• Cartoon and Animation Studies
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• s.49
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• pp.1-23
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• 2017

3D animation production has had a pivotal position in current animation industry and the necessity of professional management tool for 3D animation production has claimed due to its sophisticated pipeline from advance of technology and global production partnership trend. Shotgun and Ftrack are providing the most appropriate management toolset for 3D animation management among the extant management tools and the efficiency of Shotgun & Ftrack is identified compared with the traditional document oriented management style. The biggest strength of production management using Shotgun is that all of the production staff can directly participate in the communication on the tools therefore they can share the information on Shotgun & Ftrack in real time without constraint of time and location. Moreover, all the process of the production and the history of the discussion on certain production issues are systematically accrue on the tool so that the production history can be easily tracked. Finally, the production management using tools contributes collecting and analysing the production information for the production management team in studios. However, Shotgun & Ftrack has metadata based retrieval method which cost huge amount of effort by human's manual annotation and it also has the limitation of accuracy. In addition, the fact that studios has to have technical professionals first in order to institute the tools into their studios is the actual difficulty of Korean studios when they want to use management tools for their project. Thus, this paper suggests adopting the content-based retrieval system on the tools and tools' expanded technical service for the studios as the solution of the identified issues.

• Horticultural Science & Technology
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• v.31 no.5
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• pp.598-606
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• 2013

Anther is the major organ of flower in responsible to reproduction and outward appearance. From anther-specific cDNA library of Lilium Oriental Hybrid 'Acapulco', 2000 expressed sequence tags were selected randomly. Differential slot blot analysis with cDNA probes from the anther and leaf was used to get anther-expressed clone and 570 non-redundant ESTs were obtained and sequenced. Compared to the GenBank database using BLASTX algorithm, 191 clones showed significant similarity but others (66.5%) did not measured to known sequence. Functional categories according to gene ontology (GO) annotation included sequence representing a significant portion of protein in cell and cell part respectively. A transcriptional analysis at 7 different organs and developmental stage was performed using northern blot with thirty ESTs as putative anther specific gene. This report suggest that selection of anther expressed clone using differential slot blot was considered as very effective tool and our current study can provide fundamental information on the lily anther including pollen furthermore.

• Journal of Environmental Science International
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• v.24 no.5
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• pp.623-631
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• 2015

Microarray technology provides a unique tool for the determination of gene expression at the level of messenger RNA (mRNA). This study, the mRNA expression profiles provide insight into the mechanism of action of cadmium in Fleshy shrimp (Fenneropenaeus chinensis). The ability of genomic technologies was contributed decisively to development of new molecular biomarkers and to the determination of new possible gene targets. Also, it can be approach for monitoring of trace metal using oligo-chip microarray-based in potential model marine user level organisms. 15K oligo-chip for F. chinensis that include mostly unique sets of genes from cDNA sequences was developed. A total of 13,971 spots (1,181 mRNAs up- regulated and 996 down regulated) were identified to be significantly expressed on microarray by hierarchical clustering of genes after exposure to cadmium for different conditions (Cd24-5000 and Cd48-1000). Most of the changes of mRNA expression were observed at the long time and low concentration exposure of Cd48-1000. But, gene ontology analysis (GO annotation) were no significant different between experiments groups. It was observed that mRNA expression of main genes involved in metabolism, cell component, molecular binding and catalytic function. It was suggested that cadmium inhibited metabolism and growth of F. chinensis.

• Annual Conference on Human and Language Technology
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• 2017.10a
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• pp.309-313
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• 2017

개체명은 인명, 지명, 조직명 등 문서 내에서 중요한 의미를 가지므로 질의응답, 요약, 기계번역 분야에서 유용하게 사용되고 있다. 개체명 인식은 문서에서 개체명에 해당하는 단어를 찾아 개체명 범주를 부착하는 작업을 말한다. 개체명 인식 연구에는 개체명 범주가 부착된 개체명 말뭉치를 사용한다. 개체명의 범주는 연구 분야에 따라 다양하게 정의되므로 연구 분야에 적합한 개체명 말뭉치가 필요하다. 하지만 이런 말뭉치를 구축하는 일은 시간과 인력이 많이 필요하다. 따라서 본 논문에서는 개체명 사전 기반의 반자동 말뭉치 구축 도구를 제안한다. 제안하는 도구는 크게 전처리, 사용자 태깅, 후처리 단계로 나뉜다. 전처리 단계는 자동으로 개체명을 찾는 단계이다. 약 11만 개의 개체명을 기반으로 하여 트라이(trie) 구조의 개체명 사전을 구축한 후 사전을 이용하여 개체명을 자동으로 찾는다. 사용자 태깅 단계는 사용자가 수동으로 개체명을 태깅하는 단계이다. 전처리 단계에서 찾은 개체명 중 오류가 있는 개체명들은 수정하거나 삭제하고, 찾지 못한 개체명들은 사용자가 추가로 태깅하는 단계이다. 후처리 단계는 태깅한 결과로부터 사전 정보를 갱신하는 단계이다. 제안한 말뭉치 구축 도구를 이용하여 752개의 뉴스 기사에 대해 개체명을 태깅한 결과 7,620개의 개체명이 사전에 추가되었다. 제안한 도구를 사용한 결과 사용하지 않았을 때 비해 약 57.6% 정도 태깅 횟수가 감소했다.

• Genomics & Informatics
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• v.5 no.4
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• pp.143-151
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• 2007

To understand the mechanism of transcriptional regulation, it is essential to detect promoters and regulatory elements. Various kinds of methods have been introduced to improve the prediction accuracy of regulatory elements. Since there are few experimentally validated regulatory elements, previous studies have used criteria based solely on the level of scores over background sequences. However, selecting the detection criteria for different prediction methods is not feasible. Here, we studied the calibration of thresholds to improve regulatory element prediction. We predicted a regulatory element using MATCH, which is a powerful tool for transcription factor binding site (TFBS) detection. To increase the prediction accuracy, we used a regulatory potential (RP) score measuring the similarity of patterns in alignments to those in known regulatory regions. Next, we calibrated the thresholds to find relevant scores, increasing the true positives while decreasing possible false positives. By applying various thresholds, we compared predicted regulatory elements with validated regulatory elements from the Open Regulatory Annotation (ORegAnno) database. The predicted regulators by the selected threshold were validated through enrichment analysis of muscle-specific gene sets from the Tissue-Specific Transcripts and Genes (T-STAG) database. We found 14 known muscle-specific regulators with a less than a 5% false discovery rate (FDR) in a single TFBS analysis, as well as known transcription factor combinations in our combinatorial TFBS analysis.

• BMB Reports
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• v.37 no.1
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• pp.107-113
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• 2004

Since the completion of the genome project of the nematode C. elegans in 1998, functional genomic approaches have been applied to elucidate the gene and protein networks in this model organism. The recent completion of the whole genome of C. briggsae, a close sister species of C. elegans, now makes it possible to employ the comparative genomic approaches for identifying regulatory mechanisms that are conserved in these species and to make more precise annotation of the predicted genes. RNA interference (RNAi) screenings in C. elegans have been performed to screen the whole genome for the genes whose mutations give rise to specific phenotypes of interest. RNAi screens can also be used to identify genes that act genetically together with a gene of interest. Microarray experiments have been very useful in identifying genes that exhibit co-regulated expression profiles in given genetic or environmental conditions. Proteomic approaches also can be applied to the nematode, just as in other species whose genomes are known. With all these functional genomic tools, genetics will still remain an important tool for gene function studies in the post genome era. New breakthroughs in C. elegans biology, such as establishing a feasible gene knockout method, immortalized cell lines, or identifying viruses that can be used as vectors for introducing exogenous gene constructs into the worms, will augment the usage of this small organism for genome-wide biology.

• BMB Reports
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• v.39 no.4
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• pp.441-447
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• 2006

Abuse of drugs can elicit compulsive drug seeking behaviors upon repeated administration, and ultimately leads to the phenomenon of addiction. We developed a procedure for the standardization of microarray gene expression data of rat brain in drug addiction and stored them in a single integrated database system, focusing on more effective data processing and interpretation. Another characteristic of the present database is that it has a systematic flexibility for statistical analysis and linking with other databases. Basically, we adopt an intelligent SQL querying system, as the foundation of our DB, in order to set up an interactive module which can automatically read the raw gene expression data in the standardized format. We maximize the usability of this DB, helping users study significant gene expression and identify biological function of the genes through integrated up-to-date gene information such as GO annotation and metabolic pathway. For collecting the latest information of selected gene from the database, we also set up the local BLAST search engine and non-redundant sequence database updated by NCBI server on a daily basis. We find that the present database is a useful query interface and data-mining tool, specifically for finding out the genes related to drug addiction. We apply this system to the identification and characterization of methamphetamine-induced genes' behavior in rat brain.

• Journal of Applied Biological Chemistry
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• v.58 no.4
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• pp.355-361
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• 2015

The rice protein profiles of Oryza sativa L (Koshihikari) grown under organic and conventional cultivation regimes were compared on 2-D gels to develop diagnostic marker proteins for organic rice. The selected proteins, differentially expressed between organic and conventional rice, were compared with the differentially expressed proteins of another organic and conventional rice pairing, produced at a different location. In the first comparison among conventional, no-chemical, and organic rice grown in the same region, Korea, 13 proteins exhibiting differential expression in organic and conventionally grown plants were selected. Eight of the 13 proteins were down-regulated, and the 5 remaining proteins were up-regulated from conventional to organic rice. The second comparison pairing from Kyungju, revealed 12 differentially expressed proteins, with 8 down-regulated and 4 up-regulated proteins. Ten of the differentially expressed proteins that overlapped between the two comparison sets could not be clustered into any functional group using a functional annotation clustering tool. Further comparisons using another set of conventional and organic rice, belonging to a different variety of Oryza sativa L and produced in Sanchung, revealed 8 differentially expressed proteins, 5 of which were down-regulated and 3 of which were upregulated in the organic rice. Overall, 3 differentially expressed proteins were commonly found in all three organic rice crops. These 3 proteins, along with other overlapping differentially expressed proteins, can provide a good starting point for the development of signature proteins that can be used for the authentication of organic rice with a follow-up studies with more comparison sets.

• 한국어정보학회:학술대회논문집
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• 2017.10a
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• pp.309-313
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• 2017

개체명은 인명, 지명, 조직명 등 문서 내에서 중요한 의미를 가지므로 질의응답, 요약, 기계번역 분야에서 유용하게 사용되고 있다. 개체명 인식은 문서에서 개체명에 해당하는 단어를 찾아 개체명 범주를 부착하는 작업을 말한다. 개체명 인식 연구에는 개체명 범주가 부착된 개체명 말뭉치를 사용한다. 개체명의 범주는 연구 분야에 따라 다양하게 정의되므로 연구 분야에 적합한 개체명 말뭉치가 필요하다. 하지만 이런 말뭉치를 구축하는 일은 시간과 인력이 많이 필요하다. 따라서 본 논문에서는 개체명 사전 기반의 반자동 말뭉치 구축 도구를 제안한다. 제안하는 도구는 크게 전처리, 사용자 태깅, 후처리 단계로 나뉜다. 전처리 단계는 자동으로 개체명을 찾는 단계이다. 약 11만 개의 개체명을 기반으로 하여 트라이(trie) 구조의 개체명 사전을 구축한 후 사전을 이용하여 개체명을 자동으로 찾는다. 사용자 태깅 단계는 사용자가 수동으로 개체명을 태깅하는 단계이다. 전처리 단계에서 찾은 개체명 중 오류가 있는 개체명들은 수정하거나 삭제하고, 찾지 못한 개체명들은 사용자가 추가로 태깅하는 단계이다. 후처리 단계는 태깅한 결과로부터 사전 정보를 갱신하는 단계이다. 제안한 말뭉치 구축 도구를 이용하여 752개의 뉴스 기사에 대해 개체명을 태깅한 결과 7,620개의 개체명이 사전에 추가되었다. 제안한 도구를 사용한 결과 사용하지 않았을 때 비해 약 57.6% 정도 태깅 횟수가 감소했다.

• Journal of Periodontal and Implant Science
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• v.50 no.5
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• pp.313-326
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• 2020

Purpose: This study was conducted to analyze specific RNA expression profiles in gingival tissue and saliva samples in periodontitis patients and healthy individuals, and to determine their correlations in light of the potential use of microarray-based analyses of saliva samples as a periodontal monitoring tool. Methods: Gingival tissue biopsies and saliva samples from 22 patients (12 with severe periodontitis and 10 with a healthy periodontium) were analyzed using transcriptomic microarray analysis. Differential gene expression was assessed, and pathway and clustering analyses were conducted for the samples. The correlations between the results for the gingival tissue and saliva samples were analyzed at both the gene and pathway levels. Results: There were 621 differentially expressed genes (DEGs; 320 upregulated and 301 downregulated) in the gingival tissue samples of the periodontitis group, and 154 DEGs (44 upregulated and 110 downregulated) in the saliva samples. Nine of these genes overlapped between the sample types. The periodontitis patients formed a distinct cluster group based on gene expression profiles for both the tissue and saliva samples. Database for Annotation, Visualization and Integrated Discovery analysis revealed 159 enriched pathways from the tissue samples of the periodontitis patients, as well as 110 enriched pathways In the saliva samples. Thirty-four pathways overlapped between the sample types. Conclusions: The present results indicate the possibility of using the salivary transcriptome to distinguish periodontitis patients from healthy individuals. Further work is required to enhance the extraction of available RNA from saliva samples.