|
| Status |
Public on May 17, 2016 |
| Title |
NPC_Ezh2 |
| Sample type |
SRA |
| |
|
| Source name |
neural progenitor cells
|
| Organism |
Mus musculus |
| Characteristics |
strain: R1
cell type: ES-derived neural progenitor cells
chip antibody: Ezh2 Diagenode pAB-039-050
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Lysates were clarified from sonicated nuclei and protein-DNA complexes were isolated with antibody.
Libraries were prepped using 5ng of ChIP material and the Kapa Hyper Prep Kit for Illumina Sequencing (Kapa Biosystems) according to manufacturer's protocol.
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Data processing |
Mapping was performed with an in-house Ruby script using BWA alignment to the mm9 genome allowing one mismatch.
Data were filtered on quality and duplicates were removed using samtools.
Peaks were called using MACS 2.0 with a q-value of 0.001.
Genome_build: mm9
Supplementary_files_format_and_content: Bed files contain filitered, aligned reads and called peaks.
|
| |
|
| Submission date |
Oct 23, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Susan L Kloet |
| E-mail(s) |
s.kloet@science.ru.nl
|
| Organization name |
RIMLS-Radboud Universiteit
|
| Department |
Proteomics and Chromatin Biology
|
| Lab |
Vermeulen
|
| Street address |
Geert Grooteplein 26, Route 274
|
| City |
Nijmegen |
| ZIP/Postal code |
6525 GA |
| Country |
Netherlands |
| |
|
| Platform ID |
GPL13112 |
| Series (1) |
| GSE74330 |
The dynamic interactome and genomic targets of Polycomb complexes during stem cell differentiation |
|
| Relations |
| BioSample |
SAMN04211917 |
| SRA |
SRX1372671 |
