Gentamicin is a broad-spectrum aminoglycoside antibiotic used in the treatment of bacterial infection. Although side effects of gentamicin such as nephrotoxicity and ototoxicity have been investigated, the information on the hepatic effects of gentamicin is still limited. In the present study, gene ...
Gentamicin is a broad-spectrum aminoglycoside antibiotic used in the treatment of bacterial infection. Although side effects of gentamicin such as nephrotoxicity and ototoxicity have been investigated, the information on the hepatic effects of gentamicin is still limited. In the present study, gene expression profiles were analyzed in the liver of gentamicin treated mice using Affymetrix GeneChip$^{(R)}$ Mouse Expression 430A 2.0 Array. Totally, 400 genes were identified as being either up- or down-regulated over 1.5-fold changes (P<0.01) in the liver of gentamicin treated mice. Among these deregulated genes, 16 up-regulated genes mainly involved in transport (Kif5b, Pex14, Rab14, Clcn3, and Necap1) and 20 down-regulated genes involved in lipid and other metabolisms (Hdlbp, Gm2a, Uroc1, and Dak) were selected using k-means clustering algorithm. The functional classification of differentially expressed genes represented that several stress-related genes were regulated in the liver by gentamicin treatment. This data may contribute in understanding the molecular mechanism in the liver of gentamicin treated mice.
Gentamicin is a broad-spectrum aminoglycoside antibiotic used in the treatment of bacterial infection. Although side effects of gentamicin such as nephrotoxicity and ototoxicity have been investigated, the information on the hepatic effects of gentamicin is still limited. In the present study, gene expression profiles were analyzed in the liver of gentamicin treated mice using Affymetrix GeneChip$^{(R)}$ Mouse Expression 430A 2.0 Array. Totally, 400 genes were identified as being either up- or down-regulated over 1.5-fold changes (P<0.01) in the liver of gentamicin treated mice. Among these deregulated genes, 16 up-regulated genes mainly involved in transport (Kif5b, Pex14, Rab14, Clcn3, and Necap1) and 20 down-regulated genes involved in lipid and other metabolisms (Hdlbp, Gm2a, Uroc1, and Dak) were selected using k-means clustering algorithm. The functional classification of differentially expressed genes represented that several stress-related genes were regulated in the liver by gentamicin treatment. This data may contribute in understanding the molecular mechanism in the liver of gentamicin treated mice.
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문제 정의
For the hepatotoxicity, genomic approaches have been performed using many hepatotoxicants such as acetaminophen8, carbon tetrachloride9, tetracycline10, and amiodarone11. In this report, we describe the global gene expression patterns in the liver to understand the molecular mechanism of hepatic effects of gentamicin. Using Affymetrix GeneChip system, the gene expression profile at different dose- and time- points has been analyzed after administration of gentamicin.
제안 방법
Using Affymetrix GeneChip system, the gene expression profile at different dose- and time- points has been analyzed after administration of gentamicin. Genes that are differentially expressed according to the dose- and time- points were analyzed using hierarchical and k-means clustering and the functional classification of deregulated genes were also analyzed. In brief, we report on the gene expression profiling of hepatic response induced by gentamicin.
, USA) as described previously18. The preprocessing procedure of resultant cell intensity files (CEL) and following microarray analysis were performed using GenPlex software (Istech Inc., Korea). Data normalization was performed using quantile normalization.
데이터처리
The value of AST and ALT, biochemical markers of hepatotoxicity, were measured using Fuji Automated Clinical Chemistry Analyzer (Fujifilm, Japan). Average value was presented and statistical significance was calculated using two-tailed, unpaired t test for comparison between two groups. For histopathology, formalin-fixed liver tissues were embedded in paraffin, cut into 4-µm sections, and stained with hematoxylin and eosin (H&E), and analyzed by light microscopy.
Data normalization was performed using quantile normalization. The differentially expressed genes on each time point were selected based on statistical ANOVA test (P⁄0.01) and 1.5-fold change. The selected deregulated genes were analyzed by hierarchical clustering algorithm and the k-means partitioning clustering algorithm.
이론/모형
5-fold change. The selected deregulated genes were analyzed by hierarchical clustering algorithm and the k-means partitioning clustering algorithm. The functional classification of differentially expressed genes was performed based on GO database.
참고문헌 (18)
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