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Sample GSM4066116 Query DataSets for GSM4066116
Status Public on Aug 04, 2020
Title U5_S94A YAP1-FAM118B rep2
Sample type SRA
 
Source name U5_S94A YAP1-FAM118B
Organism Homo sapiens
Characteristics cell line: U5
cell type: human neural stem cell line
genotype/variation: pLJM1-S94A-YAP1-FAM118B-PGK-Puro
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 2000
 
Description U5 neural stem cells transduced with pLJM1-S94A-YAP1-FAM118B-PGK-Puro rep 2
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 hg19 assembly using STAR2 and counted for gene associations against the UCSC genes database with HTSeq
Genome_build: hg19
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 GPL11154
Series (2)
GSE137038 Comparison of tumor-associated YAP1 fusions identifies a recurrent set of functions critical for oncogenesis[RNASeq]
GSE137040 Comparison of tumor-associated YAP1 fusions identifies a recurrent set of functions critical for oncogenesis
Relations
BioSample SAMN12709268
SRA SRX6814141

Supplementary file Size Download File type/resource
GSM4066116_Sample_94YF2.txt.gz 104.6 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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