• Genomics & Informatics
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• v.19 no.3
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• pp.23.1-23.7
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• 2021

Currently, coronavirus disease 2019 (COVID-19) literature has been increasing dramatically, and the increased text amount make it possible to perform large scale text mining and knowledge discovery. Therefore, curation of these texts becomes a crucial issue for Bio-medical Natural Language Processing (BioNLP) community, so as to retrieve the important information about the mechanism of COVID-19. PubAnnotation is an aligned annotation system which provides an efficient platform for biological curators to upload their annotations or merge other external annotations. Inspired by the integration among multiple useful COVID-19 annotations, we merged three annotations resources to LitCovid data set, and constructed a cross-annotated corpus, LitCovid-AGAC. This corpus consists of 12 labels including Mutation, Species, Gene, Disease from PubTator, GO, CHEBI from OGER, Var, MPA, CPA, NegReg, PosReg, Reg from AGAC, upon 50,018 COVID-19 abstracts in LitCovid. Contain sufficient abundant information being possible to unveil the hidden knowledge in the pathological mechanism of COVID-19.

• Journal of Life Science
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• v.18 no.4
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• pp.565-571
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• 2008

Due to rapid development of bioinformatics technologies, various biological data have been produced in silico. So now days complicated and large scale biodata are used to accomplish requirement of researcher. Developing visualization and annotation tool using them is still hot issues although those have been studied for a decade. However, diversity and various requirements of users make us hard to develop general purpose tool. In this paper, I propose a novel system, Genome Viewer and Annotation tool (GenoVA), to annotate and visualize among genomes using known information and multiple relation graph. There are several multiple alignment tools but they lose conserved area for complexity of its constrains. The GenoVA extracts all associated information between all pair genomes by extending pairwise alignment. High frequency conserved area and high BLAST score make a block node of relation graph. To represent multiple relation graph, the system connects among associated block nodes. Also the system shows the known information, COG, gene and hierarchical path of block node. In this case, the system can annotates missed area and unknown gene by navigating the special block node's clustering. I experimented ten bacteria genomes for extracting the feature to visualize and annotate among them. GenoVA also supports simple and rough computational annotation of new genome.

• Journal of Information Technology Services
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• v.12 no.1
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• pp.271-287
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• 2013

The rapid growth and dissemination of touch-based mobile devices such as smart phones and tablet PCs, gives numerous benefits to people using a variety of multimedia contents. Due to its portability, it enables users to watch a soccer game, search video from YouTube, and sometimes tag on contents on the road. However, the limited screen size of mobile devices and touch-based character input methods based on this, are still major problems of searching and tagging multimedia contents. In this paper, we propose WalkieTagging, which provides a much more intuitive way than that of previous one. Just like any other previous video tagging services, WalkieTagging, as a voice-based annotation service, supports inserting detailed annotation data including start time, duration, tags, with little effort of users. To evaluate our methods, we developed the Android-based WalkieTagging application and performed user study via a two-week. Through our experiments by a total of 46 people, we observed that experiment participator think our system is more convenient and useful than that of touch-based one. Consequently, we found out that voice-based annotation methods can provide users with much convenience and satisfaction than that of touch-based methods in the mobile environments.

• Educational Technology International
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• v.17 no.1
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• pp.87-116
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• 2016

In this research, we designed a teacher professional development (PD) program where a small group of mathematics teachers could share, reflect on, and discuss their pedagogical knowledge and practices of ICT-integrated lessons, using a video annotation tool called DIVER. The main purposes of this paper are both micro and macro: to examine how the teachers were engaged in the meaning-making process in a video-based PD (micro); and to derive implications about how to design effective video-based teacher PD programs toward a teacher community of practices (macro). To examine teachers' meaning-making in the PD sessions, discourse data from a series of 10 meetings was segmented into idea units and coded to identify discourse patterns, focusing on (a) participation levels, (b) conversation topics, and (c) conversation depth. Regarding the affordance of DIVER, discourse patterns of two meetings, before and after individual annotation with DIVER were compared through qualitative vignette analysis. Overall, we found that the teacher discourse shifted the focus from surface features to deeper pedagogical issues as the PD sessions progressed. In particular, the annotation function in DIVER afforded the teachers to exercise descriptive analyses of video clips in a flexible manner, thereby helping them cognitively prepared to take interpretative and evaluative stances in face-to-face discussions with colleagues. In conclusion, deriving from our research experiences, we discuss the possibilities and challenges of designing video-based teacher PD in a school context.

• Proceedings of the Korea Contents Association Conference
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• 2018.05a
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• pp.549-550
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• 2018

We have developed a web server for the high throughput annotation of gene. This system processes entire data sets with an automated pipeline of 13 analytic services, then deposits the data into the MySQL database and transforms it into three kinds of reports: preprocessing, assembling and annotation.

• The KIPS Transactions:PartD
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• v.14D no.1 s.111
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• pp.35-44
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• 2007

Recently, an increasing in quantity of multimedia data have brought a new problem that expected data should be retrieved fast and exactly. The adequate representation for the multimedia data is the key element for efficient retrieval. For this reason, MPEG-7 standard was established for description of multimedia data. In this paper, we propose a new approach to metadata production. The user can decompose a given content into units and easily annotate each unit by adding basic Information such as time, place, etc. as well as classification information such as event, relationship, etc. according to the MPEG-7 standard. The objective is to build automatically a pure semantic description; the nodes are the events and the links are the graphs which describe the relationships among the events. Finally, we have implemented an annotation tool(SMAT) for semantic description based on proposed technique and assess some of the experiment results. In conclusion, we ran say that the proposod annotation tool is characterized by two important proprieties : reusability and extendibility.

• Journal of the Institute of Electronics Engineers of Korea CI
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• v.41 no.4
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• pp.95-102
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• 2004

In order to process video data effectively, it is required that the content information of video data is loaded in database and semantic-based retrieval method can be available for various query of users. Currently existent contents-based video retrieval systems search by single method such as annotation-based or feature-based retrieval, and show low search efficiency md requires many efforts of system administrator or annotator because of imperfect automatic processing. In this paper, we propose semantics-based video retrieval system which support semantic retrieval of various users by feature-based retrieval and annotation-based retrieval of massive video data. By user's fundamental query and selection of image for key frame that extracted from query, the agent gives the detail shape for annotation of extracted key frame. Also, key frame selected by user become query image and searches the most similar key frame through feature based retrieval method and optimized comparison area extracting that propose. Therefore, we propose the system that can heighten retrieval efficiency of video data through semantics-based retrieval.

• Journal of the Korea Computer Industry Society
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• v.5 no.2
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• pp.203-216
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• 2004

In order to process video data effectively, it is required that the content information of video data is loaded in database and semantic- based retrieval method can be available for various query of users. Currently existent contents-based video retrieval systems search by single method such as annotation-based or feature-based retrieval, and show low search efficiency and requires many efforts of system administrator or annotator form less perfect automatic processing. In this paper, we propose semantic-based video retrieval system which support semantic retrieval of various users by feature-based retrieval and annotation-based retrieval of massive video data. By user's fundamental query and selection of image for key frame that extracted from query, the agent gives the detail shape for annotation of extracted key frame. Also, key frame selected by user become query image and searches the most similar key frame through feature based retrieval method that propose. Therefore, we design the system that can heighten retrieval efficiency of video data through semantic-based retrieval.

• Journal of KIISE:Software and Applications
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• v.32 no.7
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• pp.650-662
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• 2005

A robust repositioning method is required for annotations to always maintain proper positions when original documents were modified. Robust anchoring in the XML document provides better anchoring results when it includes features of structured documents as well as annotated texts. This paper proposes robust annotation anchoring method in XML document. To do this, this work presents annotation information as logical structure trees, and creates candidate anchors by analyzing matching relations between the annotation and document trees. To select the appropriate candidate anchor among many candidate anchors, this work presents several anchoring criteria based on the textual and label context of anchor nodes in the logical structure trees. As a result, robust anchoring is realized even after various modifications of contexts in the structured document.

• Genomics & Informatics
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• v.3 no.1
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• pp.39-42
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• 2005

DNA microarray is a high-throughput biomedical technology that monitors gene expression for thousands of genes in parallel. The abundance and complexity of the gene expression data have given rise to a requirement for their systematic management and analysis to support many laboratories performing microarray research. On these demands, we developed Xperanto for integrated data management and analysis using user-friendly web-based interface. Xperanto provides an integrated environment for management and analysis by linking the computational tools and rich sources of biological annotation. With the growing needs of data sharing, it is designed to be compliant to MGED (Microarray Gene Expression Data) standards for microarray data annotation and exchange. Xperanto enables a fast and efficient management of vast amounts of data, and serves as a communication channel among multiple researchers within an emerging interdisciplinary field.