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| Status |
Public on Sep 29, 2013 |
| Title |
Digital gene expression (DGE) sequencing of 10 pairs samples between kidney normal tissue and cancer tissue |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
we combined their genome-wide profiles of tumors and normal adjacent tissues in 10 ccRCC patients. The results showed that 283 miRNAs were down-regulated and 187 up-regulated, meanwhile 7473 mRNAs were up-regulated and 3439 down-regulated in ccRCC. Expressions of 12 miRNAs and genes were validated in 10 patients we studied by RT-qPCR (validation rate from 60% to 100%). Differentially expressed gene analysis showed the collective change of miR-200 and SLC22A gene family, and pathway analysis revealed down-regulation of multiple metabolic pathways and up-regulation of focal adhesion, ECM-receptor interaction, etc. Moreover, A miRNA cluster located in chromosome Xq27.3 were significantly down-regulated in ccRCC, which were verified in 53 ccRCC patients by RT-qPCR (validation rate from 63.8% to 88.6%).56 and 586 potentially novel miRNAs and mRNA we detected according to statistical analyses. In addition, 14 miRNA candidates were randomly selected to validate using qRT-PCR and Sanger sequcencing technology, 10 of out 14 could be successfully amplified,.Plus, the sequences of all 5 randomly selected amplified products were confirmed by cloned Sanger sequencing.Our data demonstrated a combined profiling of miRNAs and mRNAs in ccRCC, which showed the decreased metabolism and the perturbation of renal cell function. Moreover, this study identified the expression alteration of a miRNA cluster on Xq27.3, which suggested its potential function in carcinogenesis of ccRCC
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| Overall design |
Examination of 10 pairs of kidney normal cells and cancer cells .
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| |
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| Contributor(s) |
Chen J, Li Z |
| Citation(s) |
21253009 |
| Submission date |
Sep 30, 2010 |
| Last update date |
May 15, 2019 |
| Contact name |
JACK LI |
| E-mail(s) |
lizhizhong@genomics.org.cn
|
| Organization name |
beijing genomics insititute
|
| Street address |
beishangongyequ
|
| City |
shenzhen |
| ZIP/Postal code |
518083 |
| Country |
China |
| |
|
| Platforms (1) |
| GPL9115 |
Illumina Genome Analyzer II (Homo sapiens) |
|
| Samples (20)
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| This SubSeries is part of SuperSeries: |
| GSE24952 |
Integrated profiling of microRNAs and mRNAs: microRNAs located on Xq27.3 associate with clear cell renal cell carcinoma |
|
| Relations |
| SRA |
SRP003901 |
| BioProject |
PRJNA133499 |
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