|
| Status |
Public on Feb 01, 2016 |
| Title |
Input ChIP-seq TAL1-ctl |
| Sample type |
SRA |
| |
|
| Source name |
Jurkat cells expressing a Dox-inducible shRNA against TAL1 without Dox addition
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: Jurkat
treatment: None
antibody: none
|
| Treatment protocol |
Addition of 5µg/ml Doxycycline to medum of TAL1-KD sample.
|
| Growth protocol |
RPMI 1640 medium supplemented with 10% (v/v) Tet-free FBS, 100 U/ml penicillin, 100 mg/ml streptomycin, 20 µg/ml blasticidin and 1 mg/ml G418
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
ChIP-seq using protocol from Nature Protocols 3 (3): 398-409, 2008. H3K27me3 antibody: Millipore Cat#07-449. Lot#2475696
KAPA ChIP library kit (KAPA Biosystems)
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Data processing |
Reads mapped with bowtie2 (v2.2.4)
We have essentially only mapped reads, as no peak calling protocol was used for this publication. Instead we used the mapped ChIP-seq reads to compare aggregate methylation profiles across a number of loci, presented in figures in the associated paper.
Genome_build: NCBI37/hg19
Supplementary_files_format_and_content: BED file of mapped reads
|
| |
|
| Submission date |
Aug 24, 2015 |
| Last update date |
May 15, 2019 |
| Organization |
Ottawa Hospital Research Institute |
| Phone |
(613) 737-8899 -73255
|
| Department |
Cellular and Molecular Medicine
|
| Lab |
Ottawa Bioinformatics Core Facility
|
| Street address |
501 Smyth Rd.
|
| City |
Ottawa |
| State/province |
ON |
| ZIP/Postal code |
K1H 8L6 |
| Country |
Canada |
| |
|
| Platform ID |
GPL11154 |
| Series (2) |
| GSE72298 |
H3K27 methylation changes in Jurkat cells in response to TAL1-KD |
| GSE72300 |
T-cell ALL in response to TAL1-KD, UTX-KD, and GSKJ4 treatment |
|
| Relations |
| BioSample |
SAMN04009394 |
| SRA |
SRX1162906 |
