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Sample GSM1465254 Query DataSets for GSM1465254
Status Public on Mar 09, 2017
Title PCa_K6
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 GSM4224485

Data table header descriptions
ID_REF
VALUE Log2 normalized intensity value

Data table
ID_REF VALUE
A_25_P00015264 13.60693063
A_25_P00011633 5.351016217
A_25_P00014956 5.589601437
A_25_P00011449 5.703934648
A_25_P00015155 5.559635502
A_25_P00013991 5.556161549
A_25_P00011357 5.583766372
A_25_P00012539 5.4637687
A_25_P00012520 5.517941886
A_25_P00011626 5.555171559
A_25_P00010708 5.437129884
A_25_P00011112 5.527473428
A_25_P00013618 5.438148302
A_25_P00010670 5.687442415
A_25_P00012491 5.527581095
A_25_P00015050 5.512830028
A_25_P00010807 5.657749022
A_25_P00012712 5.401406176
A_25_P00013670 5.52498666
A_25_P00011318 5.433625313

Total number of rows: 2689

Table truncated, full table size 70 Kbytes.




Supplementary file Size Download File type/resource
GSM1465254_miR-PCa_252182711939_S02_miRNA-v1_95_May07_2_2.txt.gz 2.0 Mb (ftp)(http) TXT
Processed data included within Sample table

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