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Sample GSM3602163 Query DataSets for GSM3602163
Status Public on Feb 13, 2019
Title OVK18_WRN3A
Sample type SRA
 
Source name OVK18
Organism Homo sapiens
Characteristics cell line: OVK18
sgrna transduction: sgWRN3
replicate: A
Treatment protocol Cas9 expressing SW48 and OVK18 cells were transduced with indicated sgRNA 72 hours before harvesting
Extracted molecule total RNA
Extraction protocol Total RNA was purified according to the Qiagen RNeasy Mini Kit protocol
Libraries were prepared using Roche Kapa mRNA Hyper sample preparation kits from 100ng of purified total RNA according to the manufacturer’s protocol
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NextSeq 500
 
Data processing Data was processed using Illumina Bcl2fastq v2.18 
Sequencing reads were aligned to hg19 reference genome using STAR (v2.5) 
Raw gene counts were generated from STAR output and normalized RPKM counts were generated using cufflinks v2.2.1
Genome_build: hg19
Supplementary_files_format_and_content: comma seperated value (CSV) files for all samples. STAR_Gene_Counts.csv reports raw counts. Cuff_Gene_Counts.csv reports FPKM.
 
Submission date Feb 12, 2019
Last update date Feb 13, 2019
Contact name Edmond Chan
E-mail(s) Edmond_Chan@dfci.harvard.edu
Phone 6262789224
Organization name Dana Farber Cancer Institute
Street address 450 Brookline Ave
City Boston
State/province MA
ZIP/Postal code 02215
Country USA
 
Platform ID GPL18573
Series (1)
GSE126464 WRN knockout effects upon gene expression in SW48 and OVK18
Relations
BioSample SAMN10921934
SRA SRX5369699

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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