A5038023246- Lung Cancer Treatments and Mutations
- Lung Cancer Research Studies
- Lung Cancer Diagnosis and Treatment
- Epigenetics and DNA Methylation
- Genomics and Phylogenetic Studies
- RNA modifications and cancer
- Gene expression and cancer classification
- Molecular Biology Techniques and Applications
- Bioinformatics and Genomic Networks
- Cancer-related gene regulation
- RNA and protein synthesis mechanisms
- Genomics and Chromatin Dynamics
- Crustacean biology and ecology
- Cancer Genomics and Diagnostics
- Aquaculture disease management and microbiota
- Aquaculture Nutrition and Growth
- Ferroptosis and cancer prognosis
- Cellular transport and secretion
- Mechanisms of cancer metastasis
- Human-Animal Interaction Studies
- Vitamin K Research Studies
- CRISPR and Genetic Engineering
- Zebrafish Biomedical Research Applications
- Rabies epidemiology and control
- RNA Research and Splicing
Korea Research Institute of Bioscience and Biotechnology
2015-2024
Korea University of Science and Technology
2012-2019
Gene Expression database of Normal and Tumor tissues 2 (GENT2) is an updated version GENT, which has provided a user-friendly search platform for gene expression patterns across different normal tumor compiled from public data sets. We refactored GENT2 with recent technologies such as Apache Lucene indexing fast Google Web Toolkit (GWT) framework web interface. Now, contains more than 68,000 samples several new useful functions. First, now provides 72 compared to 57 in GENT. Second,...
Understanding complex relationships among heterogeneous biological data is one of the fundamental goals in biology. In most cases, diverse are stored relational databases, such as MySQL and Oracle, which store multiple tables then infer by multiple-join statements. Recently, a new type database, called graph-based was developed to natively represent various kinds relationships, it widely used computer science communities IT industries. Here, we demonstrate feasibility using database for...
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...
Loss of functional β-cell mass is an essential feature type 2 diabetes, and maintaining mature identity important for preserving a mass. However, it unclear how β-cells achieve maintain their identity. Here we demonstrate novel function protein arginine methyltransferase 1 (PRMT1) in Prmt1 knockout fetal adult induced which was aggravated by high-fat diet–induced metabolic stress. Deletion resulted the immediate loss histone H4 3 asymmetric dimethylation (H4R3me2a) subsequent The expression...
Abstract During the last decade, generation and accumulation of petabase-scale high-throughput sequencing data have resulted in great challenges, including access to human data, as well transfer, storage, sharing enormous amounts data. To promote data-driven biological research, Korean government announced that all generated from government-funded research projects should be deposited at Korea BioData Station (K-BDS), which consists multiple databases for individual types. Here, we introduce...
Abstract Never-smoker lung adenocarcinoma (NSLA) is prevalent in Asian populations, particularly women. EGFR mutations and anaplastic lymphoma kinase (ALK) fusions are major genetic alterations observed NSLA, NSLA with these have been well studied can be treated targeted therapies. To provide insights into the molecular profile of without ALK (NENA), we selected 141 tissues performed proteogenomic characterization, including whole genome sequencing (WGS), transcriptomic, methylation EPIC...
The giant freshwater prawn, Macrobrachium rosenbergii, a sexually dimorphic decapod crustacean is currently the world's most economically important cultured species. Despite its economic importance, there lack of genomic resources available for this species, and has limited exploration molecular mechanisms that control M. rosenbergii sex-differentiation system more widely in prawns. Here, we present first hybrid transcriptome from applying RNA-Seq technologies directed at identifying genes...
Nowadays, huge volumes of chromatin immunoprecipitation-sequencing (ChIP-Seq) data are generated to increase the knowledge on DNA-protein interactions in cell, and accordingly, many tools have been developed for ChIP-Seq analysis. Here, we provide an example a streamlined workflow analysis composed only four packages Bioconductor: dada2, QuasR, mosaics, ChIPseeker. 'dada2' performs trimming high-throughput sequencing data. 'QuasR' 'mosaics' perform quality control mapping input reads...
Although pioneering sequencing projects have shed light on the boxer and poodle genomes, a number of challenges need to be met before annotation dog genome can considered complete. Here, we present DNA sequence Jindo genome, sequenced 45-fold average coverage using Illumina massively parallel technology. A comparison reference led identification 4 675 437 single nucleotide polymorphisms (SNPs, including 3 346 058 novel SNPs), 71 642 indels 8131 structural variations. Of these, 339...
Abstract Previous studies have reported that vitamin C (VC) promotes neural stem/precursor cell (NSC) differentiation toward dopamine (DA) neurons via DNA hydroxymethylation-induced transcriptional activation of DA neuron-specific genes. To further understand the VC effects on NSC differentiation, we profiled transcriptome and methylome/hydroxymethylome using high-throughput sequencing. Interestingly, RNA sequencing analyses shown that, in addition to neuronal genes, astrocytic genes Gfap,...
Amphibians and fish show considerable regeneration potential via dedifferentiation of somatic cells into blastemal cells. In terms dedifferentiation, in vitro cellular reprogramming has been proposed to share common processes with vivo tissue regeneration, although the details are elusive. Here, we identified cytoskeletal linker protein desmoplakin (Dsp) as a factor mediating both regeneration. Our analysis revealed that Dsp expression is elevated distinct intermediate during reprogramming....
Understanding the mechanisms of cancer drug resistance is a critical challenge in therapy. For many drugs, various have been identified such as target alteration, alternative signaling pathways, epithelial-mesenchymal transition, and epigenetic modulation. Resistance may arise via multiple even for single drug, making it necessary to investigate independent models comprehensive understanding therapeutic application. In particular, we hypothesize that different processes result distinct gene...
The stepwise development of T cells from a multipotent precursor is guided by diverse mechanisms, including interactions among lineage-specific transcription factors (TFs) and epigenetic changes, such as DNA methylation hydroxymethylation, which play crucial roles in mammalian lineage commitment. To elucidate the transcriptional networks mechanisms underlying T-cell commitment, we investigated genome-wide changes gene expression, hydroxymethylation populations representing five successive...
Protein arginine methyltransferase 1 (PRMT1) is a major enzyme responsible for the formation of methylarginine in mammalian cells; however, its function vivo not well understood due to early embryonic lethality null mice exhibiting spontaneous DNA damage, cell cycle delays, and defects check point activation. Here, we generated germ cell-specific Prmt1 knock-out (KO) evaluate PRMT1 spermatogenesis. Our findings demonstrate that vital male fertility mice. Spermatogenesis KO was arrested at...
Pathological changes in the epigenetic landscape of chromatin are hallmarks cancer. Our previous study showed that global methylation promoters may increase or decrease during transition from gastric mucosa to intestinal metaplasia (IM) cancer (GC). Here, CpG hypomethylation serine/threonine kinase STK31 promoter IM and GC was detected a reduced representation bisulfite sequencing database. hypomethylation, which resulted its upregulation 120 cases primary GC, confirmed. Using public...
Abstract During the last decade, generation and accumulation of petabase-scale high-throughput sequencing data have resulted in ethical technical challenges, including access to human data, transfer, storage, sharing enormous amount data. To promote data-driven research biology, Korean government announced that all biological generated from government-funded projects should be deposited Korea BioData Station (K-BDS), which consists multiple databases for individual types. We introduce...
<p>Supplementary Figure 1</p>
<div>Abstract<p>Never-smoker lung adenocarcinoma (NSLA) is prevalent in Asian populations, particularly women. <i>EGFR</i> mutations and anaplastic lymphoma kinase (<i>ALK</i>) fusions are major genetic alterations observed NSLA, NSLA with these have been well studied can be treated targeted therapies. To provide insights into the molecular profile of without <i>ALK</i> (NENA), we selected 141 tissues performed proteogenomic characterization,...
<p>Table S12</p>
<p>Table S7</p>
<p>Table S6</p>
<p>Table S8</p>