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Sample GSM2461748 Query DataSets for GSM2461748
Status Public on May 02, 2018
Title Rela replicate 2
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 Rela replicate 2
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
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
BioSample SAMN06237988
SRA SRX2500351

Supplementary file Size Download File type/resource
GSM2461748_raw_RELA_2_data.txt.gz 66.9 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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