NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM1465236 Query DataSets for GSM1465236
Status Public on Mar 09, 2017
Title PCa_CC35
Sample type RNA
 
Source name Prostate cancer
Organism Homo sapiens
Characteristics tissue: prostate adenocarcinoma
gender: male
population: Caucasian
Treatment protocol NA
Growth protocol NA
Extracted molecule total RNA
Extraction protocol Total RNA was isolated following standard TriReagent protocol (Sigma-Aldrich) and DNase treatment was performed (TURBO DNase-free, Life Technologies). Total RNA quality and quantity were checked by means of Bioanalyzer (Agilent Technologies) and NanoDrop ND-1000 Spectrophotometer (Thermo Scientific), respectively.
Label Cy3
Label protocol MiRNA expression profiling was carried out using the one-colour labelling method. Labelling, hybridization, washing and slide scanning were performed following the manufacturer's protocol (Agilent Technologies). Briefly, 100 ng of total RNA were dephosphorylated and denaturated; then a ligation and labeling step with Cy3 was performed.
 
Hybridization protocol Samples were hybridized to oligonucleotide glass arrays with sequences representing probes for 866 human and 89 human viral miRNAs from the Sanger miRBase (release 12.0) (Human miRNA Microarray V3, Agilent Technologies). After 20 hours, slides were washed and scanned.
Scan protocol Slides were scanned with the dual-laser Agilent scanner G2505B.
Description Prostate adenocarcinoma from Caucasian men.
Data processing The LIMMA (LInear Models for Microarray Analysis) package was used to analyze miRNA expression profiles in normal prostates and prostate cancer tissues. Raw intensity values were background subtracted (method = subtract with an offset of 20) and normalized using the quantile method. Duplicated probes were averaged.
 
Submission date Aug 05, 2014
Last update date Dec 18, 2019
Contact name Paola Ostano
Organization name Fondazione Edo ed Elvo Tempia
Street address via Malta 3
City Biella
ZIP/Postal code 13900
Country Italy
 
Platform ID GPL13264
Series (2)
GSE60117 miRNA expression profiling of prostate cancer (PCa) and normal prostatic samples
GSE60371 miR-424 induces COP1 silencing and STAT3 activation in prostate cancer: a novel miRNA-dependent axis driving tumor progression
Relations
Reanalyzed by GSM4224469

Data table header descriptions
ID_REF
VALUE Log2 normalized intensity value

Data table
ID_REF VALUE
A_25_P00015264 13.25664786
A_25_P00011633 5.340289688
A_25_P00014956 5.555689514
A_25_P00011449 5.291291591
A_25_P00015155 5.336322285
A_25_P00013991 5.442524805
A_25_P00011357 5.452572801
A_25_P00012539 5.557417276
A_25_P00012520 5.578874668
A_25_P00011626 5.520279307
A_25_P00010708 5.392984808
A_25_P00011112 5.453509738
A_25_P00013618 5.417842448
A_25_P00010670 5.593099168
A_25_P00012491 5.423563992
A_25_P00015050 5.295894449
A_25_P00010807 6.063231642
A_25_P00012712 5.44701042
A_25_P00013670 5.452016376
A_25_P00011318 5.434329022

Total number of rows: 2689

Table truncated, full table size 70 Kbytes.




Supplementary file Size Download File type/resource
GSM1465236_miR-PCa_252182711581_S01_miRNA-v1_95_May07_1_4.txt.gz 2.0 Mb (ftp)(http) TXT
Processed data included within Sample table

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap