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Sample GSM4222605 Query DataSets for GSM4222605
Status Public on Aug 04, 2020
Title GFP rep5
Sample type SRA
Source name cell line
Organism Homo sapiens
Characteristics cell line: U5
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-GFP-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 Dec 17, 2019
Last update date Aug 04, 2020
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 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
BioSample SAMN13614861
SRA SRX7397543

Supplementary file Size Download File type/resource
GSM4222605_GFP_2.txt.gz 107.4 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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