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Sample GSM3772969 Query DataSets for GSM3772969
Status Public on May 18, 2019
Title AAV6_BG_HPRT rep2
Sample type SRA
 
Source name DNA donor template, AAV6 based vector, version 2
Organism Homo sapiens
Characteristics tissue: blood
cell type: CD34+ PBSCs
treatment: AAV6_BG_HPRT
Extracted molecule total RNA
Extraction protocol Cells were resuspended in RLT buffer+ β-ME following manufacture protocol (RNEasy Micro kit, Qiagen, Venlo, Netherlands), and snap frozen in LN2 to be stored at -80ºC until RNA extraction (RNEasy Micro kit, Qiagen, Venlo, Netherlands)
RNA-Seq libraries were prepared using the Universal Plus mRNA-Seq kit (NuGEN Technologies Redwood City, CA)
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 3000
 
Description cpm.txt
AAV6_BG_HPRT.2
Data processing RNA sequencing reads were aligned to the reference mouse genome (hg38) using STAR (Dobin et al., 2013).
Raw expression levels were quantified for all annotated genes (Ensembl 92).
Raw expression levels were normalized to CPM values (counts-per-million) using edgeR (Robinson et al., 2010)
Genome_build: hg38
Supplementary_files_format_and_content: tab-delimited text file include CPM values for all samples
 
Submission date May 17, 2019
Last update date May 20, 2019
Contact name Yerbol Z. Kurmangaliyev
Organization name University of California, Los Angeles
Street address 675 Charles E. Young Drive South
City Los Angeles
State/province CA
ZIP/Postal code 90095
Country USA
 
Platform ID GPL21290
Series (1)
GSE131387 Editing the Sickle Cell Disease Mutation in Primary Human Hematopoietic Stem Cells: Comparison of Endonucleases and Homologous Donor Templates
Relations
BioSample SAMN11667704
SRA SRX5853075

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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