A5057172766- RNA modifications and cancer
- Cancer Genomics and Diagnostics
- Genomics and Phylogenetic Studies
- Single-cell and spatial transcriptomics
- Genomics and Chromatin Dynamics
- Cancer, Lipids, and Metabolism
- Educational Systems and Policies
- Education and Learning Interventions
- Psychosocial Factors Impacting Youth
- Gene expression and cancer classification
- MicroRNA in disease regulation
- Cancer-related gene regulation
- Genomics and Rare Diseases
- Bioinformatics and Genomic Networks
- Cancer-related molecular mechanisms research
- Genetic Associations and Epidemiology
- Ferroptosis and cancer prognosis
- Pluripotent Stem Cells Research
- Research Data Management Practices
- Cell Image Analysis Techniques
- Molecular Biology Techniques and Applications
- Asian Culture and Media Studies
- Educational Research and Pedagogy
- Bacteriophages and microbial interactions
- Epigenetics and DNA Methylation
Korea Research Institute of Bioscience and Biotechnology
2014-2025
Seoul National University
2012-2014
Ewha Womans University
2014
Biogenesis and molecular function are two key subjects in the field of microRNA (miRNA) research. Deep sequencing has become principal technique cataloging miRNA repertoire generating expression profiles an unbiased manner. Here, we describe miRGator v3.0 update (http://mirgator.kobic.re.kr) that compiled deep data available public implemented several novel tools to facilitate exploration massive data. The miR-seq browser supports users examine short read alignment with secondary structure...
Three-dimensional (3D) chromatin structure is an emerging paradigm for understanding gene regulation mechanisms. Hi-C (high-throughput conformation capture), a method to detect long-range interactions, allows extensive genome-wide investigation of 3D structure. However, broad application data have been hindered by the level complexity in processing and large size raw sequencing data. In order overcome these limitations, we constructed database named 3DIV (a 3D-genome Interaction Viewer...
Abstract Fusion genes represent an important class of biomarkers and therapeutic targets in cancer. ChimerDB is a comprehensive database fusion encompassing analysis deep sequencing data (ChimerSeq) text mining publications (ChimerPub) with extensive manual annotations (ChimerKB). In this update, we present all three modules substantially enhanced by incorporating the recent flood related publications. ChimerSeq now covers 10 565 patients TCGA project, compilation computational results from...
Abstract Despite substantial advances in disease genetics, studies to date have largely focused on individuals of European descent. This limits further discoveries novel functional genetic variants other ethnic groups. To alleviate the paucity East Asian population genome resources, we established Korean Variant Archive 2 (KOVA 2), which is composed 1896 whole-genome sequences and 3409 whole-exome from healthy ethnicity. largest database date, surpassing 1909 deposited gnomAD. The KOVA...
Deep sequencing techniques provide a remarkable opportunity for comprehensive understanding of tumorigenesis at the molecular level. As omics studies become popular, integrative approaches need to be developed move from simple cataloguing mutations and changes in gene expression dissecting nature carcinogenesis systemic level complex networks that lead cancer development.Here, we describe high-throughput, multi-dimensional study primary lung adenocarcinoma tumors adjacent normal tissues six...
Fusion gene is an important class of therapeutic targets and prognostic markers in cancer. ChimerDB a comprehensive database fusion genes encompassing analysis deep sequencing data manual curations. In this update, the coverage was enhanced considerably by adding two new modules The Cancer Genome Atlas (TCGA) RNA-Seq PubMed abstract mining. 3.0 composed three ChimerKB, ChimerPub ChimerSeq. ChimerKB represents knowledgebase including 1066 with curation that were compiled from public resources...
Hibiscus syriacus (L.) (rose of Sharon) is one the most widespread garden shrubs in world. We report a draft H. genome comprised 1.75 Gb assembly that covers 92% with only 1.7% (33 Mb) gap sequences. Predicted gene modeling detected 87,603 genes, mostly supported by deep RNA sequencing data. To define family distribution among relatives syriacus, orthologous sets containing 164,660 genes 21,472 clusters were identified OrthoMCL analysis five plant species, including Arabidopsis thaliana,...
Three-dimensional (3D) genome organization is tightly coupled with gene regulation in various biological processes and diseases. In cancer, types of large-scale genomic rearrangements can disrupt the 3D genome, leading to oncogenic expression. However, unraveling pathogenicity cancer remains a challenge since closer examinations have been greatly limited due lack appropriate tools specialized for disorganized higher-order chromatin structure. Here, we updated 3D-genome Interaction Viewer...
A wave of new technologies has created opportunities for the cost-effective generation high-throughput profiles biological systems, foreshadowing a "data-driven science" era. The large variety data available from research is also rich resource that can be used innovative endeavors. However, we are facing considerable challenges in big deposition, integration, and translation due to complexity its production at unprecedented exponential rates. To address these problems, 2020, Korean...
Spatial transcriptomics holds great promise for revolutionizing biology and medicine by providing gene expression profiles with spatial information. Until recently, resolution has been limited, but advances in high-throughput situ imaging technologies now offer new opportunities covering thousands of genes at a single-cell or even subcellular resolution, necessitating databases dedicated to comprehensive coverage analysis user-friendly intefaces. We introduce the HISSTA database, which...
Abstract High-throughput screening based on CRISPR-Cas9 libraries has become an attractive and powerful technique to identify target genes for functional studies. However, accessibility of public data is limited due the lack user-friendly utilities up-to-date resources covering experiments from third parties. Here, we describe iCSDB, integrated database CRISPR using human cell lines. We compiled two major sources screening: DepMap portal BioGRID ORCS. itself that includes three large-scale...
Predictive biomarkers for patient stratification play critical roles in realizing the paradigm of precision medicine. Molecular characteristics such as somatic mutations and expression signatures represent primary source putative biomarker genes stratification. However, evaluation candidate is still cumbersome requires multistep procedures especially when using massive public omics data. Here, we present an interactive web application that divides patients from large cohorts (e.g. The Cancer...
Abstract Human pluripotent stem cell (hPSC)-derived organoids and cells have similar characteristics to human organs tissues. Thus, in vitro serve as a superior alternative conventional lines animal models drug development regenerative medicine. For simple reproducible analysis of the quality compensate for shortcomings existing experimental validation studies, quantitative evaluation method should be developed. Here, using GTEx database, we construct calculation system assess similarity...
Cancer cell lines are essential components for biomedical research. However, proper choice of experimental purposes is often difficult because genotype and/or expression data missing or scattered in diverse resources. Here, we report Gene Expression and Mutations Cell Lines (GEMiCCL), an online database human cancer that provides information. We have collected mutation, gene copy number variation (CNV) from three representative databases on lines—Cancer Line Encyclopedia , Catalogue Somatic...
The domestic dog, Canis lupus familiaris, is a companion animal for humans as well an model in cancer research due to similar spontaneous occurrence of cancers humans. Despite the social and biological importance dogs, catalogue genomic variations transcripts dogs relatively incomplete.We developed CanISO, new database hold large collection transcriptome profiles dogs. CanISO provides 87,692 novel transcript isoforms 60,992 known from whole sequencing canine tumors (N = 157) their matched...
Summary: Deep sequencing of small RNAs has become a routine process in recent years, but no dedicated viewer is as yet available to explore the sequence features simultaneously along with secondary structure and gene expression microRNA (miRNA). We present highly interactive application that visualizes alignment, normalized read counts synchronous multipanel windows. This helps users easily examine relationships between precursor sequences abundance final products thereby will facilitate...
Objectives The purpose of this study was to examine early childhood teachers' awareness and needs for media regulation education as the first step establish foundation education. Methods To achieve objective, survey conducted on 248 teachers working in 20 public kindergartens located B city, SPSS 25.0 program used analyze frequency percentage. Results results examining percentage according demographic characteristics are follows. First, degree shown be high, addiction highest among problems...
Objectives The purpose of this study was to examine parents' awareness and needs for early childhood media regulation education as the first step establish foundation education. Methods final subjects were parents 302 children enrolled in seven kindergartens located City B, including four public (two standalone two attached kindergartens) three private kindergartens. A survey conducted on their perceptions demands regarding children's literacy. data then analyzed using SPSS 25.0 program with...
Abstract Functional analyses of genes are crucial for unveiling biological responses, genetic engineering, and developing new medicines. However, functional have largely been restricted to model organisms, representing a major hurdle studies industrial applications. To resolve this, comparative genome can be used provide clues gene functions as well their evolutionary history. this end, we present Prometheus ( http://prometheus.kobic.re.kr ),web-based omics portal that contains more than...
본 연구는 유아교사의 유아 본성에 대한 이미지 분석을 통해서 다양한 유형을 탐색하고, 이미지의 의미를 살펴보는 것에 목적을 두었다. 이를 위해 연구대상인 유아교사 240명을 임의표집하여 선정하였고, 연구자는 이미지, 이미지에 설명을 작성할 수 있는 설문지를 제작한 후 자료를 수집하였다. 주요 연구결과를 살펴보면, 이미지는 진화적 본성, 창조적 탐구적 본능적 미지적 양면적 본성의 순으로 나타났다. 본성에는 씨앗과 새싹의 이미지가 많이 나타났고, 도화지와 백지, 유아와 물음표, 그리고 자연이, 사랑과 별이, 무지개와 물이, 천사와 악마, 양면색종이의 비율이 높게 통해 각각의 유형별 특성에 따른 유아교육에 기초하여 살펴본 후, 구체적인 실천방안에 대해 시사점을 도출하였다.
Abstract Links between cholesterol and cancer are well-documented, but the mechanisms remain unclear. Squalene epoxidase (SQLE), a key enzyme in biosynthesis degraded by excess cholesterol, is suggested as proto-oncogene. Paradoxically, we found reduced SQLE aggressive colorectal (CRC); low being associated with shortened survival of CRC patients. This was confirmed spontaneous metastasis mouse model where SL-15 reduction, either high-cholesterol regimen or genetic knockdown, strikingly...
Links between cholesterol and cancer are well-documented, but the mechanisms remain unclear. Squalene epoxidase (SQLE), a key enzyme in biosynthesis degraded by excess cholesterol, is suggested as proto-oncogene. Paradoxically, we found reduced SQLE aggressive colorectal (CRC); low being associated with shortened survival of CRC patients. This was confirmed spontaneous metastasis mouse model where SL-15 reduction, either high-cholesterol regimen or genetic knockdown, strikingly promotes...