TET activity propagates transcriptional memory through embryonic dormancy
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 266 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
- 266 samples: 122 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
- TET activity safeguards pluripotency throughout embryonic dormancyNature structural & molecular biology · 2024
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 GSE221470_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 PRJNA914421 and SRA study SRP414186. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 244 samples.
How we read this: 122 replicated groups read from 266 sample titles; they account for 244 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.
- GSM6873700 ATAC_WT_N_rep1 ATAC_WT_N
- GSM6873701 ATAC_WT_N_rep2 ATAC_WT_N
- GSM6873702 ATAC_WT_24h_rep1 ATAC_WT_24h
- GSM6873703 ATAC_WT_24h_rep2 ATAC_WT_24h
- GSM6873704 ATAC_WT_72h_rep1 ATAC_WT_72h
- GSM6873705 ATAC_WT_72h_rep2 ATAC_WT_72h
- GSM6873706 ATAC_WT_144h_rep2 ATAC_WT_144h
- GSM6873707 ATAC_WT_144h_rep1 ATAC_WT_144h
- GSM6873708 ATAC_KO_N_rep1 ATAC_KO_N
- GSM6873709 ATAC_KO_N_rep2 ATAC_KO_N
- GSM6873710 ATAC_KO_24h_rep2 ATAC_KO_24h
- GSM6873711 ATAC_KO_24h_rep1 ATAC_KO_24h
- GSM6873712 ATAC_KO_72h_rep1 ATAC_KO_72h
- GSM6873713 ATAC_KO_72h_rep2 ATAC_KO_72h
- GSM6873714 TET1_WT_144h_rep1 TET1_WT_144h
- GSM6873715 TET1_WT_144h_rep2 TET1_WT_144h
- GSM6873716 TET1_WT_24h_rep1 TET1_WT_24h
- GSM6873717 TET1_WT_24h_rep2 TET1_WT_24h
- GSM6873718 TET1_WT_72h_rep1 TET1_WT_72h
- GSM6873719 TET1_WT_72h_rep2 TET1_WT_72h
- GSM6873720 TET1_WT_N_rep1 TET1_WT_N
- GSM6873721 TET1_WT_N_rep2 TET1_WT_N
- GSM6873722 TET2_WT_144h_rep1 TET2_WT_144h
- GSM6873723 TET2_WT_144h_rep2 TET2_WT_144h
- GSM6873724 TET2_WT_24h_rep1 TET2_WT_24h
- GSM6873725 TET2_WT_24h_rep2 TET2_WT_24h
- GSM6873726 TET2_WT_72h_rep1 TET2_WT_72h
- GSM6873727 TET2_WT_72h_rep2 TET2_WT_72h
- GSM6873728 TET2_WT_N_rep1 TET2_WT_N
- GSM6873729 TET2_WT_N_rep2 TET2_WT_N
- GSM6873730 TFE3_DKO_72h_rep1 TFE3_DKO_72h
- GSM6873731 TFE3_DKO_72h_rep2 TFE3_DKO_72h
- GSM6873732 TFE3_DKO_N_rep1 TFE3_DKO_N
- GSM6873733 TFE3_DKO_N_rep2 TFE3_DKO_N
- GSM6873734 TFE3_WT_72h_rep1 TFE3_WT_72h
- GSM6873735 TFE3_WT_72h_rep2 TFE3_WT_72h
- GSM6873736 TFE3_WT_N_rep1 TFE3_WT_N
- GSM6873737 TFE3_WT_N_rep2 TFE3_WT_N
- GSM6873738 IgG_WT_N
- GSM6873739 IgG_WT_144h
+ 226 more — browse all 266 samples with per-sample file links →
- GSE224376 Control of naive T cell reactivity and peripheral tolerance by ascorbate and TET activity 80 samples shares tet, activity
- GSE318256 TET1 non-catalytic activity shapes the chromatin-landscape that directs de novo methylation establishment in the male germline 44 samples shares tet, activity
- GSE242033 SETD3 regulates endoderm differentiation of mouse embryonic stem cells through its effect on the canonical Wnt signaling pathway activity 24 samples shares embryonic, activity
- GSE247083 Lysosomal catabolic activity governs the exit of the murine totipotent 2-cell state by silencing early-embryonic retrotransposons 38 samples shares embryonic, activity
- GSE300964 Genetic inactivation of the Translin/Trax RNase activity alters small RNAs including miRNAs, disrupts gene expression and impairs distinct forms of hippocampal synaptic plasticity and memory 18 samples shares activity, memory
- GSE314221 Reducing CETP activity prevents memory decline in an Alzheimer’s disease mouse model. 16 samples shares activity, memory
- GSE247970 Cell of origin epigenetic priming determines susceptibility to Tet2 oncogenic mutation 76 samples shares tet
- GSE272970 Bulk liver RNA-sequencing of mice co-exposed to simvastatin and 2,3,7,8-tetrachlorodibenzo-p-dioxin (TCDD) 60 samples shares tet
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.