Loss of Nuclear Receptor Nr4a3 Alleviates Cellular Senescence to Promote Adult Direct Cardiac Reprogramming (ATAC-Seq)
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 16 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
- 16 samples: 16 samples, each with a distinct title — no replicated groupsGroups 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.
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 GSE267447_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 PRJNA1111526 and SRA study SRP507623. Searching any of these in the dataset finder brings you back here.
Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Read from 16 sample titles: 16 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.
- GSM8266874 Lacz_Neo_1_replicate 1, Lacz, Day3
- GSM8266875 Lacz_Neo_2_replicate 1, Lacz, Day3
- GSM8266876 Lacz_Adult_1_replicate 1, Lacz, Day3
- GSM8266877 Lacz_Adult_2_replicate 1, Lacz, Day3
- GSM8266878 Lacz_Aged_1_replicate 1, Lacz, Day3
- GSM8266879 Lacz_Aged_2_replicate 1, Lacz, Day3
- GSM8266880 MGT_Neo_1_replicate 1, MGT, Day3
- GSM8266881 MGT_Neo_2_replicate 1, MGT, Day3
- GSM8266882 MGT_Adult_1_replicate 1, MGT, Day3
- GSM8266883 MGT_Adult_2_replicate 1, MGT, Day3
- GSM8266884 MGT_Aged_1_replicate 1, MGT, Day3
- GSM8266885 MGT_Aged_2_replicate 1, MGT, Day3
- GSM8266886 Adult CFs, MGT+shNT replicate 1, Day7
- GSM8266887 Adult CFs, MGT+shNT replicate 2, Day7
- GSM8266888 Adult CFs, MGT+shNr4a3 replicate 1, Day7
- GSM8266889 Adult CFs, MGT+shNr4a3 replicate 2, Day7
- GSE267452 Loss of Nuclear Receptor Nr4a3 Alleviates Cellular Senescence to Promote Adult Direct Cardiac Reprogramming 54 samples shares nr4a3, reprogramming, alleviates, senescence, receptor, cellular, nuclear
- GSE302858 Multi-tier signaling and epigenomic reprogramming drive microglial inflammatory states and functions associated with demyelination [ATAC-seq] 42 samples shares reprogramming, atac-seq
- GSE304037 Decoupling oxidative resilience from reprogramming to rejuvenate the RPE and restore vision [GSTA4_ATAC-seq_1] 42 samples shares reprogramming, atac-seq
- GSE279042 Reprogramming of epidermal keratinocytes by PITX1 transforms the cutaneous cellular landscape and promotes wound healing [CUT&Tag] 30 samples shares reprogramming, cellular
- GSE286574 Intrauterine hyperglycemia impairs primordial germ cell development and fertility by sex-specific epigenetic reprogramming interference in mice offspring [ATAC-seq] 30 samples shares reprogramming, atac-seq
- GSE242709 Global transcriptional profiles of primary and secondary cellular senescence in vivo by oncogene-induced senescence (OIS) and stress-induced senescence (SIS) 76 samples shares senescence, cellular
- GSE294258 Intracellular iron homeostasis-regulated epigenetic reprogramming contributes to -7/del(7q) leukemia 71 samples shares reprogramming, cellular
- GSE301501 Extracellular matrix reprogramming by the YAP/TAZ/TGF-ß2 axis drives immune exclusion in cholangiocarcinoma models 45 samples shares reprogramming, cellular
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.