|
| Status |
Public on May 01, 2019 |
| Title |
ChIP_GO_P7_Setd2_KO_H3K4me3 |
| Sample type |
SRA |
| |
|
| Source name |
oocyte
|
| Organism |
Mus musculus |
| Characteristics |
tissue: oocyte
developmental stage: GO
chip-antibody: H3K4me3(home made)
genotype: Setd2-/-
|
| Treatment protocol |
Oocytes (20-30 μm) were harvested from postnatal 7 days females for both Setd2 control and mutant in M2 medium.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
The DNA extraction follows STAR ChIP-seq protocol
The STAR ChIP-seq libraries were generated following the protocol as described previously(Zhang et al., 2016).
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
HiSeq X Ten |
| |
|
| Description |
processed data file:
GO_P7_Setd2_KO_H3K4me3.bed.gz
|
| Data processing |
STAR ChIP-seq datasets were mapped to the mouse mm9 reference genome using Bowtie2 (version 2.2.2) with the parameter:–t –q –N 1 –L 25. Multiple mapped reads and PCR duplicates were removed. After validating the reproducibility, replicates were pooled for downstream analysis.
Genome_build: mm9
Supplementary_files_format_and_content: The bedgraph files for STAR ChIP-seq contains the RPKM value in 100bp bin across the mm9 genome.
|
| |
|
| Submission date |
Nov 28, 2018 |
| Last update date |
May 01, 2019 |
| Contact name |
Wei Xie |
| E-mail(s) |
xiewei121@tsinghua.edu.cn
|
| Organization name |
Tsinghua University
|
| Department |
School of Life Science
|
| Street address |
Haidian District
|
| City |
Beijing |
| ZIP/Postal code |
100084 |
| Country |
China |
| |
|
| Platform ID |
GPL21273 |
| Series (2) |
| GSE112834 |
SETD2 regulates the maternal epigenome, genomic imprinting and embryonic development [ChIP-seq] |
| GSE112835 |
SETD2 regulates the maternal epigenome, genomic imprinting and embryonic development |
|
| Relations |
| BioSample |
SAMN10492290 |
| SRA |
SRX5073839 |
