abstract</B></P><P><I>Hibiscus syriacus</I> (L.) (rose of Sharon) is one of the most widespread garden shrubs in the world. We report a draft of the <I>H. syriacus</I> genome comprised of a 1.75 Gb assembly that covers 92% of the genome with only 1.7% (33 Mb) gap sequences. Predicted gene modeling detected 87,603 genes, mostly supported by deep RNA sequencing data. To define gene family distribution among relatives of <I>H. syriacus</I>, orthologous gene sets containing 164,660 genes in 21,472 clusters were identified by OrthoMCL analysis of five plant species, including <I>H. syriacus</I>, <I>Arabidopsis thaliana, Gossypium raimondii, Theobroma cacao</I> and <I>Amborella trichopoda.</I> We inferred their evolutionary relationships based on divergence times among Malvaceae plant genes and found that gene families involved in flowering regulation and disease resistance were more highly divergent and expanded in <I>H. syriacus</I> than in its close relatives, <I>G. raimondii</I> (DD) and <I>T. cacao</I>. Clustered gene families and gene collinearity analysis revealed that two recent rounds of whole-genome duplication were followed by diploidization of the <I>H. syriacus</I> genome after speciation. Copy number variation and phylogenetic divergence indicates that WGDs and subsequent diploidization led to unequal duplication and deletion of flowering-related genes in <I>H. syriacus</I> and may affect its unique floral morphology.</P>
FRACTIONAL ORDER SOBOLEV SPACES FOR THE NEUMANN LAPLACIAN AND THE VECTOR LAPLACIAN
Kim, Seungil Korean Mathematical Society 2020 대한수학회지 Vol.57 No.3
In this paper we study fractional Sobolev spaces characterized by a norm based on eigenfunction expansions. The goal of this paper is twofold. The first one is to define fractional Sobolev spaces of order -1 ≤ s ≤ 2 equipped with a norm defined in terms of Neumann eigenfunction expansions. Due to the zero Neumann trace of Neumann eigenfunctions on a boundary, fractional Sobolev spaces of order 3/2 ≤ s ≤ 2 characterized by the norm are the spaces of functions with zero Neumann trace on a boundary. The spaces equipped with the norm are useful for studying cross-sectional traces of solutions to the Helmholtz equation in waveguides with a homogeneous Neumann boundary condition. The second one is to define fractional Sobolev spaces of order -1 ≤ s ≤ 1 for vector-valued functions in a simply-connected, bounded and smooth domain in ℝ<sup>2</sup>. These spaces are defined by a norm based on series expansions in terms of eigenfunctions of the vector Laplacian with boundary conditions of zero tangential component or zero normal component. The spaces defined by the norm are important for analyzing cross-sectional traces of time-harmonic electromagnetic fields in perfectly conducting waveguides.
Seungil Ha,Dalhyeon Ryu,Giyoon Kim,Jaeyeong Jang,Heejun Chung,Myungsoo Kim 한국방사성폐기물학회 2023 한국방사성폐기물학회 학술논문요약집 Vol.21 No.2
Recently, the status of North Korea’s denuclearization has become an international issue, and there are also indications of potential nuclear proliferation among neighboring countries. So, the need for establishment of nuclear activity verification technology and strategy is growing. In terms of ensuring verification completeness, sample collection-based analysis is essential. The concepts of Chain of Custody (CoC) and Continuity of Knowledge (CoK) can be defined in the process of sample extraction as follows: CoC is interpreted as the ‘system for managing the flow of information subjected by the examinee’, and CoK is interpreted as the ‘Continuity of information collection through CoC subjected by the inspector’. In the case of sample collection process in unreported areas for nuclear activity verification, there are additional risks such as worker exposure/kidnapping or sample theft/tampering. Therefore, the introduction of additional devices might be required to maintain CoC and CoK in the unreported area. In this study, an Environmental Geometrical Data Transfer (EGDT) was developed to ensure the safety of workers and the CoC/CoK of the samples during the collection process. This device was designed for achieving both mobility and rechargeability. It is categorized into two modes based on its intended users: sample mode and worker mode. Through the sensors, which is positioned in the rear part of device, such as radiation, gyroscope, light, temperature, humidity and proximity sensors, it can be easily achievable various environmental information in real-time. Additionally, GPS information can also be received, allowing for responsiveness to various hazardous scenarios. Moreover, the OLED display positioned on the front gives us for checking device information such as the current status of the device such as the battery level, the connectivity of wifi, and etc. Finally, an alarm function was integrated to enable rapid awareness during emergency situations. These functions can be updated and modified through Arduino-based firmware, and both the device and the information collected through it can be remotely controlled via custom software. Based on the presented design conditions, a prototype was developed and field assessments were conducted, yielding results within an acceptable margin of error for various scenarios. Through the application of the EGDT developed in this study to the sample collection process for nuclear activity verification purposes, it is expected to achieve a stable maintenance of CoC/CoK through more accurate information transmission and reception.
FISH SCHOOLING ANIMATION SYSTEM FOR CONSTRUCTING CONTENTS OF VIRTUAL UNDERWATER WORLD
Seungil Cho,Jongchan Kim,Cheeyong Kim,Eungkon Kim 한국멀티미디어학회 2007 한국멀티미디어학회 국제학술대회 Vol.2007 No.-
The goal of researching a proper crowd animation is to design system that is satisfied with the reality of scenes, performance of system, and interaction with users to show the crowd vividly and effectively in virtual underwater world. In this paper, we smartly expressed the behavior patterns for flocks offish in virtual underwater and we made up for the weak points in spending time and cost to produce crowd animation. We compared with the number of mesh, the number of fish, the number of frame, elapsed time, and resolution and analyzes them with the fish behavior simulating system. We developed a virtual underwater simulator using this system.