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Sample GSM4066098 Query DataSets for GSM4066098
Status Public on Aug 04, 2020
Title U5_wild type FAM118B rep2
Sample type SRA
Source name U5_wild type FAM118B
Organism Homo sapiens
Characteristics cell line: U5
cell type: human neural stem cell line
genotype/variation: pLJM1-wtFAM118B-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-wtFAM118B-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
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 SAMN12709286
SRA SRX6814123

Supplementary file Size Download File type/resource
GSM4066098_Sample_F2.txt.gz 104.9 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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