Decoding Trp53 regulatory program in various tissues and organs
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 404 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
- 404 samples: 331 distinct titles, 64 of them repeatedGroups 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
- Dissecting cross-lineage tumourigenesis under p53 inactivation through single-cell multi-omics and spatial transcriptomicsClinical and translational medicine · 2025
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 GSE217664_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 PRJNA899903 and SRA study SRP407088. Searching any of these in the dataset finder brings you back here.
Supports a case/control comparison: 2 samples read as cases, 5 as controls.
How we read this: Read from the first 400 of 404 sample titles: 331 distinct titles with little repetition. 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.
- GSM6716825 Bladder, 3_month-old_mouse01, rep1
- GSM6716826 Bladder, 3_month-old_mouse02, rep2
- GSM6716827 Bladder, 3_month-old_mouse03, rep3
- GSM6716828 Bladder, 3_month-old_mouse04, rep4
- GSM6716829 BoneMarrow, 3_month-old_mouse03, rep3
- GSM6716830 BoneMarrow, 3_month-old_mouse01, rep1
- GSM6716831 BoneMarrow, 3_month-old_mouse02, rep2
- GSM6716832 Brain, 3_month-old_mouse01, rep1
- GSM6716833 Brain, 3_month-old_mouse05, rep2
- GSM6716834 Brain, 3_month-old_mouse04, rep3
- GSM6716835 GallbladderBileDuct, 3_month-old_mouse01, rep1
- GSM6716836 GallbladderBileDuct, 3_month-old_mouse02, rep2
- GSM6716837 GallbladderBileDuct, 3_month-old_mouse03, rep3
- GSM6716838 Heart, 3_month-old_mouse01, rep1
- GSM6716839 Heart, 3_month-old_mouse02, rep2
- GSM6716840 Heart, 3_month-old_mouse03, rep3
- GSM6716841 Kidney, 3_month-old_mouse01, rep1
- GSM6716842 Kidney, 3_month-old_mouse02, rep2
- GSM6716843 Kidney, 3_month-old_mouse03, rep3
- GSM6716844 LargeIntestine, 3_month-old_mouse01, rep1
- GSM6716845 LargeIntestine, 3_month-old_mouse02, rep2
- GSM6716846 LargeIntestine, 3_month-old_mouse03, rep3
- GSM6716847 Liver, 3_month-old_mouse01, rep1
- GSM6716848 Liver, 3_month-old_mouse02, rep2
- GSM6716849 Liver, 3_month-old_mouse03, rep3
- GSM6716850 Lung, 3_month-old_mouse01, rep1
- GSM6716851 Lung, 3_month-old_mouse02, rep2
- GSM6716852 Lung, 3_month-old_mouse03, rep3
- GSM6716853 LymphNodes, 3_month-old_mouse03, rep3
- GSM6716854 LymphNodes, 3_month-old_mouse01, rep1
- GSM6716855 LymphNodes, 3_month-old_mouse02, rep2
- GSM6716856 MammaryGland, 3_month-old_mouse01, rep1
- GSM6716857 MammaryGland, 3_month-old_mouse02, rep2
- GSM6716858 MammaryGland, 3_month-old_mouse03, rep3
- GSM6716859 Ovary, 3_month-old_mouse01, rep1
- GSM6716860 Ovary, 3_month-old_mouse02, rep2
- GSM6716861 Ovary, 3_month-old_mouse03, rep3
- GSM6716862 Pancreas, 3_month-old_mouse05, rep1
- GSM6716863 Pancreas, 3_month-old_mouse04, rep2
- GSM6716864 Pancreas, 3_month-old_mouse06, rep3
+ 364 more — browse all 404 samples with per-sample file links →
- GSE267884 Foxp3 and BATF cooperatively direct cis-regulatory programs and gene expression for effector Treg cell differentiation [scMultiome] 16 samples shares regulatory, program
- GSE322558 Physiologic variation in sperm miRNAs tunes embryonic gene regulatory programs and developmental outcomes 622 samples shares regulatory, program
- GSE241378 Alternative splicing of a chromatin modifier alters the transcriptional regulatory programs of embryonic stem cell maintenance and neuronal differentiation. 36 samples shares regulatory, program
- GSE267882 Foxp3 and BATF cooperatively direct cis-regulatory programs and gene expression for effector Treg cell differentiation [ChIP-Seq] 34 samples shares regulatory, program
- GSE267967 Foxp3 and BATF cooperatively direct cis-regulatory programs and gene expression for functional differentiation of Treg cells [RNA-seq] 26 samples shares regulatory, program
- GSE237954 Oncofetal reprogramming drives phenotypic plasticity in WNT-dependent colorectal cancer 122 samples shares program
- GSE254090 A cell type-aware framework for nominating non-coding variants in Mendelian regulatory disorders 87 samples shares regulatory
- GSE294258 Intracellular iron homeostasis-regulated epigenetic reprogramming contributes to -7/del(7q) leukemia 71 samples shares program
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.