NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM4979711 Query DataSets for GSM4979711
Status Public on Feb 24, 2021
Title RNA_MV411_CREBMIM_1B
Sample type SRA
 
Source name MV411 cell line
Organism Homo sapiens
Characteristics cell type: leukemia cell
cell line: MV411
treatment: CREBMIM peptide
time point: 1hr
Treatment protocol MV411 cells were resuspended to a concentration of 15 million cells/5 mL of working media. Peptide suspensions were made in PBS of CREBMIM and CRYBMIM peptides from lyophilized product. Peptide suspensions or PBS control were added directly to working media to a final concentration of 20 mM. Cells were incubated with peptide or control for 1h or 4h at 37°C and then resuspended in PBS.
Growth protocol MV411 cells were cultured at 37°C in 5% CO2 humidified atmosphere in RPMI medium supplemented with 10% fetal bovine serum (FBS), antibiotics (100 U/mL penicillin, 100 mg/mL streptomycin), and L-glutamine (1%).
Extracted molecule total RNA
Extraction protocol RNA was isolated by TRIzol extraction
Libraries were prepared according to Illumina's instructions accompanying the TruSeq RNA Sample Preparation Kit
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2500
 
Data processing RNA-seq reads were filtered for quality and 3' trimmed for adapter sequences.
Reads were aligned to human genome assembly hg19 using STAR (v2.4) with default parameters.
Read count tables were created using HTSeq v0.6.1.
Normalization and differential expression analysis was performed with DESeq2.
Genome_build: hg19
Supplementary_files_format_and_content: Tab-delimited text file with un-normalized read counts over all genes.
 
Submission date Dec 18, 2020
Last update date Feb 24, 2021
Contact name Richard Koche
E-mail(s) kocher@mskcc.org
Organization name Memorial Sloan Kettering Cancer Center
Street address 417 E. 68th St.
City New York
State/province New York
ZIP/Postal code 10065
Country USA
 
Platform ID GPL16791
Series (2)
GSE163466 Convergent organization of aberrant MYB complexes controls oncogenic gene expression in acute myeloid leukemia [RNAseq_MV411]
GSE163470 Convergent organization of aberrant MYB complexes controls oncogenic gene expression in acute myeloid leukemia
Relations
BioSample SAMN17112344
SRA SRX9702057

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap