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| Status |
Public on Feb 27, 2012 |
| Title |
Prostatic Stromal Cell Gene Expression |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by array
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| Summary |
We generated prostatic stromal microarray expression data for functional validation of our LOH/AI hot-/cold-spots in stroma. Stromal cells from normal peripheral zone tissue and from tumors are grown in culture, and were analyed on gene expression platform.
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| Overall design |
Stromal cells cultured from normal peripheral zone tissues (F-PZ-64, F-PZ-79, F-PZ-82, F-PZ-102, F-PZ-105) and from tumors (F-CA-31, F-CA-39, F-CA-52, F-CA-67, F-CA-93) were established and grown as previously described in Peehl et al. (2000). Total RNAs were extracted from semi-confluent cells (passages 4-5) one day after feeding fresh medium using RNeasy Mini Kit (Qiagen) according to the manufacturer’s instructions and treated with TURBO DNA-free kit (Ambion). Hybridizations were performed according to Illumina protocols by the Genomic Core, Lerner Research Institute, Cleveland Clinic. All samples were hybridized to the Illumina Sentrix Human-6_v3 Expression BeadChip (GPL6884) which contains 48,000 distinct oligonucleotide probes. Normalization is done using average normalization algorithm of BeadStudio Gene Expression Module v3.4 (Illumina).
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| Contributor(s) |
Ashida S, Orloff MS, Bebek G, Zhang L, Zheng P, Peehl DM, Eng C |
| Citation(s) |
22275508 |
| Submission date |
Dec 09, 2011 |
| Last update date |
Feb 18, 2019 |
| Contact name |
Gurkan Bebek |
| Organization name |
Case Western Reserve Univ.
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| Street address |
10900 Euclid Ave
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| City |
Cleveland |
| State/province |
OH |
| ZIP/Postal code |
44106 |
| Country |
USA |
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| Platforms (1) |
| GPL6884 |
Illumina HumanWG-6 v3.0 expression beadchip |
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| Samples (20)
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| Relations |
| BioProject |
PRJNA151507 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE34312_RAW.tar |
6.3 Mb |
(http)(custom) |
TAR |
| GSE34312_non-normalized.txt.gz |
4.0 Mb |
(ftp)(http) |
TXT |
| GSE34312_normalized.txt.gz |
1.0 Mb |
(ftp)(http) |
TXT |
| GSE34312_readme.txt.gz |
294 b |
(ftp)(http) |
TXT |
| Processed data included within Sample table |
| Processed data are available on Series record |
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