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Sample GSM3772959 Query DataSets for GSM3772959
Status Public on May 18, 2019
Title RNP rep1
Sample type SRA
Source name RNP - ribonucleoprotein, Cas9 + sgRNA
Organism Homo sapiens
Characteristics tissue: blood
cell type: CD34+ PBSCs
treatment: RNP
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
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
BioSample SAMN11667605
SRA SRX5853065

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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