Dataset features

Specifications


Application: Gene expression microarray analysis
Number of samples: 4
Release date: Jul 10 2012
Last update date: Nov 27 2018
Access: Public
Diseases: Neoplasms, von Willebrand Diseases
Chemicals: Androgens, Cysteine, Arachidonic Acid
Dataset link Characterization of FASN knockdown LNCaP cells

Experimental Protocol


Total RNA isolation was performed with a Micro-to-Midi total RNA purification system (Invitrogen). The integrity of total RNAs was evaluated using an Agilent 2100 Bioanalyzer (Agilent Technologies). Low Input Quick Amp Labeling Kit, one-color (Agilent Technologies) was used to prepare Cy3-labelled target cRNA according to the manufacturer's instructions. Labeled cRNAs were hybridized with a SurePrint G3 Human GE 8×60K Microarrays (Agilent Technologies). Two separate hybridizations were performed for each sample. Array images were captured using a DNA Microarray Scanner (Agilent Technologies), and data were analyzed using Feature Extraction Software (Agilent Technologies) to obtain background-corrected signal intensities. The data were further analysed with GeneSpring GX Software (Version 11.0, Agilent Technologies). After filtering of data, mRNAs differentially expressed in target versus control were considered using the Fisher exact test, followed by multiple corrections using the Benjamini and Hochberg false discovery rate (FDR) method. Gene sets with a FDR q-value < 0.05 were considered significant.

Repositories


GEO

GSE39183

ArrayExpress

E-GEOD-39183

BioProject

PRJNA170175

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Contact


Yukie Yoshii