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Sample GSM4066118 Query DataSets for GSM4066118
Status Public on Aug 04, 2020
Title naïve (no injection) rep1
Sample type SRA
 
Source name Naïve (no injection) in normal cortex
Organism Mus musculus
Characteristics tissue: mouse brain tumor
genotype/variation: naive; normal
Extracted molecule total RNA
Extraction protocol RNA was extracted from cell cultures every two weeks during the exponential growth phase; RNA was isolated from 0.5-1.0×10^6 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 2000
 
Description Naive1
Data processing Sequencing was performed using an Illumina HiSeq 2000 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 STAR2 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 Sep 06, 2019
Last update date Aug 06, 2020
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 GPL13112
Series (2)
GSE137039 Comparison of tumor-associated YAP1 fusions identifies a recurrent set of functions critical for oncogenesis [mouse RNA-seq]
GSE137040 Comparison of tumor-associated YAP1 fusions identifies a recurrent set of functions critical for oncogenesis
Relations
BioSample SAMN12709266
SRA SRX6814143

Supplementary file Size Download File type/resource
GSM4066118_Sample_Naive1.txt.gz 102.1 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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