cGAS-STING axis activation drove inflammatory phenotype acquisition of senescent nucleus pulposus cells via p65-mediated transcriptional modulation
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 12 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
- 12 samples: 12 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.
- Paper
- Disassembly of the TRIM56-ATR complex promotes cytoDNA/cGAS/STING axis-dependent intervertebral disc inflammatory degenerationThe Journal of clinical investigation · 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 GSE244403_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 PRJNA1022798 and SRA study SRP464016. 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 12 sample titles: 12 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.
- GSM7815488 Degenerated NP cells #1 for p65 CUT&Tag
- GSM7815489 Degenerated NP cells #2 for p65 CUT&Tag
- GSM7815490 Degenerated NP cells #3 for p65 CUT&Tag
- GSM7815491 No-degenerated NP cells #1 for p65 CUT&Tag
- GSM7815492 No-degenerated NP cells #2 for p65 CUT&Tag
- GSM7815493 No-degenerated NP cells #3 for p65 CUT&Tag
- GSM7815494 Senescent NP cells treated with DMSO #1 for p65 CUT&Tag
- GSM7815495 Senescent NP cells treated with DMSO #2 for p65 CUT&Tag
- GSM7815496 Senescent NP cells treated with DMSO #3 for p65 CUT&Tag
- GSM7815497 Senescent NP cells treated with H-151 #1 for p65 CUT&Tag
- GSM7815498 Senescent NP cells treated with H-151 #2 for p65 CUT&Tag
- GSM7815499 Senescent NP cells treated with H-151 #3 for p65 CUT&Tag
- GSE295260 CDK4/6 inhibition induces a senescence-associated secretory phenotype via delayed NF-κB activation 40 samples shares activation, phenotype
- GSE301995 The tyrosine kinase inhibitor GNF-7 targets senescent cells through allosteric activation of GCN2 15 samples shares activation, senescent
- GSE235244 Senescent cancer-associated fibroblasts in pancreatic adenocarcinoma suppress CD8+ T cell activation and inhibit response to immune checkpoint therapy [hPDAC] 8 samples shares activation, senescent
- GSE304612 Inhibition of p300/CREBBP catalytic activity drives context-dependent transcriptional activation in AML. [ChIP-seq] 95 samples shares activation
- GSE339049 Severe long-COVID is driven by monocyte reprogramming and broad immune dysregulation linked to herpesvirus activation 48 samples shares activation
- GSE264550 Machine learning identifies activation of RUNX/AP-1 as drivers of mesenchymal and fibrotic regulatory programs in gastric cancer 25 samples shares activation
- GSE294545 Metabolic licensing of quiescent glioblastoma activation and immune evasion via astrocyte-mitochondria shuttle 20 samples shares activation
- GSE229594 IRF2BP2 counteracts the ATF7/JDP2 heterodimer to prevent inflammatory overactivation in AML cells [ChIP-seq] 15 samples shares activation
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.