TET activity propagates transcriptional memory through embryonic dormancy [CUT&Tag]
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 28 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
- 28 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
- TET activity safeguards pluripotency throughout embryonic dormancyNature structural & molecular biology · 2024
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 GSE221466_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 PRJNA914424 and SRA study SRP414187. 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 28 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.
- 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
- GSM6873740 TFE3_WT_144h_rep1 TFE3_WT_144h
- GSM6873741 TFE3_WT_144h_rep2 TFE3_WT_144h
- GSE276682 Single-cell transcriptome analysis revealed cellular reprogramming following Tetramethylpyrazine treatment in LPS-induced acute lung injury 12 samples shares tet, cut
- GSE289642 Noncanonical PRC2 chromatin association reveals a key role of EZHIP in intergenerational epigenetic memory transition [ChIP-Seq, Cut & Run] 107 samples shares cut, memory
- GSE336091 KMT2C catalytic activity regulates enhancer H3K4me1 and synaptic gene expression in cortical excitatory neurons [CUT&Tag] 48 samples shares cut, activity
- GSE313359 Hippocampal estrogen levels, receptor types and epigenetics contribute to sex-specific memory-vulnerabilities to concurrent acute stresses [Cut & Run] 45 samples shares cut, memory
- GSE253201 Altered DNA methylation underlies monocyte dysregulation and immune exhaustion memory in sepsis [CUT&RUN] 18 samples shares cut, memory
- GSE294521 Transcriptional remodeling by OTX2 directs specification and patterning of mammalian definitive endoderm [CUTnTAG] 34 samples shares cut
- GSE304211 H4K16ac contributes to chromatin compartment reorganization during mitotic and meiotic transitions [CUTnTAG] 128 samples shares cut
- GSE297309 SKP1A-mediated degradation of PRC2 triggers activation of Polycomb-silenced gene [CUT&Tag] 108 samples shares cut
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.