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| Status |
Public on Sep 12, 2024 |
| Title |
pa2cell_HA |
| Sample type |
SRA |
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| Source name |
2cell Embryo
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| Organism |
Mus musculus |
| Characteristics |
tissue: 2cell Embryo
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| Extracted molecule |
genomic DNA |
| Extraction protocol |
embryos were washed three times in 0.5% BSA-PBS solution. Lysates were clarified from micrococcal nuclease treated nuclei and histone-DNA complexes were isolated with antibody.
Libraries were prepared according to KAPA Hyper Prep Kit for illumina platform (kk8504)
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| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina NovaSeq 6000 |
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| Data processing |
We aligned reads of to the mm10 reference genome using Bowtie2 v2.4.4 software. Unmapped and non-uniquely mapped reads were removed by picard & samtools. Next, we pooled the biological replicates for each stage and performed downstream analysis. For quantitative analysis, we normalized the read counts by computing the number of reads using merged replicate BAM files with the bamCompare tool in deepTools software. Peaks were screened on merged replicates by the normalized RPKM in 10000bp bins. Peak annotation was performed using the R package ChIPseeker with the default parameters.
Assembly: mm10
Supplementary files format and content: bigwig
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| Submission date |
Sep 12, 2023 |
| Last update date |
Sep 12, 2024 |
| Contact name |
Hou wei bo |
| Organization name |
College of Life Science,Northeast Agricultural University
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| Street address |
Xiangfang District
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| City |
Harbin |
| State/province |
Heilongjiang |
| ZIP/Postal code |
150030 |
| Country |
China |
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| Platform ID |
GPL24247 |
| Series (2) |
| GSE242957 |
Maternal H3.3-Mediated Reprogramming of Parental Genomes during Minor Zygotic Genome Activation [ChIP-seq] |
| GSE242960 |
Maternal H3.3-Mediated Reprogramming of Parental Genomes during Minor Zygotic Genome Activation |
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| Relations |
| BioSample |
SAMN37359342 |
| SRA |
SRX21756899 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM7776041_pa2cell.bigwig |
2.5 Mb |
(ftp)(http) |
BIGWIG |
SRA Run Selector |
| Raw data are available in SRA |
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