Dataset features

Specifications


Application: Gene expression microarray analysis
Number of samples: 11
Release date: May 16 2015
Last update date: Aug 13 2018
Access: Public
Diseases: Breast Neoplasms
Chemicals: Estrogens
Dataset link Identification of KDM3A regulated genes in the ER positive breast cancer cell line MCF-7

Experimental Protocol


MCF-7 cells were transfected with either a non-silencing scrambled control siRNA (siSCR) or a KDM3A targeting siRNA (siKDM3A-B) using Lipfectamine RNAiMAX (Invitrogen) to a final concentration of 25 nM in steroid depleted conditions. Cells were grown for 48 hours prior to treatment with vehicle or 10 nM E2 for 4 hours before RNA extraction using TRIzol (Ambion, Life Technologies) and hybridization of triplicate samples to an Illumine HT-12 v4 BeadChip array. One sample failed due to low amounts of cRNA and was therefore not included in the analysis (siKDM3A + E2 Replicate 3). The array for replicates 1 and 2 was performed in August 2013 (Array 1) and replicate 3 in August 2014 (Array 2). When processing the data Array 2 was normalized to Array 1.

Repositories


GEO

GSE68918

ArrayExpress

E-GEOD-68918

BioProject

PRJNA284106

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Contact


Mark Wade
Mark A Wade

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