|
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 |