|
Status |
Public on Jul 13, 2017 |
Title |
JQ1–TCO click-seq Rep 1 |
Sample type |
SRA |
|
|
Source name |
MV4;11 cell line
|
Organism |
Homo sapiens |
Characteristics |
tissue: peripheral blood cell line: MV4;11 clickable molecule: JQ1–TCO
|
Growth protocol |
Cell lines were grown in RPMI-1640 supplemented with 20% fetal calf serum, penicillin (100 units/mL) and streptomycin (100 ug/mL)
|
Extracted molecule |
genomic DNA |
Extraction protocol |
Lysate were isolated from formaldehybe cross-linked cells and sonicated to release the chromatin, then chem-precipitation was performed with pre-clicked JQ1 biotin conjugated beads ThruPLEXTM-FD Prep Kit protocol (Rubicon Genomics)
|
|
|
Library strategy |
ChIP-Seq |
Library source |
genomic |
Library selection |
ChIP |
Instrument model |
Illumina NextSeq 500 |
|
|
Data processing |
Illumina Casava1.8.2 software was used for basecalling. Reads were aligned to the human genome (G1k V37) using bwa 0.6.2-r126 Peak-calling was performed using MACS2 Genome_build: hg19 Supplementary_files_format_and_content: bed files from MACS2 for each sample
|
|
|
Submission date |
Apr 03, 2017 |
Last update date |
May 15, 2019 |
Contact name |
Mark Dawson |
E-mail(s) |
mark.dawson@petermac.org
|
Organization name |
Peter MacCallum Cancer Centre
|
Street address |
305 Grattan Street
|
City |
Melbourne |
State/province |
VIC |
ZIP/Postal code |
3000 |
Country |
Australia |
|
|
Platform ID |
GPL18573 |
Series (2) |
GSE88748 |
Click chemistry enables comprehensive preclinical evaluation of targeted epigenetic therapies [Click-Seq 1] |
GSE88751 |
Click chemistry enables comprehensive preclinical evaluation of targeted epigenetic therapies |
|
Relations |
BioSample |
SAMN06675650 |
SRA |
SRX2700461 |