|
| Status |
Public on May 31, 2022 |
| Title |
ChIP-seq of BRCA2 in ZFP281 KO-2 mESC |
| Sample type |
SRA |
| |
|
| Source name |
murine embryonic stem cells
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6 (female) x 129/S (male)
cell type: murine embryonic stem cells
genotype: ZFP281 KO
chip antibody: BRCA2
|
| Treatment protocol |
WT and ZFP281 KO ES cells were cross-linked in PBS containing 1% paraformaldehyde
|
| Growth protocol |
Mouse ES cell lines WT and ZFP281 KO were cultured in N2B27 medium supplemented with 2i/LIF in 0.1% gelatin-coated tissue culture flask
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
For ChIP-Seq, 5×10^7 cells were used per immunoprecipitation according to previously described protocols (Lee et al., 2006). ChIP-Seq libraries were prepared with Illumina's ChIP-Seq sample prep kit (0801-0303).
NEBNext® DNA Library Prep Master Mix Set for Illumina
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| |
|
| Data processing |
ChipSeq samples were aligned using Bowtie2 (v2.2.5) allowing uniquely mapping reads only
Peak calling was performed with MACS2 (v2.1.1) and filtered at FDR < 5 (0.05)
Assembly: UCSC mm9
Supplementary files format and content: bigwig
|
| |
|
| Submission date |
May 25, 2022 |
| Last update date |
Nov 29, 2022 |
| Contact name |
Xiaoxu Liu |
| E-mail(s) |
liuxiaoxu1010@126.com
|
| Organization name |
Southeast University
|
| Department |
Institute of Life Sciences
|
| Lab |
the Key Laboratory of Developmental Genes and Human Disease
|
| Street address |
2 Sipailou
|
| City |
Nanjing |
| State/province |
Jiangsu |
| ZIP/Postal code |
210018 |
| Country |
China |
| |
|
| Platform ID |
GPL9185 |
| Series (1) |
| GSE127262 |
ZFP281-BRCA2 prevents R-loop accumulation during DNA replication |
|
| Relations |
| BioSample |
SAMN28667161 |
| SRA |
SRX15464338 |
