Epigenetic and transcriptional regulation of mouse oocytes and early embryos
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 51 samples
- What it is
- ChIP-seq / ATAC-seq (genome binding and open chromatin)Where proteins bind the genome, or which regions are open and active.
- Organism
- Mus musculus (mouse)
- Samples
- 51 samples: 22 conditions, mostly in duplicateGroups are read from the sample names, not from the paper. Check the list below.
- Data you can get
- A processed table (series matrix) and supplementary files from NCBI; the raw sequencing reads from ENA. Which of these hold counts depends on the study, so check the file list.
- Paper
- Deciphering transcription activity of mammalian early embryos unveils on/off of zygotic genome activation by protein translation/degradationCell reports · 2025
Direct links to NCBI and ENA, no account and no request form. Pick by what you want to do: take the small processed table to look, the supplementary files to re-analyse, or the original raw data to start over.
Processed table
The series matrix: one table of values per sample as the submitters processed it. The smallest download, and it opens in Excel or R. Start here to see what the data look like.
Supplementary files
The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE241246_RAW.tar (it can run to tens of gigabytes).
Raw sequencing reads
The original FASTQ files, straight from the sequencer, held at ENA. Large, and you align them yourself, so only choose this if you need to re-process the study from scratch.
What the files usually look like: Look for peak files (.bed, .narrowPeak) and signal tracks (.bigWig) among the supplementary files; the raw reads are on ENA.
Also filed as BioProject PRJNA1006508 and SRA study SRP455894. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 45 samples.
How we read this: 22 replicated groups read from 51 sample titles; they account for 45 of them. These groups are guessed from the sample names, not taken from the paper, so check them against the sample list below before relying on them.
- GSM7719940 2C_IVF_DRB_PolII_1 2C_IVF_DRB_PolII
- GSM7719941 2C_IVF_DRB_PolII_2 2C_IVF_DRB_PolII
- GSM7719942 2C_IVF_DRB_PolII_Ps_1 2C_IVF_DRB_PolII_Ps
- GSM7719943 2C_IVF_DRB_PolII_Ps_2 2C_IVF_DRB_PolII_Ps
- GSM7719944 Mla_IVF_RNaseA_PolII_Ps_1 Mla_IVF_RNaseA_PolII_Ps
- GSM7719945 Mla_IVF_RNaseA_PolII_Ps_2 Mla_IVF_RNaseA_PolII_Ps
- GSM7719946 K4M_P14_H3K27ac_1 K4M_P14_H3K27ac
- GSM7719947 K4M_P14_H3K27ac_2 K4M_P14_H3K27ac
- GSM7719948 K4M_P14_IgG_1
- GSM7719949 K4M_P14_PolII_Ps_1 K4M_P14_PolII_Ps
- GSM7719950 K4M_P14_PolII_Ps_2 K4M_P14_PolII_Ps
- GSM7719951 WT_P14_H3K27ac_1 WT_P14_H3K27ac
- GSM7719952 WT_P14_H3K27ac_2 WT_P14_H3K27ac
- GSM7719953 WT_P14_IgG_1
- GSM7719954 WT_P14_PolII_Ps_1 WT_P14_PolII_Ps
- GSM7719955 WT_P14_PolII_Ps_2 WT_P14_PolII_Ps
- GSM7719956 2C_IVF_H2AX_1
- GSM7719957 2C_IVF_H3K4me3_1
- GSM7719958 2C_IVF_H3K27ac_1
- GSM7719959 2C_IVF_H3K27me3_1 2C_IVF_H3K27me3
- GSM7719960 2C_IVF_H3K27me3_2 2C_IVF_H3K27me3
- GSM7719961 2C_IVF_H33_1
- GSM7719962 2C_IVF_PolII_1 2C_IVF_PolII
- GSM7719963 2C_IVF_PolII_2 2C_IVF_PolII
- GSM7719964 APH_IVF_H3K4me3_1 APH_IVF_H3K4me3
- GSM7719965 APH_IVF_H3K4me3_2 APH_IVF_H3K4me3
- GSM7719966 APH_IVF_H3K4me3_3 APH_IVF_H3K4me3
- GSM7719967 APH_IVF_PolII_1 APH_IVF_PolII
- GSM7719968 APH_IVF_PolII_2 APH_IVF_PolII
- GSM7719969 APH_IVF_PolII_Ps_1 APH_IVF_PolII_Ps
- GSM7719970 APH_IVF_PolII_Ps_2 APH_IVF_PolII_Ps
- GSM7719971 CHX_IVF_H3K4me3_1 CHX_IVF_H3K4me3
- GSM7719972 CHX_IVF_H3K4me3_2 CHX_IVF_H3K4me3
- GSM7719973 CHX_IVF_PolII_1 CHX_IVF_PolII
- GSM7719974 CHX_IVF_PolII_2 CHX_IVF_PolII
- GSM7719975 CHX_IVF_PolII_Ps_1 CHX_IVF_PolII_Ps
- GSM7719976 CHX_IVF_PolII_Ps_2 CHX_IVF_PolII_Ps
- GSM7719977 MG132_IVF_H3K4me3_1 MG132_IVF_H3K4me3
- GSM7719978 MG132_IVF_H3K4me3_2 MG132_IVF_H3K4me3
- GSM7719979 MG132_IVF_PolII_1 MG132_IVF_PolII
+ 11 more — browse all 51 samples with per-sample file links →
- GSE264614 Emerging cooperativity between Oct4 and Sox2 governs the pluripotency network in mouse early embryos [ATAC-seq] 44 samples shares embryos, early
- GSE264193 H3K27 dimethylation dynamics reveal stepwise establishment of facultative heterochromatin in early mouse embryos [ChIP-seq] 57 samples shares embryos, early
- GSE229238 DNA methylation constrains nucleosome retention in sperm and H3K4 methylation deposition in early mouse embryos [RNA-seq 2] 42 samples shares embryos, early
- GSE271884 GFI1-driven transcriptional and epigenetic programs maintain memory CD8+ T cell persistence [ATAC-seq]. 30 samples shares epigenetic
- GSE296991 H3K9 di-methylation dynamics underlies mouse minor zygotic genome activation [CATCH-seq of early embryo] 23 samples shares early
- GSE271883 Maternal high-fat diet alters Tet-mediated epigenetic regulation during heart development [ATAC-Seq] 12 samples shares epigenetic
- GSE73952 Distinct features in establishing H3K4me3 and H3K27me3 in pre-implantation embryos 67 samples shares embryos
- GSE289108 Neurons undergo IFNγ-driven persistent epigenetic shifts and synaptic remodeling in the inflamed brain [ChIP-Seq] 57 samples shares epigenetic
Metadata from NCBI GEO, cached and refreshed periodically — the NCBI page above is authoritative. Downloads link straight to NCBI/ENA; nothing is proxied through BioTransfer.