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Sample GSM829429 Query DataSets for GSM829429
Status Public on Sep 22, 2014
Title NPCth2_RNASeq
Sample type SRA
Source name SVZ derived Neural Progenitor Cells cultured in Th2 conditions
Organism Mus musculus
Characteristics cell type: Neural Progenitor Cells
strain: SJL
culturing conditions: Th2 cytokines supplemented medium (10 ng/ml recombinant murine IL-4, R&D; 10 ng/ml recombinant mouse IL-5, R&D; 10 ng/ml recombinant mouse IL-13, R&D)
Treatment protocol NPCs were plated in complete growth medium (CGM) with or without either Th1 (500 IU/ml recombinant mouse IFN-γ, BD Biosciences; 200 UI/ml recombinant mouse TNF-α, Pepro Tech Inc.; 100 UI/ml recombinant mouse IL-1β, Euroclone) or Th2 (10 ng/ml recombinant murine IL-4, R&D; 10 ng/ml recombinant mouse IL-5, R&D; 10 ng/ml recombinant mouse IL-13, R&D) cytokine mixes for 16 hours in vitro, as described (Pluchino et al., 2008). At the end of the conditioning, NPCs were harvested and the supernatants processed for the collection of either MVs or EXOs.
Growth protocol NPCs lines were prepared from the subventricular zone (SVZ) of 7-12 week old female SJL mice (18-20 gr. Charles River), as described (Pluchino et al., Nature, 2005).
Extracted molecule polyA RNA
Extraction protocol RNA purity and integrity was firstly confirmed by BioAnalyzer (Agilent,). Deep sequencing of the isolated polyA RNA was performed by Eastern Sequence and Informatics Hub (EASIH; University of Cambridge, UK) on the Illumina GAIIx platform (Illumina, CA) according to the Illumina RNA-Seq protocol.
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina Genome Analyzer IIx
Data processing Reads were mapped to the mouse genome (mm9) using Tophat. Transcripts were then assembled using Cufflinks using UCSC annotation as reference.
Submission date Nov 07, 2011
Last update date May 15, 2019
Contact name Stefano Pluchino
Organization name University of Cambridge
Department Brain Repair Centre
Lab Pluchino laboratory
Street address Forvie Site, Robinson Way
City Cambridge
ZIP/Postal code CB2 0PY
Country United Kingdom
Platform ID GPL11002
Series (1)
GSE33527 Extracellular vesicles from neural stem cells transfer IFN-γ via Ifngr1 to activate Stat1 signalling in target cells
Reanalyzed by GSE80797
SRA SRX104905
BioSample SAMN00750285

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data not provided for this record

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