|
| Status |
Public on Sep 27, 2012 |
| Title |
T14_Myc_ChIPSeq |
| Sample type |
SRA |
| |
|
| Source name |
Resting T cells, conconavalin A (conA) activation for 14hrs
|
| Organism |
Mus musculus |
| Characteristics |
tissue: spleen
cell type: Resting T cells
antibody: Clontech, 632460
|
| Treatment protocol |
B-splenocytes were treated with 25ug/ml of LPS for 0-4hrs. The T-cells were treated with 7.5ug/ml of ConA for 0, 4 or 14 hrs, respectively.
|
| Growth protocol |
Isolated splenocytes were cultured at 0.5-1 X 106 cells /ml in 37oC and 5% of CO2 incubator with RPMI 1640 (Gibco-Invitrogen) in the presence of Hepes, L-glutamine, sodium pyruvate and 50mM β-mercaptoethanol (SIGMA).
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Library construction for ChIP-Seq follows the protocols as described in (PMID: 17512414)
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina Genome Analyzer II |
| |
|
| Data processing |
Basecalls performed using GAPipeline 1.3.2 or CASAVA 1.0
ChIP-seq reads were aligned to the mm8 genome assembly using Bowtie (0.12.7) independently for each lanes, with a setting to discard reads that are mapped to multiple genomic positions (m = 1). For reads that are mapped to same position, only one copy was retained.
Genome_build: mm8
|
| |
|
| Submission date |
Apr 12, 2012 |
| Last update date |
May 15, 2019 |
| Contact name |
Gangqing Hu |
| E-mail(s) |
michael.hu@hsc.wvu.edu
|
| Organization name |
West Virginia University
|
| Department |
MicroBiology, Immunology, and Cell Biology
|
| Lab |
2072A, HSC North, Floor 2
|
| Street address |
64 Medical Center Drive
|
| City |
Morgantown |
| State/province |
West Virginia |
| ZIP/Postal code |
26506-9177 |
| Country |
USA |
| |
|
| Platform ID |
GPL9250 |
| Series (2) |
| GSE37229 |
c-Myc is a universal amplifier of gene expression [ChIP-Seq] |
| GSE37230 |
c-Myc is a universal amplifier of gene expression |
|
| Relations |
| SRA |
SRX141254 |
| BioSample |
SAMN00854954 |
