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Sample GSM433216 Query DataSets for GSM433216
Status Public on Mar 07, 2012
Title miRNA expression analysis in PC3, biological replicate 1
Sample type RNA
 
Source name Late prostate cancer cell line PC3
Organism Homo sapiens
Characteristics cell line: PC3
tumor: prostate cancer
tumor stage: late
Extracted molecule total RNA
Extraction protocol Trizol extraction of total RNA was performed according to the manufacturer's instructions.
Label Cy5
Label protocol 1µg microRNA was Cy-5-labeled using the Mirus Bio Label IT miRNA Labeling Kit according to the manufacturer`s protocol
 
Hybridization protocol according to CombiMatrix miRNA microarray hybridization protocol
Scan protocol Arrays were scanned using a GenePix 4200 Scanner and the GenePix Pro 6.1 Software (Molecular Devices) with following settings: laser power: 40%, PMT: 500, resolution: 5µm, Focus: 85µm.
Description miRNA expression analysis in late prostate cancer cell line PC3.
Data processing The data were analyzed with R (version 2.9.0) and BioConductor (version 2.4). Expression levels were normalized (quantile normalization) and a linear model was fitted using the R package limma in order to identify differentially expressed miRNAs. Reliable variance estimations were obtained by empirical Bayes moderated t-statistics. False discovery rate was controlled by Benjamini-Hochberg adjustment.
 
Submission date Jul 24, 2009
Last update date Mar 07, 2012
Contact name Kristin Reiche
E-mail(s) kristin.reiche@izi.fraunhofer.de
Organization name Fraunhofer Institute for Cell Therapy and Immunology
Department Diagnostics
Street address Perlickstr. 1
City Leipzig
ZIP/Postal code 04103
Country Germany
 
Platform ID GPL8899
Series (2)
GSE17317 miRNA expression in LNCaP, PC3, Du-145 and RWPE-1 cell lines
GSE17362 miRNA expression, mRNA expression upon miRNA reconstitution, and direct mRNA target identification in prostate cancer cell lines

Data table header descriptions
ID_REF
VALUE Quantile-normalized value

Data table
ID_REF VALUE
hsa|let-7a|2mut|as|_ArraySector1 11.1178765199209
hsa|let-7a|nat|as|_ArraySector1 15.7045071711949
hsa|let-7b|2mut|as|_ArraySector1 11.1170501743056
hsa|let-7b|nat|as|_ArraySector1 14.4727142887169
hsa|let-7c|2mut|as|_ArraySector1 10.4689921578738
hsa|let-7c|nat|as|_ArraySector1 14.6852315247918
hsa|let-7d|2mut|as|_ArraySector1 10.3911798841938
hsa|let-7d|nat|as|_ArraySector1 15.8711988585729
hsa|let-7e|2mut|as|_ArraySector1 10.3048705563948
hsa|let-7e|nat|as|_ArraySector1 13.8595639791090
hsa|let-7f|2mut|as|_ArraySector1 9.6140998343659
hsa|let-7f|nat|as|_ArraySector1 13.7575628578891
hsa|let-7g|2mut|as|_ArraySector1 9.4302821745712
hsa|let-7g|nat|as|_ArraySector1 12.2582789227827
hsa|let-7i|2mut|as|_ArraySector1 9.5361639938218
hsa|let-7i|nat|as|_ArraySector1 12.9072516573007
hsa|miR-100|2mut|as|_ArraySector1 10.0678538232561
hsa|miR-100|nat|as|_ArraySector1 15.8711988585729
hsa|miR-101|2mut|as|_ArraySector1 10.3384136907160
hsa|miR-101|nat|as|_ArraySector1 10.7318492359795

Total number of rows: 3760

Table truncated, full table size 186 Kbytes.




Supplementary file Size Download File type/resource
GSM433216.gpr.gz 931.8 Kb (ftp)(http) GPR
Processed data included within Sample table
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