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Sample GSM1465237 Query DataSets for GSM1465237
Status Public on Mar 09, 2017
Title PCa_CC41
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 GSM4224470

Data table header descriptions
ID_REF
VALUE Log2 normalized intensity value

Data table
ID_REF VALUE
A_25_P00015264 13.73375697
A_25_P00011633 5.373906373
A_25_P00014956 5.470702896
A_25_P00011449 5.470657372
A_25_P00015155 5.48309218
A_25_P00013991 5.545178306
A_25_P00011357 5.648743815
A_25_P00012539 5.521989301
A_25_P00012520 5.631725503
A_25_P00011626 5.394829048
A_25_P00010708 5.367514621
A_25_P00011112 5.469980336
A_25_P00013618 5.557042039
A_25_P00010670 5.693630189
A_25_P00012491 5.360836807
A_25_P00015050 5.343720625
A_25_P00010807 5.9612218
A_25_P00012712 5.455596369
A_25_P00013670 5.333227563
A_25_P00011318 5.31945671

Total number of rows: 2689

Table truncated, full table size 70 Kbytes.




Supplementary file Size Download File type/resource
GSM1465237_miR-PCa_252182711581_S01_miRNA-v1_95_May07_2_1.txt.gz 2.0 Mb (ftp)(http) TXT
Processed data included within Sample table

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