Phase Separation of DUX Family Proteins Drives Totipotent-like State via 3D Genome Reorganization and Retrotransposon Activation [CUT&Tag]
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 22 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
- 22 samples: 9 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
- Phase separation of DUX family proteins drives totipotent-like state via 3D genome reorganization and retrotransposon activationProtein & cell · 2026
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 GSE325142_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 PRJNA1431154 and SRA study SRP680527. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 18 samples.
How we read this: 9 replicated groups read from 22 sample titles; they account for 18 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.
- GSM9596692 CUT&Tag DUX OE 24h H3K27ac rep1 CUT&Tag DUX OE 24h H3K2…
- GSM9596693 CUT&Tag DUX OE 24h H3K27ac rep2 CUT&Tag DUX OE 24h H3K2…
- GSM9596694 CUT&Tag DUXR70A OE 24h H3K27ac rep1
- GSM9596695 CUT&Tag DUXdelta70-80aa OE 24h H3K27ac rep1
- GSM9596696 CUT&Tag DUX OE 24h Flag rep2 CUT&Tag DUX OE 24h Flag
- GSM9596697 CUT&Tag DUX OE 24h Flag rep1 CUT&Tag DUX OE 24h Flag
- GSM9596698 CUT&Tag DUXR70A OE 24h Flag rep1
- GSM9596699 CUT&Tag DUXdelta70-80aa OE 24h Flag rep1
- GSM9596700 CUT&Tag DUX OE 24h 1,6hex Flag rep1 CUT&Tag DUX OE 24h 1,6h…
- GSM9596701 CUT&Tag DUX OE 24h 1,6hex Flag rep2 CUT&Tag DUX OE 24h 1,6h…
- GSM9596702 CUT&Tag mESC CTCF rep1 CUT&Tag mESC CTCF
- GSM9596703 CUT&Tag mESC CTCF rep2 CUT&Tag mESC CTCF
- GSM9596704 CUT&Tag DUX OE 24h CTCF rep1 CUT&Tag DUX OE 24h CTCF
- GSM9596705 CUT&Tag DUX OE 24h CTCF rep2 CUT&Tag DUX OE 24h CTCF
- GSM9596706 CUT&Tag DUXR70A OE 24h CTCF rep1 CUT&Tag DUXR70A OE 24h …
- GSM9596707 CUT&Tag DUXR70A OE 24h CTCF rep2 CUT&Tag DUXR70A OE 24h …
- GSM9596708 CUT&Tag mESC P300 rep1 CUT&Tag mESC P300
- GSM9596709 CUT&Tag mESC P300 rep2 CUT&Tag mESC P300
- GSM9596710 CUT&Tag DUX OE 24h P300 rep1 CUT&Tag DUX OE 24h P300
- GSM9596711 CUT&Tag DUX OE 24h P300 rep2 CUT&Tag DUX OE 24h P300
- GSM9596712 CUT&Tag DUXR70A OE 24h P300 rep1 CUT&Tag DUXR70A OE 24h …
- GSM9596713 CUT&Tag DUXR70A OE 24h P300 rep2 CUT&Tag DUXR70A OE 24h …
- GSE304211 H4K16ac contributes to chromatin compartment reorganization during mitotic and meiotic transitions [CUTnTAG] 128 samples shares cut, reorganization
- GSE297309 SKP1A-mediated degradation of PRC2 triggers activation of Polycomb-silenced gene [CUT&Tag] 108 samples shares cut, activation
- GSE325799 KMT2C and KMT2D amplify GRHL2-driven enhancer activation [CUT&Tag] 80 samples shares cut, activation
- GSE298002 Stage-specific Epigenetic Priming Amplifies Gene Activation During Lineage Commitment [CUT&Run] 38 samples shares cut, activation
- GSE261412 Acute hormonal signaling-induced 3D chromatin loop reorganization controls adipocyte thermogenesis [ChIP-Seq mouse, H3K27ac, H3K4me3, H2AZ] 24 samples shares cut, reorganization
- GSE281440 Pre-occupied ATF4 relies on CEBPγ co-binding for robust transcription activation during integrated stress response [CUT&Tag] 20 samples shares cut, activation
- GSE279279 KDM6A facilitates Xist upregulation at the onset of X inactivation [CUT&Run] 14 samples shares cut, activation
- GSE280037 Dux cluster duplication ensures full activation of totipotent genes 22 samples shares dux, activation
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.