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Sample GSM1465249 Query DataSets for GSM1465249
Status Public on Mar 09, 2017
Title PCa_F51
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
Reanalyzed by GSM4224481

Data table header descriptions
VALUE Log2 normalized intensity value

Data table
A_25_P00015264 13.59013336
A_25_P00011633 5.413812475
A_25_P00014956 5.475332363
A_25_P00011449 5.610726848
A_25_P00015155 5.52559573
A_25_P00013991 5.453883828
A_25_P00011357 5.62314962
A_25_P00012539 5.471263885
A_25_P00012520 5.540757446
A_25_P00011626 5.513928471
A_25_P00010708 5.462057153
A_25_P00011112 5.482222746
A_25_P00013618 5.459376047
A_25_P00010670 5.652299937
A_25_P00012491 5.491416966
A_25_P00015050 5.567854293
A_25_P00010807 5.742126125
A_25_P00012712 5.39958625
A_25_P00013670 5.558753971
A_25_P00011318 5.582488079

Total number of rows: 2689

Table truncated, full table size 70 Kbytes.

Supplementary file Size Download File type/resource
GSM1465249_miR-PCa_252182711939_S02_miRNA-v1_95_May07_1_1.txt.gz 2.0 Mb (ftp)(http) TXT
Processed data included within Sample table

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