Comparative analysis of replicative and doxorubicin-induced senescence identifies conserved transcriptomic signatures in aging fibroblasts [RNA-Seq1]
RNA-seq (gene expression) · human · 21 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
- 21 samples: 7 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
- Targeting PURPL RNA enabled rejuvenation of senescence cells via epigenetic reprogrammingJournal of translational medicine · 2025
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 GSE301164_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 PRJNA1284213 and SRA study SRP596169. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 21 samples.
How we read this: 7 replicated groups read from 21 sample titles; they account for 21 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.
- GSM9076606 BJ P3,rep1 BJ P3,
- GSM9076607 BJ P3,rep2 BJ P3,
- GSM9076608 BJ P3,rep3 BJ P3,
- GSM9076609 BJ P11,rep1 BJ P11,
- GSM9076610 BJ P11,rep2 BJ P11,
- GSM9076611 BJ P11,rep3 BJ P11,
- GSM9076612 BJ P24,rep1 BJ P24,
- GSM9076613 BJ P24,rep2 BJ P24,
- GSM9076614 BJ P24,rep3 BJ P24,
- GSM9076615 BJ P30,rep1 BJ P30,
- GSM9076616 BJ P30,rep2 BJ P30,
- GSM9076617 BJ P30,rep3 BJ P30,
- GSM9076618 BJ P33,rep1 BJ P33,
- GSM9076619 BJ P33,rep2 BJ P33,
- GSM9076620 BJ P33,rep3 BJ P33,
- GSM9076621 BJ P11_DOX_50ngml,rep1 BJ P11_DOX_50ngml,
- GSM9076622 BJ P11_DOX_50ngml,rep2 BJ P11_DOX_50ngml,
- GSM9076623 BJ P11_DOX_50ngml,rep3 BJ P11_DOX_50ngml,
- GSM9076624 BJ P11_DMSO,rep1 BJ P11_DMSO,
- GSM9076625 BJ P11_DMSO,rep2 BJ P11_DMSO,
- GSM9076626 BJ P11_DMSO,rep3 BJ P11_DMSO,
- GSE282384 Substrate Stiffness Dictates Unique Doxorubicin-induced Senescence-associated Secretory Phenotypes and Transcriptomic Signatures in Human Pulmonary Fibroblasts 12 samples shares doxorubicin-induced, fibroblasts, senescence, signatures
- GSE315862 Targeting the Non-Homologous End-Joining Pathway Sensitizes MDM2-Amplified Liposarcoma to Doxorubicin-Induced Senescence, p53-Mediated Senescence. 36 samples shares doxorubicin-induced, senescence
- GSE292067 Human single nuclear RNA sequencing identifies CD47 as a therapeutic target for doxorubicin-induced cardiomyopathy 25 samples shares doxorubicin-induced, identifies
- GSE331395 Replicative senescence in neural progenitors induces senescence-associated markers in midbrain organoids 24 samples shares replicative, senescence
- GSE300879 Identification of replicative aging and inflammatory aging signatures via whole-genome CRISPRi screens 16 samples shares replicative, signatures
- GSE238252 Rapid and synchronous chemical induction of replicative-like senescence via a small molecule inhibitor [bulk RNA-seq] 14 samples shares replicative, senescence
- GSE311038 Multi-omics integrative approach of senescent endothelial cells and derived extracellular vesicles in a replicative senescence model [RNA-seq] 12 samples shares replicative, senescence
- GSE146575 Genome wide expression analysis of the impact of rapamycin and DOT1L inhibitor treatment upon the progression of replicative senescence 12 samples shares replicative, senescence
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.