Top2a Differentially Modulates Promoter Activity in Embryonic Stem Cells via Trim28 Recruitment and PRC2 Displacement [ChIP-Seq]
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 16 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
- 16 samples: 16 samples, each with a distinct title — no replicated groupsGroups 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.
Read the full summary ↓
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 GSE257545_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 PRJNA1080198 and SRA study SRP491601. Searching any of these in the dataset finder brings you back here.
Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Read from 16 sample titles: 16 distinct titles with little repetition. 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.
- GSM8107956 R1/E cells siControl, H3K9ac
- GSM8107957 R1/E cells siTop2a, H3K9ac
- GSM8107958 R1/E cells shControl, H3K9ac
- GSM8107959 R1/E cells shTrim28, H3K9ac
- GSM8107960 R1/E cells siControl, H3K4me3
- GSM8107961 R1/E cells siTop2a, H3K4me3
- GSM8107962 R1/E cells shControl, H3K4me3
- GSM8107963 R1/E cells shTrim28, H3K4me3
- GSM8107964 R1/E cells siControl, H3K9me3
- GSM8107965 R1/E cells siTop2a, H3K9me3
- GSM8107966 R1/E cells shControl, H3K9me3
- GSM8107967 R1/E cells shTrim28, H3K9me3
- GSM8107968 R1/E cells siControl, H3K27me3
- GSM8107969 R1/E cells siTop2a, H3K27me3
- GSM8107970 R1/E cells shControl, H3K27me3
- GSM8107971 R1/E cells shTrim28, H3K27me3
- GSE259215 Top2a Differentially Modulates Promoter Activity in Embryonic Stem Cells via Trim28 Recruitment and PRC2 Displacement [RNA-Seq] 12 samples shares trim28, top2a, prc2, differentially, displacement, recruitment, modulates, embryonic
- GSE249882 PRC1 and PRC2 proximal interactome in mouse embryonic stem cells [ChIP-Seq] 47 samples shares prc2, embryonic
- GSE305054 Mapping early PRC2 nucleation sites upon Suz12 reintroduction reveals features of de novo Polycomb recruitment 18 samples shares prc2, recruitment
- GSE297309 SKP1A-mediated degradation of PRC2 triggers activation of Polycomb-silenced gene [CUT&Tag] 108 samples shares prc2
- GSE289642 Noncanonical PRC2 chromatin association reveals a key role of EZHIP in intergenerational epigenetic memory transition [ChIP-Seq, Cut & Run] 107 samples shares prc2
- GSE272601 DNA glycosylases Ogg1 and Mutyh mediate gene expression of PRC2 targets important for memory formation (ChIP-Seq) 96 samples shares prc2
- GSE198409 Dual Role of PRC2-EZH1 in Orchestrating Rhythmicity of Circadian Transcriptional Program in Post-mitotic Skeletal Muscle Cells 78 samples shares prc2
- GSE278811 EZHIP-mediated PRC2 inhibition is required to maintain H3K27me3-dependent imprinting post fertilization [ChIP-Seq] 77 samples shares prc2
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.