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Sample GSM7299449 Query DataSets for GSM7299449
Status Public on May 01, 2024
Title KOPN cells, sgRNA SETD2 clone BA, biol rep3
Sample type SRA
 
Source name KOPN-8
Organism Homo sapiens
Characteristics cell line: KOPN-8
cell type: B-ALL cell line
genotype: SETD2 heterozygous KO
Treatment protocol na
Growth protocol The B-lineage leukemia cell lines KOPN-8 and 697 (DSMZ, Braunschweig, Germany) were grown in RPMI1640 medium supplemented with 10% FBS, 1% penicillin/streptomycin under 5% CO2 at 37°C. No cell lines were used beyond passage 20.
Extracted molecule total RNA
Extraction protocol RNA was extracted using the QIAGEN RNeasy Mini Kit and quality was verified by an Agilent Bioanalyzer 2100
RNAseq libraries were generated using Automated stranded RNA-seq library prep, polyA selection
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NovaSeq 6000
 
Description KOPN cells, sgRNA SETD2 clone BA, biol rep3
Data processing adapters and low quality bases were trimmed using trimmomatic
data was aligned to reference genome (hg19) using STAR
counts were generated using DESeq2
Assembly: hg19
Supplementary files format and content: bigwig files and csv files containing raw and normalized count data
 
Submission date May 04, 2023
Last update date May 01, 2024
Contact name Sonali Narang
E-mail(s) sonali.narang@nyulangone.org
Phone 5169652665
Organization name NYU Langone
Street address 435 east 30th street
City New York
State/province NY
ZIP/Postal code 10016
Country USA
 
Platform ID GPL24676
Series (2)
GSE231720 SETD2 Mutations Do Not Contribute to Clonal Fitness in Response to Chemotherapy in Childhood B Acute Lymphoblastic Leukemia (RNA-Seq)
GSE231724 SETD2 Mutations Do Not Contribute to Clonal Fitness in Response to Chemotherapy in Childhood B Acute Lymphoblastic Leukemia
Relations
BioSample SAMN34590161
SRA SRX20228417

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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