CytoDNA triggered NP cell inflammatory senescence via cGAS-STING axis sensing but not AIM2 inflammasome activation
RNA-seq (gene expression) · human · 18 samples
- What it is
- RNA-seq (gene expression)Gene activity measured by sequencing. The summary does not mention single-cell work, so this is most likely bulk: one average per sample, the usual starting point for comparing groups.
- Organism
- Homo sapiens (human)
- Samples
- 18 samples: 18 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 GSE245147_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: For RNA-seq the counts are usually a table among the supplementary files (look for 'counts', 'expression', 'FPKM' or 'TPM' in the file name). The series matrix of a sequencing study is sometimes nearly empty.
Also filed as BioProject PRJNA1027236 and SRA study SRP465994. 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 18 sample titles: 18 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.
- GSM7837568 Degenerated nucleus pulposus cells #1 for RNA-seq
- GSM7837569 Degenerated nucleus pulposus cells #2 for RNA-seq
- GSM7837570 Degenerated nucleus pulposus cells #3 for RNA-seq
- GSM7837571 No-degenerated nucleus pulposus cells #1 for RNA-seq
- GSM7837572 No-degenerated nucleus pulposus cells #2 for RNA-seq
- GSM7837573 No-degenerated nucleus pulposus cells #3 for RNA-seq
- GSM7837574 P8 nucleus pulposus cells #1 for RNA-seq
- GSM7837575 P8 nucleus pulposus cells #2 for RNA-seq
- GSM7837576 P8 nucleus pulposus cells #3 for RNA-seq
- GSM7837577 P2 nucleus pulposus cells #1 for RNA-seq
- GSM7837578 P2 nucleus pulposus cells #2 for RNA-seq
- GSM7837579 P2 nucleus pulposus cells #3 for RNA-seq
- GSM7837580 P8 nucleus pulposus cells treated with DMSO #1 for RNA-seq
- GSM7837581 P8 nucleus pulposus cells treated with DMSO #2 for RNA-seq
- GSM7837582 P8 nucleus pulposus cells treated with DMSO #3 for RNA-seq
- GSM7837583 P8 nucleus pulposus cells treated with H-151 #1 for RNA-seq
- GSM7837584 P8 nucleus pulposus cells treated with H-151 #2 for RNA-seq
- GSM7837585 P8 nucleus pulposus cells treated with H-151 #3 for RNA-seq
- GSE223762 Senescence-associated dysregulation of translation inhibits activation of the integrated stress response 54 samples shares senescence, activation
- GSE295260 CDK4/6 inhibition induces a senescence-associated secretory phenotype via delayed NF-κB activation 40 samples shares senescence, activation
- GSE267788 Mechanical stretch induces senescence of alveolar epithelial cells and drives fibroblast activation by paracrine mechanisms 25 samples shares senescence, activation
- GSE282206 NLRP1 inflammasome activation in skin equivalents reveals mechanistic insights into the roles of keratinocytes in psoriasis 24 samples shares inflammasome, activation
- GSE270902 Twist1-induced suppression of oncogene-induced senescence in non-small cell lung cancer requires the transactivation domain of Twist1 12 samples shares senescence, activation
- GSE267787 Mechanical stretch induces senescence of alveolar epithelial cells and drives fibroblast activation by paracrine mechanisms III 10 samples shares senescence, activation
- GSE295258 CDK4/6 inhibition induces a senescence-associated secretory phenotype via delayed NF-κB activation 54 samples shares senescence, activation
- GSE295261 CDK4/6 inhibition induces a senescence-associated secretory phenotype via delayed NF-κB activation [CUT&Tag] 24 samples shares senescence, 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.