Polycomb Repressive-Deubiquitinase Complex Safeguards Oocyte Epigenome and Female Fertility by Restraining Polycomb Activity [RNA-Seq]
RNA-seq (gene expression) · mouse · 37 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
- 37 samples: 15 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
- Polycomb Repressive-Deubiquitinase Complex Safeguards Oocyte Epigenome and Female Fertility by Restraining Polycomb ActivitybioRxiv : the preprint server for biology · 2025
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 GSE302804_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 PRJNA1292190 and SRA study SRP601242. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 36 samples.
How we read this: 15 replicated groups read from 37 sample titles; they account for 36 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.
- GSM9111460 late 1-cell, CTR, rep1 late 1-cell, CTR,
- GSM9111461 late 1-cell, CTR, rep2 late 1-cell, CTR,
- GSM9111462 late 2-cell, CTR, rep1 late 2-cell, CTR,
- GSM9111463 late 2-cell, CTR, rep2 late 2-cell, CTR,
- GSM9111464 late 1-cell, matKO,rep1 late 1-cell, matKO,
- GSM9111465 late 1-cell, matKO, rep2 late 1-cell, matKO,
- GSM9111466 late 1-cell, matKO, rep3 late 1-cell, matKO,
- GSM9111467 late 2-cell, matKO, rep1 late 2-cell, matKO,
- GSM9111468 late 2-cell, matKO, rep2 late 2-cell, matKO,
- GSM9111469 late 2-cell, matKO, rep3 late 2-cell, matKO,
- GSM9111470 FGO, CKO, rep1 FGO, CKO,
- GSM9111471 FGO, CKO, rep2 FGO, CKO,
- GSM9111472 FGO, CKO, rep3 FGO, CKO,
- GSM9111473 MII, CKO, rep1 MII, CKO,
- GSM9111474 MII, CKO, rep2 MII, CKO,
- GSM9111475 MII, CKO, rep3 MII, CKO,
- GSM9111476 FGO, CTR, rep1 FGO, CTR,
- GSM9111477 FGO, CTR, rep2 FGO, CTR,
- GSM9111478 MII, CTR, rep1 MII, CTR,
- GSM9111479 MII, CTR, rep2 MII, CTR,
- GSM9111480 early 2-cell, matKO, rep1 early 2-cell, matKO,
- GSM9111481 early 2-cell, matKO, rep2 early 2-cell, matKO,
- GSM9111482 early 2-cell, matKO, rep3 early 2-cell, matKO,
- GSM9111483 early 2-cell, CTR, rep1 early 2-cell, CTR,
- GSM9111484 early 2-cell, CTR, rep2 early 2-cell, CTR,
- GSM9111485 early 2-cell, CTR, rep3 early 2-cell, CTR,
- GSM9444758 epiblast, matKO, rep1 epiblast, matKO,
- GSM9444759 epiblast, matKO, rep2 epiblast, matKO,
- GSM9444760 epiblast, CTR, rep1 epiblast, CTR,
- GSM9444761 epiblast, CTR, rep2 epiblast, CTR,
- GSM9444762 visceral endoderm, matKO, rep1 visceral endoderm, matK…
- GSM9444763 visceral endoderm, matKO, rep2 visceral endoderm, matK…
- GSM9444764 visceral endoderm, CTR, rep1 visceral endoderm, CTR,
- GSM9444765 visceral endoderm, CTR, rep2 visceral endoderm, CTR,
- GSM9444766 extra-embryonic ectoderm, matKO, rep1 extra-embryonic ectoder…
- GSM9444767 extra-embryonic ectoderm, matKO, rep2 extra-embryonic ectoder…
- GSM9444768 extra-embryonic ectoderm, CTR, rep1
- GSE319677 The BOD1L subunit of the SETD1A complex sustains the expression of DNA damage repair genes despite restraining H3K4 trimethylation [single_end_RNAseq] 36 samples shares restraining, complex
- GSE271862 The Sotos syndrome gene Nsd1 safeguards bivalent developmental enhancers in poised states through restraining excessive H3K27me3 deposition [RNA-Seq] 18 samples shares restraining, safeguards
- GSE267126 scHiCAR: a tri-modal single-cell genomics technology for integrated transcriptome, epigenome, and 3D genome analysis in complex tissues [mouse_brain_scHiCAR_2] 80 samples shares epigenome, complex
- GSE304674 scHiCAR: a tri-modal single-cell genomics technology for integrated transcriptome, epigenome, and 3D genome analysis in complex tissues [mouse_skeletal_muscle_scHiCAR] 50 samples shares epigenome, complex
- GSE252760 OGT prevents DNA demethylation and suppresses the expression of transposable elements in heterochromatin by restraining TET activity genome-wide 16 samples shares restraining, activity
- GSE267118 scHiCAR: a tri-modal single-cell genomics technology for integrated transcriptome, epigenome, and 3D genome analysis in complex tissue [mouse_brain_bulk_HiCAR] 9 samples shares epigenome, complex
- GSE305439 scHiCAR: a tri-modal single-cell genomics technology for integrated transcriptome, epigenome, and 3D genome analysis in complex tissues [mouse_brain_scHiCAR_1] 4 samples shares epigenome, complex
- GSE234965 Preventing CpG hypermethylation in oocytes safeguards mouse development [RNA-seq] 533 samples shares safeguards
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.