|
| Status |
Public on Feb 23, 2018 |
| Title |
TG3 peptide control replicate 3 |
| Sample type |
SRA |
| |
|
| Source name |
MOLM13
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: leukemia cell line
treatment: TG3 control peptide
|
| Treatment protocol |
Treatment protocol for cells: MOLM13 cells were resuspended to a concentration of 10 million cells/5mL of working media. A peptide suspension was made in PBS of each TG3 and MYBMIM peptides from the lyophilized product. Peptide suspension was added directly to tissue culture media to a final concentration of 20μM. Cells were incubated with peptide for 6h at 37°C and then resuspended in PBS.
|
| Growth protocol |
MOLM13 cells were cultured in 5% CO2 in a humidified atmosphere at 37˚C in RPMI medium supplemented with 10% FBS (FBS) and antibiotics (100U/mL penicillin and 100 µg/mL streptomycin)
|
| Extracted molecule |
total RNA |
| Extraction protocol |
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 |
| |
|
| Description |
Table_HTseq_MYBMIM_TG3_Control.txt
|
| 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 read counts over all genes.
|
| |
|
| Submission date |
Jan 27, 2017 |
| Last update date |
May 15, 2019 |
| 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) |
| GSE94241 |
Peptidomimetic blockade of MYB in acute myeloid leukemia [RNA-seq] |
| GSE94242 |
Peptidomimetic blockade of MYB in acute myeloid leukemia |
|
| Relations |
| BioSample |
SAMN06277462 |
| SRA |
SRX2524373 |
