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KMID : 0613820090190081159
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Journal of Life Science
2009 Volume.19 No. 8 p.1159 ~ p.1163
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In Silico Analysis of Gene Function and Transcriptional Regulators Associated with Endoplasmic Recticulum (ER) Stress
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Kim Tae-Min
Yeo Ji-Young
Park Chan-Sun
Rhee Moon-Soo
Jung Myeong-Ho
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Abstract
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It has been postulated that endoplasmic (ER) stress is involved in the development of several diseases. However, the detailed molecular mechanisms have not been fully understood. Therefore, we characterized a genetic network of genes induced by ER stress using cDNA microarray and gene set expression coherence analysis (GSECA), and identified gene function as well as several transcription regulators associated with ER stress. We analyzed time-dependent gene expression profiles in thapsigargin-treated Sk-Hep1 using an oligonucleotide expression chip, and then selected functional gene sets with significantly high expression coherence which was processed into functional clusters according to the expression similarities. The functions related to sugar binding, lysosome, ribosomal protein, ER lumen, and ER to golgi transport increased, whereas the functions with mRNA processing, DNA replication, DNA repair, cell cycle, electron transport chain and helicase activity decreased. Furthermore, functional clusters were investigated for the enrichment of regulatory motifs using GSECA, and several transcriptional regulators associated with regulation of ER-induced gene expression were found.
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KEYWORD
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Endoplasmic recticulum(ER) stress, gene expression microarray, gene set expressioncoherence analysis(GSECA), gene function, transcription regulator
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