Dataset features

Specifications


Application: Gene expression microarray analysis
Number of samples: 6
Release date: Sep 16 2015
Last update date: May 11 2017
Access: Public
Diseases: Neurodegenerative Diseases
Genes: CD44, MSI1, POU5F1, TNF
Dataset link Inflammation promotes a conversion of astrocytes into neural progenitor cells via NF-kB activation

Experimental Protocol


Cultures of primary mouse astrocytes were treated with TNF (50 ng/mL) for 24 hours. Cells were collected and immediately homogenized in cooled down RNA NOW reagent (OZYME). Total RNA was extracted according to RNA NOW manufacturer's recommendations with -20C overnight incubation for small RNA precipitation. Total RNA integrity and purity were assessed using the Agilent 2100 Bioanalyzer and RNA 6000 Nano LabChip kits (Agilent Technologies). Only good-quality RNA (no contamination or degradation, RIN > 9) was used and further processed. Total RNA samples were reverse-transcribed to double-stranded cDNA using specific primers, which reduce the priming of rRNA. cRNA was generated by in vitro transcription and reverse transcribed into a sense single-stranded cDNA. The cDNA was fragmented, labeled, and hybridized onto Affymetrix GeneChip Mouse Gene 1.0 ST Arrays according to the Ambion Whole Transcript Expression kit for Affymetrix GeneChip Whole Transcript Expression Array Protocol (P/N 4425209 Rev.B 05/2009) and GeneChip WT Terminal Labeling and Hybridization User Manual for use with the Ambion Whole Transcript Expression kit (P/N 702808 Rev.6). Microarrays were then washed, stained, and scanned according to the manufacturer's instructions. The samples cover two conditions (TNF and Control), with three replicates per condition.

Repositories


GEO

GSE73022

ArrayExpress

E-GEOD-73022

BioProject

PRJNA295986

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Contact


Enrico Glaab
Luc Grandbarbe

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