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Sample GSM5227077 Query DataSets for GSM5227077
Status Public on Apr 07, 2021
Title 14269-HTB20-006 NT 24H rep1
Sample type SRA
 
Source name human primary leukemia cells
Organism Homo sapiens
Characteristics cell type: myeloblasts
treatment: No treatment
Treatment protocol In a 6 Well plate, place 1 million cells and treatment in 4mL of culture media and incubate for 4, 12, or 24H. Than harvest for RNA extraction.
Growth protocol American Type Culture Collection (ATCC) and maintained in DMEM (Dulbecco Modified Eagle Medium) supplemented with 10% FBS and 100 units of penicillin/streptomycin at 37C with 5% CO2.
Extracted molecule total RNA
Extraction protocol Total RNA was extracted from cultured cells using the RNeasy Mini kit
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2500
 
Data processing Illumina bcl2fastq v2.18.0.12 software used for basecalling.
Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence, then mapped to hg19 whole genome using STAR 2.6.0.a with default parameters
The HTSeq software (v.0.6.0) was applied to generate the count matrix, with default parameters. Reads Per Kilobase of exon per Megabase of library size (RPKM) were calculated using EdgeR 3.28.1.
Genome_build: hg19
Supplementary_files_format_and_content: Matrix table with raw gene counts for every gene and every sample
 
Submission date Apr 06, 2021
Last update date Apr 07, 2021
Contact name Steven T Rosen
Organization name City of Hope
Department Department of Hematology and Hematopoietic Cell Transplantation
Street address 1500 E. Duarte Road
City Duarte
State/province CA
ZIP/Postal code 91010
Country USA
 
Platform ID GPL16791
Series (1)
GSE171552 Targeting the metabolic vulnerability of acute myeloid leukemia blasts with a combination of venetoclax and 8-chloro-adenosine
Relations
BioSample SAMN18631357
SRA SRX10519902

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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