|
Status |
Public on Oct 15, 2021 |
Title |
CAL1_CTRL_D7_2 |
Sample type |
SRA |
|
|
Source name |
cell line
|
Organism |
Homo sapiens |
Characteristics |
cell line: CAL1 treatment: control shRNA time point: 7 days
|
Growth protocol |
CAL1 cells transduced with control (CTRL) or ZRSR2 dox-inducible shRNAs were treated with doxycycline for 0, 2, or 7 days and then RNA was extracted
|
Extracted molecule |
polyA RNA |
Extraction protocol |
Arcturus PicoPure RNA Isolation Kit (Life Technologies) TruSeq RNA Library Prep Kit (Illumina) using 1 ug of input total RNA and 15 cycles of amplificaftion
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina HiSeq 2500 |
|
|
Data processing |
The raw FASTQ data were analyzed by the VIPER pipeline which combines STAR alignment and gene expression analysis such as unsupervised clustering, PCA based on Cufflinks and differential expression with DESEq2 Genome_build: hg19 Supplementary_files_format_and_content: RNA abundance expressed as fragments per kilobase of transcript per million mapped reads (FPKM)
|
|
|
Submission date |
Oct 15, 2021 |
Last update date |
Oct 15, 2021 |
Contact name |
Andrew Lane |
E-mail(s) |
aalane@partners.org
|
Phone |
617-632-4589
|
Organization name |
Dana-Farber Cancer Institute
|
Street address |
450 Brookline Ave
|
City |
Boston |
State/province |
MA |
ZIP/Postal code |
02215 |
Country |
USA |
|
|
Platform ID |
GPL16791 |
Series (2) |
GSE185982 |
Sex-biased ZRSR2 mutations in myeloid malignancies impair plasmacytoid dendritic cell activation and apoptosis [cell line] |
GSE185983 |
Sex-biased ZRSR2 mutations in myeloid malignancies impair plasmacytoid dendritic cell activation and apoptosis |
|
Relations |
BioSample |
SAMN22328271 |
SRA |
SRX12633014 |