Detail
Experiment ID:
EXP00062
Reference:
- Title: MicroRNA profiling of clear cell renal cell cancer identifies a robust signature to define renal malignancy.
- Author: Jung M, Mollenkopf HJ, Grimm C, Wagner I, Albrecht M, Waller T, Pilarsky C, Johannsen M, Stephan C, Lehrach H, Nietfeld W, Rudel T, Jung K, Kristiansen G
- Journal: Journal of cellular and molecular medicine.2009 Sep ;13(9B):3918-28.doi:10.1111/j.1582-4934.2009.00705.x.
- Abstract: MicroRNAs are short single-stranded RNAs that are associated with gene regulation at the transcriptional and translational level. Changes in their expression were found in a variety of human cancers. Only few data are available on microRNAs in clear cell renal cell carcinoma (ccRCC). We performed genome-wide expression profiling of microRNAs using microarray analysis and quantification of specific microRNAs by TaqMan real-time RT-PCR. Matched malignant and non-malignant tissue samples from two independent sets of 12 and 72 ccRCC were profiled. The microarray-based experiments identified 13 over-expressed and 20 down-regulated microRNAs in malignant samples. Expression in ccRCC tissue samples compared with matched non-malignant samples measured by RT-PCR was increased on average by 2.7- to 23-fold for the hsa-miR-16, -452*, -224, -155 and -210, but decreased by 4.8- to 138-fold for hsa-miR-200b, -363, -429, -200c, -514 and -141. No significant associations between these differentially expressed microRNAs and the clinico-pathological factors tumour stage, tumour grade and survival rate were found. Nevertheless, malignant and non-malignant tissue could clearly be differentiated by their microRNA profile. A combination of miR-141 and miR-155 resulted in a 97% overall correct classification of samples. The presented differential microRNA pattern provides a solid basis for further validation, including functional studies.
- PMID: 19228262
Expression Profile:
- Description:Array-based miRNA Profiling of Clear Cell Renal Cell Cancer
- Organism:Homo sapiens
- Source:GEO
- Source ID:GSE12105
- Platform: GPL6955
- Number of samples:24
- Overall design:The study was performed with two independent sample sets. For each set 12 kidney tissue sample pairs were derived from adult patients undergoing radical nephrectomy at the University Hospital Charité. All tumor types were clear renal cell carcinoma. Tumor classification and stage were established according to the 2002 TNM System and the 2004 WHO Classification. Matched malignant (#NC (e.g. 2NC)) and non-malignant (#NN (e.g. 1NN)) tissue samples from two independent 12 ccRCC sets were profiled.
- Instrument:Agilent-016436 Human miRNA Microarray 1.0 (Feature Number version)
Design and Sample:
- Cancer Type:kidney cancer
- Cancer SubType:clear cell renal cell carcinoma
- Cell Line:N/A
- Experimental Design:cancer vs normal
- Case Sample:clear cell renal cell carcinoma
- Control Sample:normal kidney
- Num of Case:12
- Num of Control:12
- Quantification Software:Limma
- Num of miRNAs:355
Identification:
- Num of Up:60
- Num of Down:36
Time Info:
- Create Time2016-03-14
- Update Time:2021-05-27
Status:
| miRNA ID | Cancer Type | Design | logFC | AveExpr | T value | P value | adj Pvalue | Status | Plot |
|---|