| Experiment ID | EXP00207 |
| Reference | Title: Identifying microRNA-mRNA regulatory network in colorectal cancer by acombination of expression profile and bioinformatics analysis. Author: Fu J, Tang W, Du P, Wang G, Chen W, Li J, Zhu Y, Gao J, Cui L. Journal: BMC Syst Biol. 2012 Jun 15;6:68. doi: 10.1186/1752-0509-6-68. Abstract: BACKGROUND: MicroRNAs (miRNAs) are involved in carcinogenesis and tumorprogression by regulating post-transcriptional gene expression. However, themiRNA-mRNA regulatory network is far from being fully understood. The objectiveof this study is to identify the colorectal cancer (CRC) specific miRNAs andtheir target mRNAs using a multi-step approach.RESULTS: A multi-step approach combining microarray miRNA and mRNA expressionprofile and bioinformatics analysis was adopted to identify the CRC specificmiRNA-mRNA regulatory network. First, 32 differentially expressed miRNAs and 2916mRNAs from CRC samples and their corresponding normal epithelial tissues wereidentified by miRNA and mRNA microarray, respectively. Secondly, 22 dysregulated miRNAs and their 58 target mRNAs (72 miRNA-mRNA pairs) were identified by acombination of Pearson's correlation analysis and prediction by databasesTargetScan and miRanda. Bioinformatics analysis revealed that these miRNA-mRNAspairs were involved in Wnt signaling pathway. Additionally, 6 up-regulated miRNAs(mir-21, mir-223, mir-224, mir-29a, mir-29b, and mir-27a) and 4 down-regulatedpredicted target mRNAs (SFRP1, SFRP2, RNF138, and KLF4) were selected to validatethe expression level and their anti-correlationship in an extended cohort of CRC patients by qRT-PCR. Except for mir-27a, the differential expression and theiranti-correlationship were proven. Finally, a transfection assay was performed to validate a regulatory relationship between mir-29a and KLF4 at both RNA andprotein levels.CONCLUSIONS: Seventy-two miRNA-mRNA pairs combined by 22 dysregulated miRNAs and their 58 target mRNAs identified by the multi-step approach appear to be involvedin CRC tumorigenesis. The results in our study were worthwhile to furtherinvestigation via a functional study to fully understand the underlyingregulatory mechanisms of miRNA in CRC. PMID: 22703586 |
| Expressiion Profile | Description: Identifying microRNA-mRNA regulatory networks in colorectal cancer by a combination of expression profile and bioinformatics analysis Organism: Homo sapiens GEO ID: GSE35982 Platform: GPL14767 Number of samples: 32 |
| Design and Sample | Cancer Type: colorectal cancer Cancer SubType: N/D Cell Line: N/D Experimental Design: cancer vs normal Case Sample: colorectal cancer Control Sample: normal colorectal tissue Num of Case: 8 Num of Control: 8 Quantification Software: Limma Num of miRNAs: 851 |
| Identification | Num of Up: 34 Num of Down: 23 |