Restriction of innate Tgd17 cell plasticity by an AP-1 regulatory axis
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 13 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
- 13 samples: 13 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.
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 GSE290581_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 PRJNA1228653 and SRA study SRP517653. 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 13 sample titles: 13 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.
- GSM8374615 gd T cells and ILCs, naïve, ATAC
- GSM8374616 gd T cells and ILCs, naïve, GEX
- GSM8374617 gd T cells and ILCs, Salmonella typhimurium, ATAC
- GSM8374618 gd T cells and ILCs, Salmonella typhimurium, GEX
- GSM8817271 JunB rep 1, Vg6+ gd T
- GSM8817272 Fosl2 rep 1, Vg6+ gd T
- GSM8817273 IgG rep 1, Vg6+ gd T
- GSM8817274 JunB rep 2, Vg6+ gd T
- GSM8817275 Fosl2 rep 2, Vg6+ gd T
- GSM8817276 Fosl2 rep 3, Vg6+ gd T
- GSM8817277 IgG rep 2, Vg6+ gd T
- GSM8817278 JunB rep 3, Vg6+ gd T
- GSM8817279 IgG rep 3, Vg6+ gd T
- GSE223050 The activity of early-life gene regulatory elements is hijacked in aging through pervasive AP-1–linked chromatin opening 336 samples shares ap-1, regulatory
- GSE310539 AP-1 mediated chromatin changes govern alveolar type 2 cell transition in lung injury-repair [multiome] 8 samples shares ap-1
- GSE273079 Castration Increases Aggressiveness of Prostatic Luminal Progenitor Cells in Prostate Cancer Through FosL1/AP-1-Mediated Transcriptional Reprogramming 384 samples shares ap-1
- GSE310740 Modulating AP-1 enables CAR-T cells to establish an intratumoral stem-like reservoir and overcomes resistance to PD-1 blockade 16 samples shares ap-1
- GSE326173 Nuclear receptor Nur77 resolves the inflammatory response of macrophages primarily by regulating expression of AP-1 transcription factors and their target genes [ChIP-seq] 42 samples shares ap-1
- GSE325918 Nuclear receptor Nur77 resolves the inflammatory response of macrophages primarily by regulating expression of AP-1 transcription factors and their target genes [RNA-seq] 32 samples shares ap-1
- GSE273993 Nuclear receptor Nur77 resolves the inflammatory response of macrophages primarily by cis- and trans-regulation of AP-1 target genes [ChIP-Seq] 26 samples shares ap-1
- GSE288332 Neuronal type-specific modulation of cognition and AP-1 signaling by early-life rearing conditions. [ATAC-Seq] 18 samples shares ap-1
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.