|
Status |
Public on May 01, 2019 |
Title |
ChIP_FGO_Dnmt3l_KO_H3K36me3_rep2 |
Sample type |
SRA |
|
|
Source name |
oocyte
|
Organism |
Mus musculus |
Characteristics |
tissue: oocyte developmental stage: FGO chip-antibody: H3K36me3 (Active Motif, Cat.61021) genotype: Dnmt3l-/- tissue: oocyte developmental stage: FGO chip-antibody: H3K27me3(Diagenode,Cat.C15410069) genotype: Setd2+/-
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Treatment protocol |
8-week-old females were intraperitoneally injected with PMSG and hCG. Oocytes and embryos were harvested in M2 medium at following time point after hCG: MII oocytes, 13h; Zygotes 30 h; late-two cell embryos, 47 h; blastocyst, 98 h. Germinal versicle stage. 8-week-old females were intraperitoneally injected with PMSG and hCG. Oocytes and embryos were harvested in M2 medium at following time point after hCG: MII oocytes, 13h; Zygotes 30 h; late-two cell embryos, 47 h; blastocyst, 98 h. Germinal versicle stage.
|
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).
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|
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Library strategy |
ChIP-Seq |
Library source |
genomic |
Library selection |
ChIP |
Instrument model |
HiSeq X Ten |
|
|
Description |
processed data file: FGO_Dnmt3l_Con_H3K36me3.bed.gz processed data file: FGO_Setd2_Con_H3K27me3.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.
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|
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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 |
SAMN10492291 |
SRA |
SRX5073838 |