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Sample GSM5628084 Query DataSets for GSM5628084
Status Public on Oct 15, 2021
Title CAL1_CTRL_D7_3
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 SAMN22328270
SRA SRX12633015

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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