Mechanism for controlled assembly of transcriptional condensates by Aire [ChIP-seq]
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 46 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
- Homo sapiens (human)
- Samples
- 46 samples: 16 conditions, mostly in triplicateGroups 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
- Mechanism for controlled assembly of transcriptional condensates by AireNature immunology · 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 GSE243824_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 PRJNA1020118 and SRA study SRP462690. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 42 samples.
How we read this: 16 replicated groups read from 46 sample titles; they account for 42 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.
- GSM7796138 AIRE WT, input ctrl
- GSM7796139 AIRE WT, ChIP, rep1 AIRE WT, ChIP,
- GSM7796140 AIRE WT, ChIP, rep2 AIRE WT, ChIP,
- GSM7796141 AIRE DCTT.R3, input ctrl
- GSM7796142 AIRE DCTT.R3, ChIP , rep1 AIRE DCTT.R3, ChIP ,
- GSM7796143 AIRE DCTT.R3, ChIP , rep2 AIRE DCTT.R3, ChIP ,
- GSM7796144 AIRE DCARD, input ctrl
- GSM7796145 AIRE DCARD, ChIP, rep1 AIRE DCARD, ChIP,
- GSM7796146 AIRE DCARD, ChIP, rep2 AIRE DCARD, ChIP,
- GSM7796147 AIRE DPHD1, input ctrl
- GSM7796148 AIRE DPHD1, ChIP, rep1 AIRE DPHD1, ChIP,
- GSM7796149 AIRE DPHD1, ChIP, rep2 AIRE DPHD1, ChIP,
- GSM7796150 AIRE WT, DMSO, rep1 AIRE WT, DMSO,
- GSM7796151 AIRE WT, DMSO, rep2 AIRE WT, DMSO,
- GSM7796152 AIRE WT, DMSO, rep3 AIRE WT, DMSO,
- GSM7796153 AIRE WT, dCBP1, rep1 AIRE WT, dCBP1,
- GSM7796154 AIRE WT, dCBP1, rep2 AIRE WT, dCBP1,
- GSM7796155 AIRE WT, A485, rep1 AIRE WT, A485,
- GSM7796156 AIRE WT, A485, rep2 AIRE WT, A485,
- GSM7796157 AIRE WT, A485, rep3 AIRE WT, A485,
- GSM7796158 p300, no Dox, rep1 p300, no Dox,
- GSM7796159 p300, no Dox, rep2 p300, no Dox,
- GSM7796160 H3K27ac, no Dox, rep1 H3K27ac, no Dox,
- GSM7796161 H3K27ac, no Dox, rep2 H3K27ac, no Dox,
- GSM7796162 H3K27ac, no Dox, rep3 H3K27ac, no Dox,
- GSM7796163 H3K4me1, no Dox, rep1 H3K4me1, no Dox,
- GSM7796164 H3K4me1, no Dox, rep2 H3K4me1, no Dox,
- GSM7796165 H3K4me1, no Dox, rep3 H3K4me1, no Dox,
- GSM7796166 H3K27me3, no Dox, rep1 H3K27me3, no Dox,
- GSM7796167 H3K27me3, no Dox, rep2 H3K27me3, no Dox,
- GSM7796168 H3K27me3, no Dox, rep3 H3K27me3, no Dox,
- GSM8268200 H3K4me1, Dox, rep1 H3K4me1, Dox,
- GSM8268201 H3K4me1, Dox, rep2 H3K4me1, Dox,
- GSM8268202 H3K4me1, Dox, rep3 H3K4me1, Dox,
- GSM8268203 H3K4me3, no Dox, rep1 H3K4me3, no Dox,
- GSM8268204 H3K4me3, no Dox, rep2 H3K4me3, no Dox,
- GSM8268205 H3K4me3, no Dox, rep3 H3K4me3, no Dox,
- GSM8268206 H3K4me3, Dox, rep1 H3K4me3, Dox,
- GSM8268207 H3K4me3, Dox, rep2 H3K4me3, Dox,
- GSM8268208 H3K4me3, Dox, rep3 H3K4me3, Dox,
+ 6 more — browse all 46 samples with per-sample file links →
- GSE224357 H3K27ac ChIP-seq and RNA-seq of papillary thyroid carcinoma patient's tissues and paired normal tissues 12 samples shares chip-seq, aire
- GSE304612 Inhibition of p300/CREBBP catalytic activity drives context-dependent transcriptional activation in AML. [ChIP-seq] 95 samples shares chip-seq
- GSE284519 TRIM33 loss reduces Androgen Receptor transcriptional output and H2BK120 ubiquitination [ChIP-seq] 93 samples shares chip-seq
- GSE280574 mChIP-seq for high-throughput epigenomic profiling reveals a decoupling of H2A.Z and H3K4me3 in cancer 576 samples shares chip-seq
- GSE260852 Cohesin acts as a transcriptional gatekeeper by restraining pause–release to promote processive elongation [ChIP-seq] 68 samples shares chip-seq
- GSE293334 Allelic topological centering by transcription factors drives oncogenic multi-enhancer transcriptional regulation [ChIP-seq] 60 samples shares chip-seq
- GSE296831 Epigenetic Context Defines the Transcriptional Activity of Canonical and Noncanonical NF-kappaB Signaling in Pancreatic Cancer [ChIP-Seq] 48 samples shares chip-seq
- GSE303331 Systematic investigation reveals extensive Epstein-Barr virus transcriptional regulation of the human genome [ChIP-seq] 38 samples shares chip-seq
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.