|
| Status |
Public on Mar 05, 2012 |
| Title |
Input_seq_Adr8h |
| Sample type |
SRA |
| |
|
| Source name |
embryonic stem cells, treated, input
|
| Organism |
Mus musculus |
| Characteristics |
background/strain: 129X1 x 129S1
cell type: embryonic stem (ES) cells
passages: less than 15
agent: adriamycin
chip antibody: none
|
| Treatment protocol |
Cells were either untreated or treated with 0.5 micromolar adriamycin for 8 hours in growth medium.
|
| Growth protocol |
Cells were grown in mESC growth medium, Knockout DMEM (KO-DMEM), 15% Fetal Bovine Serum, 100mM MEM non-essential amino acids, 0.1mM 2-mercaptoethanol, 2mM L-glutamine and 1X penicillin-streptomycin (All from Invitrogen) plus 1000 units/ml leukemia inhibitory factor (Lif, Millipore).
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
DNA was extracted with the phenol/chloroform approach. ChIP assays were performed according to the Agilent mammalian ChIP-chip protocol (version 10, May 2008). Library construction was performed as per Illumina's ChIP-seq library construction protocol.
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina Genome Analyzer II |
| |
|
| Description |
Treated with adriamycin, input DNA.
|
| Data processing |
Short reads were mapped to build mm9 using Illumina's pipeline. Only reads that passed the quality filtering and are unique are retained.
|
| |
|
| Submission date |
Dec 29, 2010 |
| Last update date |
May 15, 2019 |
| Contact name |
Jing Huang |
| E-mail(s) |
[email protected]
|
| Organization name |
National Cancer Institute
|
| Lab |
Cancer Biology and Genetics
|
| Street address |
37 Convent Dr. 37/3140
|
| City |
Bethesda |
| State/province |
MD |
| ZIP/Postal code |
MD 20892 |
| Country |
USA |
| |
|
| Platform ID |
GPL9250 |
| Series (2) |
| GSE26361 |
Genome-wide analysis revealed a crosstalk between p53 and the pluripotent gene networks in mouse embryonic stem cells (ChIP-Seq) |
| GSE26362 |
Whole-genome study reveals distinct mechanisms used by p53 to regulate activated and repressed genes in embryonic stem cells |
|
| Relations |
| BioSample |
SAMN02197105 |
| SRA |
SRX036306 |
