Dataset features

Specifications


Application: Gene expression microarray analysis
Number of samples: 6
Release date: Feb 5 2007
Last update date: Jul 1 2016
Access: Public
Diseases: Brain Damage, Chronic, Rett Syndrome
Chemicals: 5-Methylcytosine
Dataset link Expression in Superior Frontal Gyrus of normal individuals or females of different ages affected by Rett syndrome

Experimental Protocol


samples of the Superior Frontal Gyrus from normal and RTT patients of different ages were obtained from the Krieger Research Institute and the Harvard Brain Tissue Ressource Center. Samples from RTT-affected girls (2-4, 6 and 8 year-old) were compared with aged-matched normal brain tissue (2, 5 and 10 year-old). To ensure the quality of hybridization , labeled RNA was hybridized to a Test Array containing probe sets for all Affymetrix Expression Array controls. Background, noise, average Avg Diff, and ratio of Avg Diff values for probe sets representing the 5’ and 3’ ends of actin and GAPDH transcripts were used to determine target quality. Targets that did not meet empirically determined cut-off values within the project were remade. Quality tested samples were then hybridized to the HU_U95Av2 array. Quality-tested samples were then hybridized in the HU_U95Av2 array containing 12,625 human probes.

Repositories


GEO

GSE6955

ArrayExpress

E-GEOD-6955

BioProject

PRJNA99317

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Contact


Valerie Matagne
Vivianne Deng