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Sample GSM3494256 Query DataSets for GSM3494256
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:
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
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
BioSample SAMN10492290
SRA SRX5073839

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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