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Series GSE33123 Query DataSets for GSE33123
Status Public on Nov 26, 2012
Title Comparison of microarray platforms for measuring differential microRNA expression (Miltenyi data)
Platform organism synthetic construct
Sample organism Homo sapiens
Experiment type Non-coding RNA profiling by array
Summary Microarray technology applied to miRNA profiling is a promising tool in many research fields. At present, only few studies have addressed intra- and inter-platform reproducibility by using tissues/cell-lines of different origin to maximize differences in miRNA content. Although the approach might provide an useful system to address technical issues since, for sure, a huge modulation can be evaluated, it does not reflect the common experimental practice in laboratory. As a matter of fact, from all these studies it is not know how concordant can be expected the results obtained by different platforms starting from biological meaningful specimens. We investigated the issue of inter-platform reproducibility using four miRNA microarray platforms and nine paired tumor/normal colon tissues.
The tumor and the normal counter-part samples were prospectively collected from 9 patients who underwent surgical resection at the INT-MI. Neoplastic samples were obtained from the central area of the neoplasia, avoiding to select necrotic material or transition zones with healthy mucosa. Samples of colonic healthy mucosa were resected at least 20 centimeters far from the neoplasia and distant from the surgical resection margins. Tissue samples were stored in liquid nitrogen until RNA extraction. Total RNA was extracted from 10–20 mg of tumor samples and from 30–40 mg of normal samples.
 
Overall design Nine paired tumor/normal colon tissues on Miltenyi miRXplore Microarray.
 
Contributor(s) De Cecco L, Callari M
Citation(s) 23028787
Submission date Oct 20, 2011
Last update date Nov 26, 2012
Contact name Loris De Cecco
E-mail(s) loris.dececco@istitutotumori.mi.it
Organization name IRCSS Istituto Nazionale Tumori
Street address via Venezian 1
City Milan
ZIP/Postal code 20133
Country Italy
 
Platforms (1)
GPL14766 miRXplore TM Microarray version5.0 (according to miRBase 14.0)
Samples (18)
GSM820458 C1 (Mitenyi data)
GSM820459 C2 (Mitenyi data)
GSM820460 C3 (Mitenyi data)
This SubSeries is part of SuperSeries:
GSE33127 Comparison of microarray platforms for measuring differential microRNA expression
Relations
BioProject PRJNA156589

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE33123_Miltenyi_miR_norm.txt.gz 89.5 Kb (ftp)(http) TXT
GSE33123_RAW.tar 5.4 Mb (http)(custom) TAR (of GPR)
Processed data included within Sample table

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