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Sample GSM1904437 Query DataSets for GSM1904437
Status Public on May 12, 2016
Title RNA-Seq_mm_ED15_KO [Sample 21]
Sample type SRA
Source name ED15 IMP2fl/fl nestin cre brain
Organism Mus musculus
Characteristics strain background: C57BL6
age: Embryonic day 15
genotype/variation: IMP2 floxed/floxed but crossed to Nestin Cre (i.e part of IMP2 is removed from the genome in tissues with Nestin expression)
tissue: brain
Growth protocol NeuroCult NSC Basal Medium (ref. 05700, Stemcell Technologies) supplemented with 10% Neurocult NSC Proliferation Supplement (ref. 05701, Stemcell Technologies) and 20ng/mL EGF
Extracted molecule polyA RNA
Extraction protocol Total RNA extraction kit Exiqon, on colum DNASE treatment (Qiagen)
Illumina polyA stranded
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NextSeq 500
Description processed data: RNA_brain_IMP2_KO.txt
Data processing Genomic alignment with TopHat 2.0.12, --b2-very-sensitive --library-type fr-firststrand --b2-N 1
Differential expression calling with edgeR 3.10.2 and R 3.2.0
Genome_build: mm9
Supplementary_files_format_and_content: tab-delimited textfile containing the raw readcounts, normalized cpm and gene fold-changes
Submission date Oct 08, 2015
Last update date May 15, 2019
Contact name Tommy Beat Schlumpf
Organization name ETH Z├╝rich
Department D-BSSE
Lab Paro
Street address Mattenstrasse 26
City Basel
State/province Basel-Stadt
ZIP/Postal code 4058
Country Switzerland
Platform ID GPL19057
Series (2)
GSE73845 Functional characterization of RNA-binding protein IMP2 in primary Glioma cell lines [HTS]
GSE73847 Functional characterization of RNA-binding protein IMP2 in primary Glioma cell lines
BioSample SAMN04156668
SRA SRX1317336

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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