NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM1904438 Query DataSets for GSM1904438
Status Public on May 12, 2016
Title RNA-Seq_mm_P21_ctrl [Sample 22]
Sample type SRA
 
Source name P21 IMP2fl/fl brain
Organism Mus musculus
Characteristics strain background: C57BL6
age: Postnatal week 15
genotype/variation: C57BL6 bckgrnd mice with IMP2 floxed/floxed integrated but not crossed to Nestin Cre line
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
Relations
BioSample SAMN04156669
SRA SRX1317337

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

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap