A5088879960- Genomics and Phylogenetic Studies
- Identification and Quantification in Food
- Epigenetics and DNA Methylation
- RNA modifications and cancer
- Cancer-related gene regulation
- Aquaculture disease management and microbiota
- Chromosomal and Genetic Variations
- Genetic diversity and population structure
- RNA Research and Splicing
- Gene expression and cancer classification
- Ichthyology and Marine Biology
- Cancer-related molecular mechanisms research
- Bioinformatics and Genomic Networks
- Cancer, Hypoxia, and Metabolism
- RNA and protein synthesis mechanisms
- Molecular Biology Techniques and Applications
- Cancer Genomics and Diagnostics
- Telomeres, Telomerase, and Senescence
- Genetics and Neurodevelopmental Disorders
- Microbial Community Ecology and Physiology
- Parasite Biology and Host Interactions
- Genetic Syndromes and Imprinting
- Liver physiology and pathology
- Galectins and Cancer Biology
- Gene Regulatory Network Analysis
Korea University
2012-2021
Korea Research Institute of Bioscience and Biotechnology
2005-2018
Insilicogen (South Korea)
2017-2018
University of Tübingen
2015
Chungnam National University Hospital
2012
Inha University
2011
University of Science and Technology
2011
Korea University of Science and Technology
2011
Hôpital Beaujon
2011
Helmholtz Centre for Infection Research
2011
Some oncogenes such as ERBB2 and EGFR are over-expressed in only a subset of patients. Cancer outlier profile analysis is one computational approaches to identify outliers gene expression data. A database with large sample size would be great advantage when searching for genes patients.GENT (Gene Expression Normal Tumor tissues) web-accessible that provides patterns across diverse human cancer normal tissues. More than 40000 samples, profiled by Affymetrix U133A or U133plus2 platforms many...
Skeletal muscle degenerates progressively, losing mass (sarcopenia) over time, which leads to reduced physical ability and often results in secondary diseases such as diabetes obesity. The regulation of gene expression by microRNAs is a key event development disease. To understand genome-wide changes mRNAs during aging, we sequenced from mouse gastrocnemius muscles at two different ages (6 24 months). Thirty-four (15 up-regulated 19 down-regulated) were differentially expressed with age,...
DNA methylation and hydroxymethylation have been implicated in normal development differentiation, but our knowledge is limited about the genome-wide distribution of 5-methylcytosine (5 mC) 5-hydroxymethylcytosine hmC) during cellular differentiation. Using an vitro model system gradual differentiation human embryonic stem (hES) cells into ventral midbrain-type neural precursor terminally dopamine neurons, we observed dramatic changes 5 mC hmC patterns lineage commitment. The pattern was...
A large-scale, genome-wide association study was performed to identify genetic variations influencing serum bilirubin levels using 8841 Korean individuals. Significant associations were observed at UGT1A1 (rs11891311, P = 4.78 x 10(-148)) and SLCO1B3 (rs2417940, 1.03 10(-17)), which are two previously identified loci. The single-nucleotide polymorphisms (SNPs) replicated 3.18 10(-15)) or marginally significant 8.56 10(-4)) in an independent cohort of 1096 In a conditional analysis adjusted...
Simple Sequence Repeats (SSRs) represent short tandem duplications found within all eukaryotic organisms. To examine the distribution of SSRs in genome Brassica rapa ssp. pekinensis, from different genomic regions representing 17.7 Mb sequence were surveyed. appear more abundant non-coding (86.6%) than coding (13.4%). Comparison SSR densities demonstrated that density was greatest 5'-flanking predicted genes. The proportion repeat motifs varied between regions, with trinucleotide prevalent...
Long intergenic non-coding RNAs (lincRNAs) have historically been ignored in cancer biology. However, thousands of lincRNAs identified mammals using recently developed genomic tools, including microarray and high-throughput RNA sequencing (RNA-seq). Several the well characterized for their functions carcinogenesis. Here we performed RNA-seq experiments comparing gastric with normal tissues to find differentially expressed transcripts regions. By analyzing our own public data, 31 transcripts,...
The Popeye domain-containing ( POPDC ) genes BVES , POPDC2 and POPDC3 encode proteins that regulate cell–cell adhesion cell migration during development. Herein, we report the frequent downregulation of by promoter hypermethylation in gastric cancer. expression 11 cancer lines 96 paired tumor normal adjacent tissues was analyzed with quantitative reverse transcription–polymerase chain reaction. methylation status methylated DNA immunoprecipitation sequencing, bisulfite sequencing...
Abstract DNA methylation is a regulatory mechanism in epigenetics that frequently altered during human carcinogenesis. To detect critical events associated with gastric cancer (GC), we compared three methylomes from mucosa (GM), intestinal metaplasia (IM), and tumor (GT) cells were microscopically dissected an intestinal-type early (EGC) using methylated binding domain sequencing (MBD-seq) reduced representation bisulfite (RRBS) analysis. In this study, focused on differentially promoters...
The complete nucleotide sequence of the mitochondrial genome from R. uyekii with a total size 16,817 bp has been determined by long PCR technology. Mitogenome encoding 13 putative proteins, two ribosomal RNAs and 22 tRNAs shows typical teleost mitogenome structure. Nucleotide composition, amino acid composition codon usage are in range values estimated other mitogenomes. In AT rich region uyekii, several conserved blocks which identified vertebrates observed genome. Korean endemic species,...
Asthma, a heterogeneous disease of the airways, is common around world, but little known about molecular mechanisms underlying interactions between DNA methylation and gene expression in relation to this disease. The seeds Descurainia sophia are traditionally used treat coughs, asthma edema, their effects on have not been investigated by multi-omics analysis. We undertook study assess epigenetic ethanol extract D. (DSE) an ovalbumin (OVA)-induced mouse model asthma. profiled genome-wide...
Objective To determine the association of meteorological factors and air pollutants (MFAPs) with fracture to estimate effect size/time lag. Design This is a nationwide population-based ecological study from 2008 2017. Setting Eight large metropolitan areas in Korea. Participants Of 8 093 820 patients fractures reported Korea National Health Insurance database, 2 129 955 were analysed after data set containing patient (age, sex site fractures) merged MFAPs. Data on obtained Climate Center...
Jin-Young Lee, Won Park, Hyunjoong Kim, Hong Seok Tae-Wook Kang, Dong-Hun Shin, Kyung Su Yoon Kyeong Seon-Young Ji Hwan Park & Young-Joon Kim. BMB Reports -0001;0:. https://doi.org/10.5483/BMBRep.2023-0155
Abstract Background Copy number variations (CNVs) are deletions, insertions, duplications, and more complex ranging from 1 kb to sub-microscopic sizes. Recent advances in array technologies have enabled researchers identify a of CNVs normal individuals. However, the identification new has not yet reached saturation, diverse populations remain be discovered. Results We identified 65 copy variation regions (CNVRs) 116 Korean individuals by analyzing Affymetrix 250 K Nsp whole-genome SNP data....
Hepatocytes that have differentiated from human embryonic stem cells (hESCs) great potential for the treatment of liver disease as well drug testing. Moreover, in vitro hepatogenesis is a powerful model system studying molecular mechanisms underlying development. DNA methylation an important epigenetic mechanism influences differential gene expression during We profiled and three cell states hepatogenesis—hESC, definitive endoderm hepatocyte—using microarray analysis. Among 525...
Pleuronectidae is a well-studied familyin the order Pleuronectiformes. In contrast, genetic research on flatfish Acanthopsetta nadeshnyi of family limited. This study reports complete mitogenome A. nadeshnyi. The was 17,206 bases long and included 13 protein-coding genes (PCGs), 22 transfer RNA (tRNA) genes, two ribosomal (rRNA) putative control region. Phylogenetic analysis based nucleotide sequences PCGs confirmed that belongs to family.
Abstract Background In the study of adaptive evolution, it is important to detect protein coding sites where natural selection acting. general, ratio rate non-synonymous substitutions (Ka) synonymous (Ks) used estimate either negative or positive for an entire gene region interest. However, since each amino acid in a has different function and structure, type strength may be acid. Specifically, domain on are indicative structurally functionally sites. Therefore, Window-sliding tools can...
Strain IMCC2047 was isolated from the Yellow Sea using dilution-to-extinction culturing. The strain shown to occupy a distinct phylogenetic position within Gammaproteobacteria. Here we present genome sequence of IMCC2047, which harbors genes for various metabolic pathways, including proteorhodopsin and ribulose bisphosphate carboxylase.