Dataset features

Specifications


Application: Gene expression microarray analysis, miRNA array analysis
Number of samples: 216
Release date: Dec 1 2010
Last update date: May 15 2017
Access: Public
Diseases: Breast Neoplasms
Dataset link Molecular Characterization of Breast Cancer Subtypes from Joint Analysis of High Throughput miRNA and mRNA Data (II)

Experimental Protocol


miRNA profiling from 101 breast cancer samples was performed. Experiments were mostly performed using duplicate hybridizations (99 samples) on different arrays and time points. Two samples were profiled only once. miRNA signal intensities for replicate probes were averaged across the platform, log2 transformed and normalized to the 75 percentile. miRNA expression status was scored as present or absent for each gene in each sample by default settings in FE v9.5. miRNAs in samples that were run in replicates were considered present if scored in one of the two arrays. mRNA profiling from 115 breast cancer samples was performed. Replicates not included. Four new arrays were added in this version with 115 samples versus the one with 114 samples (GSE19536). For samples 34, 107 and 185, a new array replaces the old one, generally with only small differences in values. Sample 391 is added to the 115 sample dataset. Replicates not included.

Repositories


GEO

GSE19783

ArrayExpress

E-GEOD-19783

BioProject

PRJNA122111

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Contact


Hilde Johnsen

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