Dataset features

Specifications


Application: RNA-seq analysis
Number of samples: 15
Release date: May 31 2018
Last update date: Nov 19 2018
Access: Public
Diseases: Brain Neoplasms, Glioblastoma, Neoplasms
Dataset link The transition from proliferation to quiescence in glioblastoma stem-like cells requires Ca2+ signaling and mitochondria remodeling

Experimental Protocol


To establish RNA signatures of proliferative and quiescent GSLCs we have adopted the following strategy. Several experiments were performed in order to take into account different type of variabilities (Table S1); (1) Variability due to laboratories environments; experiments have been done in two laboratories ( Strasbourg and Toulouse) following identical protocols. The cells were obtained from the same master cell bank and the composition of the growing media was identical. (2) Cellular variability: two cell lines TG1 and OB1 were used. (3) Variability in inducing quiescence; the switch to quiescent state was obtained by either the non replacement of the medium during 9 days, acidification of the medium to pH 6.5 or 6.2 for 5 days or treatment of the cell by 10 µM SKF-96365 in the growing medium (pH 7.4) at day 1 and 3 and analysis at day 5. In normal medium at pH 7.4, the cells are in a proliferative state. Total RNA was extracted as described above and RNA quality was controlled with AATI Fragment Analyser (Advanced Analytical Technologies, Inc). RNA-seq was obtained from the IGBMC platform and the short reads were aligned using the reference genome hg38 (http://genomeast.igbmc.fr). The Qlucore software (http://www.qlucore.org) was used for the analysis.

Repositories


GEO

GSE93991

ENA

SRP097668

BioProject

PRJNA363017

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Contact


jacques h