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| Status |
Public on Oct 31, 2016 |
| Title |
Next Generation Sequencing of small non-coding RNAs in the tissue of patients with renal cell carcinoma |
| Organism |
Homo sapiens |
| Experiment type |
Non-coding RNA profiling by high throughput sequencing
|
| Summary |
Non-coding RNAs play an important role in the pathogenesis of human malignancies. So far, microRNAs have been investigated in detail in clear cell renal cell carcinoma, but the knowledge about other small non-coding RNAs like snoRNA, tRNA and piRNA remains small. There is increasing evidence that these non-coding RNAs are also involved in regulation of gene expression, and we therefore performed small RNA sequencing in a cohort of 18 corresponding normal and malignant tissue samples from patients with clear cell renal cell carcinoma. We observed differential expression of microRNAs, but also some dysregulated tRNA and snoRNA in clear cell renal cell carcinoma tissue
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| Overall design |
small RNA expression profiling in clear cell renal cell carcinoma and corresponding normal renal tissues samples
Please note that each 'ccRCC' sample is followed by the corresponding normal renal tissue sample. For example, the '2014_001_002' is the corresponding normal tissue for '2014_001_001' ccRCC sample, except the last two samples 2014_001_028 and 2014_001_029 are listed in an inverse order.
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| |
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| Contributor(s) |
Ellinger J, Nientiedt M, Schmidt D, Deng M |
| Citation(s) |
27883021 |
| Submission date |
Sep 22, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Jörg Ellinger |
| E-mail(s) |
joerg.ellinger@ukb.uni-bonn.de
|
| Organization name |
Universitätsklinikum Bonn
|
| Department |
Urologie
|
| Street address |
Sigmund-Freud-Straße 25
|
| City |
Bonnn |
| State/province |
NRW |
| ZIP/Postal code |
53127 |
| Country |
Germany |
| |
|
| Platforms (1) |
| GPL18573 |
Illumina NextSeq 500 (Homo sapiens) |
|
| Samples (36)
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|
| Relations |
| BioProject |
PRJNA296713 |
| SRA |
SRP064011 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE73342_annex_3_phase1_miRNA_read_counts.txt.gz |
18.0 Kb |
(ftp)(http) |
TXT |
| GSE73342_annex_3_phase2_miRNA_read_counts.txt.gz |
35.3 Kb |
(ftp)(http) |
TXT |
| GSE73342_annex_4_phase1_isomiR_read_counts.txt.gz |
2.2 Kb |
(ftp)(http) |
TXT |
| GSE73342_annex_4_phase2_isomiR_read_counts.txt.gz |
1.3 Mb |
(ftp)(http) |
TXT |
| GSE73342_annex_5_phase1_normalized_miRNA_expression_data.txt.gz |
36.7 Kb |
(ftp)(http) |
TXT |
| GSE73342_annex_5_phase2_normalized_miRNA_expression_data.txt.gz |
75.9 Kb |
(ftp)(http) |
TXT |
| GSE73342_annex_6_phase1_tRNA_read_counts.txt.gz |
6.0 Kb |
(ftp)(http) |
TXT |
| GSE73342_annex_6_phase2_tRNA_read_counts.txt.gz |
6.7 Kb |
(ftp)(http) |
TXT |
| GSE73342_annex_7_phase1_piRNA_read_counts.txt.gz |
8.1 Kb |
(ftp)(http) |
TXT |
| GSE73342_annex_7_phase2_piRNA_read_counts.txt.gz |
8.8 Kb |
(ftp)(http) |
TXT |
| GSE73342_annex_8_phase1_normalized_tRNA_expression_data.txt.gz |
13.2 Kb |
(ftp)(http) |
TXT |
| GSE73342_annex_8_phase2_normalized_tRNA_expression_data.txt.gz |
12.4 Kb |
(ftp)(http) |
TXT |
| GSE73342_annex_9_phase1_normalized_piRNA_expression_data.txt.gz |
9.2 Kb |
(ftp)(http) |
TXT |
| GSE73342_annex_9_phase2_normalized_piRNA_expression_data.txt.gz |
9.6 Kb |
(ftp)(http) |
TXT |
| GSE73342_readme.txt |
2.1 Kb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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