SungMin Rhee

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MOTIVATION Gene clusters are arrangements of functionally related genes on a chromosome. In bacteria, it is expected that evolutionary pressures would conserve these arrangements due to the functional advantages they provide. Visualization of conserved gene clusters across multiple genomes provides key insights into their evolutionary histories. Therefore,(More)
DNA methylation is an epigenetic modification of DNA that adds a methyl group to cytosine. Aberrant DNA methylation in the CpG context is frequently observed in cancer cells and it is known that aberrant DNA methylation silences tumor repressor genes. However, the mechanism of DNA methylation is not well understood. A widely accepted hypothesis is that DNA(More)
MOTIVATION It is now well established that microRNAs (miRNAs) play a critical role in regulating gene expression in a sequence-specific manner, and genome-wide efforts are underway to predict known and novel miRNA targets. However, the integrated miRNA-mRNA analysis remains a major computational challenge, requiring powerful informatics systems and(More)
A breast cancer subtype classification scheme, PAM50, based on genetic information is widely accepted for clinical applications. On the other hands, experimental cancer biology studies have been successful in revealing the mechanisms of breast cancer and now the hallmarks of cancer have been determined to explain the core mechanisms of tumorigenesis. Thus,(More)
Drought-stress can cause major economic loss and is a serious issue to address in agriculture. Defining the molecular pathways in how a plant responds to drought-stress may prove valuable in developing new drought-resistant plants. In this study, we identified several novel drought-responsive regulatory coding and noncoding transcripts in rice, Oryza sativa(More)
As more genomic and epigenomic data becomes available, it has become possible to construct biological networks from the omics data. Among the biological networks, understanding gene regulatory mechanisms is a very important research problem that can reveal condition-specific, e.g., disease-specific, gene regulatory mechanisms. In this paper, we review the(More)
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