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Sample GSM2461755 Query DataSets for GSM2461755
Status Public on May 02, 2018
Title CRKR replicate 1
Sample type SRA
 
Source name tissue
Organism Mus musculus
Characteristics tissue: supratentorial ependymoma
Extracted molecule total RNA
Extraction protocol RNA was extracted from cell cultures every two weeks during the exponential growth phase; RNA was isolated from 0.5-1.0×106 cells. Total RNA was prepared using RNeasy Mini Kit with DNase I (Qiagen). RNA concentration and quality (A260/A280) was measured using a NanoDrop 1000 Spectrophotometer (Thermo Scientific)
RNA libraries were prepared for sequencing using standard Illumina protocols
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2500
 
Description CRKR replicate 1
Data processing Sequencing was performed using an Illumina HiSeq 2500 in Rapid Run mode and employed a paired-end, 50 base read length (PE50) sequencing strategy.
RNA-seq reads were aligned to the UCSC mm10 assembly using Tophat2 and counted for gene associations against the UCSC genes database with HTSeq
Genome_build: mm10
Supplementary_files_format_and_content: tab-delimited text files include raw values for each Sample.
 
Submission date Jan 18, 2017
Last update date May 15, 2019
Contact name Sonali Arora
E-mail(s) sarora@fredhutch.org
Organization name FHCRC
Street address 1100 Fairview Ave N,
City Seattle
State/province WA
ZIP/Postal code 98109
Country USA
 
Platform ID GPL17021
Series (1)
GSE93765 A de novo mouse model of C11orf95-RELA fusion-driven ependymoma identifies driver functions in addition to NFκB
Relations
BioSample SAMN06237981
SRA SRX2500358

Supplementary file Size Download File type/resource
GSM2461755_raw_CRKR_1_data.txt.gz 66.7 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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