Phase Separation of DUX Family Proteins Drives Totipotent-like State via 3D Genome Reorganization and Retrotransposon Activation [RNA-Seq]
RNA-seq (gene expression) · mouse · 26 samples
- What it is
- RNA-seq (gene expression)Gene activity measured by sequencing. The summary does not mention single-cell work, so this is most likely bulk: one average per sample, the usual starting point for comparing groups.
- Organism
- Mus musculus (mouse)
- Samples
- 26 samples: 13 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 GSE325140_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: For RNA-seq the counts are usually a table among the supplementary files (look for 'counts', 'expression', 'FPKM' or 'TPM' in the file name). The series matrix of a sequencing study is sometimes nearly empty.
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 26 samples.
How we read this: 13 replicated groups read from 26 sample titles; they account for 26 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.
- GSM9596659 RNAseq mESC PlaB 4day rep1 RNAseq mESC PlaB 4day
- GSM9596660 RNAseq mESC PlaB 4day rep2 RNAseq mESC PlaB 4day
- GSM9596661 RNAseq mESC rep1 RNAseq mESC
- GSM9596662 RNAseq mESC rep2 RNAseq mESC
- GSM9596663 RNAseq DUXR70A OE 24h rep1 RNAseq DUXR70A OE 24h
- GSM9596664 RNAseq DUXR70A OE 24h rep2 RNAseq DUXR70A OE 24h
- GSM9596665 RNAseq DUX OE 24h rep1 RNAseq DUX OE 24h
- GSM9596666 RNAseq DUX OE 24h rep2 RNAseq DUX OE 24h
- GSM9596667 RNAseq mESC DMSO rep1 RNAseq mESC DMSO
- GSM9596668 RNAseq mESC DMSO rep2 RNAseq mESC DMSO
- GSM9596669 RNAseq SE KO PlaB 4day rep1 RNAseq SE KO PlaB 4day
- GSM9596670 RNAseq SE KO PlaB 4day rep2 RNAseq SE KO PlaB 4day
- GSM9596671 RNAseq DUX KD PlaB 4day rep1 RNAseq DUX KD PlaB 4day
- GSM9596672 RNAseq DUX KD PlaB 4day rep2 RNAseq DUX KD PlaB 4day
- GSM9596673 RNAseq mESC RA 48h rep1 RNAseq mESC RA 48h
- GSM9596674 RNAseq SE KO RA 48h rep1 RNAseq SE KO RA 48h
- GSM9596675 RNAseq mESC RA 48h rep2 RNAseq mESC RA 48h
- GSM9596676 RNAseq SE KO RA 48h rep2 RNAseq SE KO RA 48h
- GSM9596677 RNAseq DUX KD RA 48h rep1 RNAseq DUX KD RA 48h
- GSM9596678 RNAseq DUX KD RA 48h rep2 RNAseq DUX KD RA 48h
- GSM9596679 RNAseq SE KO DUX OE 24h rep1 RNAseq SE KO DUX OE 24h
- GSM9596680 RNAseq SE KO DUX OE 24h rep2 RNAseq SE KO DUX OE 24h
- GSM9596681 RNAseq DUX KD ZSCAN4 OE rep1 RNAseq DUX KD ZSCAN4 OE
- GSM9596682 RNAseq DUX KD ZSCAN4 OE rep2 RNAseq DUX KD ZSCAN4 OE
- GSM9596683 RNAseq mESC ZSCAN4 OE 24h rep1 RNAseq mESC ZSCAN4 OE 2…
- GSM9596684 RNAseq mESC ZSCAN4 OE 24h rep2 RNAseq mESC ZSCAN4 OE 2…
- GSE325142 Phase Separation of DUX Family Proteins Drives Totipotent-like State via 3D Genome Reorganization and Retrotransposon Activation [CUT&Tag] 22 samples shares dux, totipotent-like, retrotransposon, reorganization, separation, activation, proteins
- GSE325141 Phase Separation of DUX Family Proteins Drives Totipotent-like State via 3D Genome Reorganization and Retrotransposon Activation [ATAC-Seq] 7 samples shares dux, totipotent-like, retrotransposon, reorganization, separation, activation, proteins
- GSE280522 p300/CBP-catalyzed acetylation safeguards minor zygotic genome activation via activating DUX [RNA-Seq] 24 samples shares dux, activation, rna-seq
- GSE95519 Conserved roles for murine mDUX and human DUX4 in activating cleavage stage genes and MERVL/HERVL retrotransposons [RNA-Seq Mouse siRNA] 8 samples shares dux, retrotransposon, rna-seq
- GSE280037 Dux cluster duplication ensures full activation of totipotent genes 22 samples shares dux, activation
- GSE251640 Dux promotes metabolism-lactylation-MET cascaded network during early iPSC reprogramming with Brg1 as the histone lactylation reader [RNA-Seq] 12 samples shares dux, rna-seq
- GSE143523 Parallel analysis of H3K9ac reveals Dux-dependent 2C activation deficiency in mouse SCNT embryos 59 samples shares dux, activation
- GSE280521 p300/CBP-catalyzed acetylation safeguards minor zygotic genome activation via activating DUX [ChIPseq_ATAC-seq_Stacc-seq] 50 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.