A5084605098- Bacteriophages and microbial interactions
- RNA and protein synthesis mechanisms
- Bacterial Genetics and Biotechnology
- RNA modifications and cancer
- Monoclonal and Polyclonal Antibodies Research
- Molecular Biology Techniques and Applications
- Systemic Lupus Erythematosus Research
- DNA and Nucleic Acid Chemistry
- RNA Interference and Gene Delivery
- Genomics and Chromatin Dynamics
- RNA Research and Splicing
- Rheumatoid Arthritis Research and Therapies
- DNA Repair Mechanisms
- Cancer-related molecular mechanisms research
- Biochemical and Molecular Research
- Cytokine Signaling Pathways and Interactions
- interferon and immune responses
- Immune Cell Function and Interaction
- Protein purification and stability
- CRISPR and Genetic Engineering
- NF-κB Signaling Pathways
- T-cell and B-cell Immunology
- ATP Synthase and ATPases Research
- Virus-based gene therapy research
- Cancer Research and Treatments
Korea Advanced Institute of Science and Technology
2015-2024
Korea Research Institute of Standards and Science
2016
Dankook University
2014
Taoyuan Chang Gung Memorial Hospital
2012
Atatürk University
2011
Korea Research Institute of Bioscience and Biotechnology
2010
National Institutes of Health
2009
Baylor College of Medicine
2005
Sequenom (United States)
2000
Boston University
2000
Abstract The first decision made by an angiosperm seed, whether to germinate or not, is based on integration of various environmental signals such as water and light. phytochromes (Phys) act red far-red light (Pfr) photoreceptors mediate signaling through yet uncharacterized pathways. We report here that the PIF3-like 5 (PIL5) protein, a basic helix-loop-helix transcription factor, key negative regulator phytochrome-mediated seed germination. PIL5 preferentially interacts with Pfr forms...
Anticitrullinating autoantibodies are specific markers for rheumatoid arthritis (RA). A functional haplotype of 4 exonic single-nucleotide polymorphisms (SNPs) in a citrullinating enzyme, peptidylarginine deiminase (PADI4), was shown to be associated with susceptibility RA Japanese population and increase the stability PADI4 messenger RNA. However, association not confirmed subsequent studies involving Caucasian patients living UK, French population, Spanish population. The aim current study...
We aimed to test whether polymorphisms in the etanercept target genes TNFA and LTA are associated with clinical responses therapy RA patients.Clinical of 70 patients treated were determined according ACR criteria. genotyped 13 single-nucleotide (SNPs) within tested they influenced 12 weeks therapy. Univariate multivariate analyses performed compare allele, genotype haplotype distributions between responders non-responders.Association -857C/T SNP at promoter was marginally significant when...
We propose a novel, efficient and intuitive approach of estimating mRNA abundances from the whole transcriptome shotgun sequencing (RNA-Seq) data. Our method, NEUMA (Normalization by Expected Uniquely Mappable Area), is based on effective length normalization using uniquely mappable areas gene isoform models. Using known sequence model such as RefSeq, pre-computes numbers all possible gene-wise isoform-wise informative reads: former being sequences mapped to isoforms single exclusively...
Abstract Purpose: Genetic polymorphisms of DNA repair genes seem to determine the capacity, which in turn may affect risk breast cancer. To evaluate role genetic cancer, we conducted a hospital-based case-control study Korean women. Experimental Design: We included 872 incident cancer cases and 671 controls recruited from several teaching hospitals Seoul 1995 2002. Twelve loci selected were genotyped by matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (XRCC2...
Significance RNA molecules fold into functional structures as they are being synthesized by transcription. Here, we developed a single-molecule fluorescence resonance energy transfer (FRET) assay that permits real-time monitoring of the cotranscriptional folding molecules. This FRET makes it possible to carry out controlled studies two main physical mechanisms regulate folding: transcriptional pausing and speed.
Abstract Rho is a general transcription termination factor in bacteria, but many aspects of its mechanism action are unclear. Diverse models have been proposed for the initial interaction between RNA polymerase (RNAP) and (catch-up stand-by pre-terminational models); terminational release transcript (RNA shearing, RNAP hyper-translocation or displacing, allosteric post-terminational outcome (whether dissociates remains bound to DNA). Here, we use single-molecule fluorescence assays study...
Objective Interferon-gamma (IFNG) is a type II interferon playing diverse roles in innate and adaptive immune systems. Elevated expression of IFNG has been associated with systemic lupus erythematosus (SLE). This study examined the association polymorphisms SLE susceptibility. Methods Five tag single-nucleotide (SNP) eight variations all known regulatory sequences affecting within around were genotyped 1759 unrelated Korean subjects. susceptibility was assessed by comparing 742 patients 1017...
<h3>Objectives</h3> To identify novel genetic candidates for systemic lupus erythematosus (SLE) in the Korean population, and to validate risk loci SLE identified previous genome-wide association studies (GWAS). <h3>Methods</h3> We performed a GWAS 400 female patients 445 controls. Selected single-nucleotide polymorphisms (SNP) were then replicated an independent cohort of 385 583 controls (replication 1), further 811 1502 2). <h3>Results</h3> In phase, rs9275428 located near <i>HLA-DQB1</i>...
We propose a simple, sensitive measure of synonymous codon usage bias, the Relative Codon Adaptation Index (rCAI), as way to discriminate better between highly biased and unbiased regions, compared with widely used (CAI). CAI is geometric mean relative codons in gene, calculated using table trained set expressed genes. In contrast, rCAI computed by subtracting background two noncoding frames genes from coding frame. has higher signal-to-noise ratio than CAI, considering that would not show...
Systemic lupus erythematosus (SLE) is a heterogeneous autoimmune disease with significant immune system aberrations resulting from complex heritable genetics as well environmental factors. We undertook to study the role of TRAF6 candidate gene for SLE, since it plays major in several signaling pathways that are important immunity and organ development.Fifteen single-nucleotide polymorphisms (SNPs) across were evaluated 7,490 SLE patients 6,780 control subjects different ancestries....
Despite extensive studies on transcription mechanisms, it is unknown how termination complexes are disassembled, especially in what order the essential components dissociate. Our single-molecule fluorescence study unveils that RNA transcript release precedes polymerase (RNAP) dissociation from DNA template much more often than their concurrent dissociations intrinsic of bacterial transcription. As defined by product complex, subsequent retention RNAP constitutes a previously unidentified...
Abstract Objective Recent genome‐wide association scans and replication studies of European populations have disclosed several single‐nucleotide polymorphisms (SNPs) associated with rheumatoid arthritis (RA) susceptibility. The aim this study was to evaluate the RA‐associated loci by genotyping previously reported SNPs additional tag in a Korean population. Methods A total 1,316 unrelated RA patients 1,006 controls were genotyped for 12 identified IL2RB, OLIG3–TNFAIP3, PTPN22, TRAF1–C5,...
Background. Cytochrome P450 3A (CYP3A) and the drug transporter P-glycoprotein (P-gp) affect bioavailability of tacrolimus, most commonly used immunosuppressive agent in organ transplant recipients. We have determined genotypic frequencies CYP3A ATP-binding cassette sub-family B member 1 (ABCB1) genes, which encode P-gp proteins, respectively, Korean recipients donors, assessed influence ABCB1 polymorphisms on tacrolimus concentrations. Methods. Using chip-based MALDI-TOF mass spectrometry,...
Human mitochondrial transcription factor A (TFAM) has been implicated in promoting tumor growth and invasion. TFAM activates DNA (mtDNA) transcription, affects nuclear gene expression through retrograde signaling. In this study, we investigated the effects of depletion on morphology transcriptome MKN45 gastric cancer cells. Morphology alteration became visible at 12 h after knockdown: proportion growth-arrested polygonal cells versus oval-shaped increased, reaching a half-maximum 24...
Abstract Transcriptional pause is essential for all types of termination. In this single-molecule study on bacterial Rho factor-dependent terminators, we confirm that the three Rho-dependent termination routes operate compatibly together in a single terminator, and discover their efficiencies depend terminational pauses unexpected ways. Evidently, most abundant route binds nascent RNA first catches up with paused polymerase (RNAP) catch-up mediates simultaneous releases transcript template...
Abstract Objective Anti–cyclic citrullinated peptide (anti‐CCP) antibodies are rheumatoid arthritis (RA)–specific serologic markers. RA susceptibility has been associated with HLA–DRB1 shared epitope (SE) alleles and single‐nucleotide polymorphism (SNP) haplotypes in the peptidyl arginine deiminase 4 gene ( PADI4 ). This study was undertaken to determine whether anti‐CCP levels and/or SE Korean patients RA. Methods Three nonsynonymous SNPs (padi4_89, padi4_90, padi4_92) were genotyped, serum...