• Journal of Digital Contents Society
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• v.8 no.3
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• pp.269-277
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• 2007

Web service is an important technology to develop business to business e-commerce application. From a business perspective of time to market, dynamic evolution offers flexibility that software can adapt to unforeseen and fluctuating business requirements. OWL-S, based on OWL, is a service ontology language. The semantics provided by OWL support automation of service discovery, invocation, and service composition. In this paper we propose a framework to support dynamic evolution of service-oriented applications. We extend use-case analysis method to derive service description by defining requirements concept and mapping from requirement concept to activity diagram. A prototype is provided to show the validity of this framework.

• KSBB Journal
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• v.26 no.2
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• pp.131-138
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• 2011

Some computational approaches are needed for clarifying RNAi sequences, because it takes much time and endeavor that almost of RNAi sequences are verified by experimental data. Incorrectness of RNAi mechanism and other unaware factors in organism system are frequently faced with questions regarding potential use of RNAi as therapeutic applications. Our massive parallelized pair alignment scoring between dsRNA in Genebank and expressed sequence tags (ESTs) in Caenorhabditis elegans Genome Sequencing Projects revealed that this provides a useful tool for the prediction of RNAi induced cosuppression details for practical use. This pair alignment scoring method using high performance computing exhibited some possibility that numerous unwanted gene silencing and cosuppression exist even at high matching scores each other. The classifying the relative higher matching score of them based on GO (Gene Ontology) system could present mapping dsRNA of C. elegans and functional roles in an applied system. Our prediction also exhibited that more than 78% of the predicted co-suppressible genes are located in the ribosomal spot of C. elegans.

• Annual Conference on Human and Language Technology
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• 2010.10a
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• pp.172-176
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• 2010

본 논문에서는 위키피디아의 '틀(temp late)'을 기조로 하여 작성된 온톨로지인 OntoCloud의 신뢰도를 보장하고 공유 및 재사용을 가능하게 하기 위하여 또 다른 어휘집합체인 워드넷(WordNet)과의 매핑을 한다. 온톨로지 매핑 기술은 온톨로지 개발 기술의 한 방법으로, 서로 비슷한 도메인을 대상으로 이미 구축되어진 서로 다른 다수의 온롤로지를 연결시킴으로서 하나의 풍부한 정보를 가지고 있는 연결망을 구축하는 방법이다. 본 논문에서는 OntoCloud와 워드넷을 두개의 온톨로지로 정의하고 각 온톨로지의 개념에 대한 정의문 비교 방법을 통해서 두개의 온톨로지에 존재하는 유사한 개념을 연결한다. 이렇게 매핑된 정보들은 OntoCloud 개념을 워드넷 어휘로 연결함으로써 개념에 대한 직관적인 이해를 돕고, 워드넷에 연결된 다른 시소러스 (예: SUMO, CoreNet 등)와 간접적으로 연결할 수 있는 틀을 마련한다. 또한 온톨로지의 상하위 계층정보를 자동으로 보강하는 등의 OntoCloud 유지보수에 활용될 수 있다. 본 논문의 실험에서는 두개의 서로 다른 온톨로지의 정의문에 사용된 어휘의 겹침 정도로 두개의 개념의 유사성을 판별하는 방법을 보인다. 본 논문에서 제시한 방법으로 약 73%의 개념 매핑에 성공하였으나, 추후 매핑 프로세스의 전처리 과정(약자 처리 및 복합명사 대응 모듈)을 추가하고 온톨로지의 구조적 특성을 활용하여 유사 개념 자동 매핑 기술을 향상시키고자 한다.

• Mycobiology
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• v.50 no.1
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• pp.1-11
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• 2022

The ascomycete fungus Cordyceps militaris infects lepidopteran larvae and pupae and forms characteristic fruiting bodies. Owing to its immune-enhancing effects, the fungus has been used as a medicine. For industrial application, this fungus can be grown on geminated soybeans as an alternative protein source. In our study, we performed a comprehensive transcriptomic analysis to identify core gene sets during C. militaris cultivation on germinated soybeans. RNA-Seq technology was applied to the fungal cultures at seven-time points (2, 4, and 7-day and 2, 3, 5, 7-week old cultures) to investigate the global transcriptomic change. We conducted a time-series analysis using a two-step regression strategy and chose 1460 significant genes and assigned them into five clusters. Characterization of each cluster based on Gene Ontology and Kyoto Encyclopedia of Genes and Genomes databases revealed that transcription profiles changed after two weeks of incubation. Gene mapping of cordycepin biosynthesis and isoflavone modification pathways also confirmed that gene expression in the early stage of GSC cultivation is important for these metabolic pathways. Our transcriptomic analysis and selected genes provided a comprehensive molecular basis for the cultivation of C. militaris on germinated soybeans.

• Proceedings of the Korean Institute of Building Construction Conference
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• 2016.05a
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• pp.87-88
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• 2016

In order to assess the design value of engineering work from the point of view of LCC (Life Cycle Cost) in Korea, it is mandatory for all construction works that the total construction costs are over 10 billion won. The LCC includes initial construction costs, maintenance & operation costs, energy costs, end-of-life costs, and so on. Among these, the portion for maintenance & operation costs for a building is sizeable, as compared to the initial construction costs. Furthermore, the paradigm for construction industry has rapidly shifted from 2D to BIM, which includes design planning and data management. However, the study of BIM-based LCC analysis is not adequate today, even though all domestic construction projects ordered by the Public Procurement Service have to adopt BIM. Therefore, this study suggests a methodology of BIM-based LCC analysis that is particularly focused on repair and replacement (R&R) cost. For this purpose, we defined requirements of calculating R&R cost and extracted X from the relevant IFC data. Thereafter, we input them to the ontology of calculating the initial construction costs to obtain an objective output. Finally, in order to automatically calculate R&R cost, mapping with R&R criteria was performed. We expect that our methodology will contribute to more efficiently calculate R&R cost and, furthermore, that this methodology will be applicable to all range of total LCC. Thus, the proposed process of automatic BIM-based LCC analysis will contribute to making LCC analysis more fast and accurate than it is at present.

• Journal of the Korean BIBLIA Society for library and Information Science
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• v.31 no.1
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• pp.379-392
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• 2020

The purpose of this study is to present technical elements to improve the data utilization of the ISNI Korea Consortium, which is operated by the National Library of Korea, which is responsible for the registration of Korean names. The ISNI Korea Consortium aims to register various creation-related information in addition to bibliographic-related individual and organization name information. To this end, this study examines the ISNI Korea consortium, which is a data provider's consultative body, among other things, the metadata status of copyright organizations and the linked data specification of ISNI. As a result, data acquisition, refining, storage, identifier management, consortium metadata management, five in total, and RDF data management (repository) in terms of linked data, RDF data issuance, RDF data retrieval, RDF data inquiry, RDF data Eight technical elements, including download, ontology inquiry, standard term inquiry and mapping information management, were derived.

• Asian-Australasian Journal of Animal Sciences
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• v.32 no.5
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• pp.607-613
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• 2019

Objective: Intramuscular fat (IMF) content plays an important role in meat quality. Identification of single nucleotide polymorphisms (SNPs) and genes related to pig IMF, especially using pig populations with high IMF content variation, can help to establish novel molecular breeding tools for optimizing IMF in pork and unveil the mechanisms that underlie fat metabolism. Methods: We collected muscle samples of 453 Chinese Lulai black pigs, measured IMF content by Soxhlet petroleum-ether extraction method, and genotyped genome-wide SNPs using GeneSeek Genomic Profiler Porcine HD BeadChip. Then a genome-wide association study was performed using a linear mixed model implemented in the GEMMA software. Results: A total of 43 SNPs were identified to be significantly associated with IMF content by the cutoff p<0.001. Among these significant SNPs, the greatest number of SNPs (n = 19) were detected on Chr.9, and two linkage disequilibrium blocks were formed among them. Additionally, 17 significant SNPs are mapped to previously reported quantitative trait loci (QTLs) of IMF and confirmed previous QTLs studies. Forty-two annotated genes centering these significant SNPs were obtained from Ensembl database. Overrepresentation test of pathways and gene ontology (GO) terms revealed some enriched reactome pathways and GO terms, which mainly involved regulation of basic material transport, energy metabolic process and signaling pathway. Conclusion: These findings improve our understanding of the genetic architecture of IMF content in pork and facilitate the follow-up study of fine-mapping genes that influence fat deposition in muscle.

• KOREAN JOURNAL OF CROP SCIENCE
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• v.67 no.1
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• pp.41-52
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• 2022

As a cultivar of Korean wheat, 'Keumgang' wheat variety has a fast growth period and can be grown stably. Hexaploid wheat (Triticum aestivum) has moderately high salt tolerance compared to tetraploid wheat (Triticum turgidum L.). However, the molecular mechanisms related to salt tolerance of hexaploid wheat have not been elucidated yet. In this study, the candidate genes related to salt tolerance were identified by investigating the genes that are differently expressed in Keumgang variety and examining salt tolerant mutation '2020-s1340.'. A total of 85,771,537 reads were obtained after quality filtering using NextSeq 500 Illumina sequencing technology. A total of 23,634,438 reads were aligned with the NCBI Campala Lr22a pseudomolecule v5 reference genome (Triticum aestivum). A total of 282 differentially expressed genes (DEGs) were identified in the two Triticum aestivum materials. These DEGs have functions, including salt tolerance related traits such as 'wall-associated receptor kinase-like 8', 'cytochrome P450', '6-phosphofructokinase 2'. In addition, the identified DEGs were classified into three categories, including biological process, molecular function, cellular component using gene ontology analysis. These DEGs were enriched significantly for terms such as the 'copper ion transport', 'oxidation-reduction process', 'alternative oxidase activity'. These results, which were obtained using RNA-seq analysis, will improve our understanding of salt tolerance of wheat. Moreover, this study will be a useful resource for breeding wheat varieties with improved salt tolerance using molecular breeding technology.

• Proceedings of the Korean Society of Crop Science Conference
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• 2017.06a
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• pp.140-140
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• 2017

Nutritious and functional foods from crop have received great attention in recent years. Colored-grain wheat contains high phenolic compound and a large number of flavonoid. The anthocyanin and polyphenolic synthesis and accumulation is generally stimulated in response to biotic or abiotic stresses. Here, we analyzed genome wide transcripts in seedling of colored-grain wheat response to ABA and PEG treatment. About 900 and 1500 transcripts (p-value < 0.05) from ABA and PEG treatment were aligned to IWGSC1+popseq DB which is composed of over 110,000 transcripts including 100,934 coding genes. NR protein sequences of Poaceae from NCBI and protein sequence of transcription factors originated from 83 species in plant transcription factor database v3.0 were used for annotation of putative transcripts. Gene ontology analysis were conducted and KEGG mapping was performed to show expression pattern of biosynthesis genes related in flavonoid, isoflavonoid, flavons and anthocyanin biopathway. DroughtDB (http://pgsb.helmholtz-muenchen.de/droughtdb/) was used for detection of DEGs to explain that physiological and molecular drought avoidance by drought tolerance mechanisms. Drought response pathway, such as ABA signaling, water and ion channels, detoxification signaling, enzymes of osmolyte biosynthesis, phospholipid metabolism, signal transduction, and transcription factors related DEGs were selected to explain response mechanism under water deficit condition. Anthocyanin, phenol compound, and DPPH radical scavenging activity were measured and antioxidant activity enzyme assays were conducted to show biochemical adaptation under water deficit condition. Several MYB and bHLH transcription factors were up-regulated in both ABA and PEG treated condition, which means highly expressed MYB and bHLH transcription factors enhanced the expression of genes related in the biosynthesis pathways of flavonoids, such as anthocyanin and dihydroflavonols in colored wheat seedlings. Subsequently, the accumulation of total anthocyanin and phenol contents were observed in colored wheat seedlings, and antioxidant capacity was promoted by upregulation of genes involved in maintaining redox state and activation of antioxidant scavengers, such as CAT, APX, POD, and SOD in colored wheat seedlings under water deficit condition. This work may provide valuable and basic information for further investigation of the molecular responses of colored-grain wheat to water deficit stress and for further gene-based studies.

• Proceedings of the Korean Society of Crop Science Conference
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• 2017.06a
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• pp.141-141
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• 2017

The ubiquitin-proteasome pathway is the major regulatory mechanism in a number of cellular processes for selective degradation of proteins and involves three steps: (1) ATP dependent activation of ubiquitin by E1 enzyme, (2) transfer of activated ubiquitin to E2 and (3) transfer of ubiquitin to the protein to be degraded by E3 complex. F-box proteins are subunit of SCF complex and involved in specificity for a target substrate to be degraded. F-box proteins regulate many important biological processes such as embryogenesis, floral development, plant growth and development, biotic and abiotic stress, hormonal responses and senescence. However, little is known about the F-box genes in wheat. The draft genome sequence of wheat (IWGSC Reference Sequence v1.0 assembly) used to analysis a genome-wide survey of the F-box gene family in wheat. The Hidden Markov Model (HMM) profiles of F-box (PF00646), F-box-like (PF12937), F-box-like 2 (PF13013), FBA (PF04300), FBA_1 (PF07734), FBA_2 (PF07735), FBA_3 (PF08268) and FBD (PF08387) domains were downloaded from Pfam database were searched against IWGSC Reference Sequence v1.0 assembly. RNA-seq paired-end libraries from different stages of wheat, such as stages of seedling, tillering, booting, day after flowering (DAF) 1, DAF 10, DAF 20, and DAF 30 were conducted and sequenced by Illumina HiSeq2000 for expression analysis of F-box protein genes. Basic analysis including Hisat, HTseq, DEseq, gene ontology analysis and KEGG mapping were conducted for differentially expressed gene analysis and their annotation mappings of DEGs from various stages. About 950 F-box domain proteins identified by Pfam were mapped to wheat reference genome sequence by blastX (e-value < 0.05). Among them, more than 140 putative F-box protein genes were selected by fold changes cut-offs of > 2, significance p-value < 0.01, and FDR<0.01. Expression profiling of selected F-box protein genes were shown by heatmap analysis, and average linkage and squared Euclidean distance of putative 144 F-box protein genes by expression patterns were calculated for clustering analysis. This work may provide valuable and basic information for further investigation of protein degradation mechanism by ubiquitin proteasome system using F-box proteins during wheat development stages.