XRCC1 Deficiency Drives Telomeric Chromatin Leakage, Inflammatory signaling and Senescence in Cancer Cells
RNA-seq (gene expression) · human · 9 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
- 9 samples: 3 × MCF10A, Control-KO, vs 3 × MCF10A, APE1-KO, vs 3 × MCF10A, XRCC1-KO,Groups 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
- XRCC1 deficiency drives telomeric chromatin leakage, inflammatory signalling and senescenceRedox biology · 2026
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 GSE301192_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 PRJNA1284243 and SRA study SRP596225. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 9 samples.
How we read this: 3 replicated groups read from 9 sample titles; they account for 9 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.
- GSM9076999 MCF10A, Control-KO, repl 1 MCF10A, Control-KO,
- GSM9077000 MCF10A, Control-KO, repl 2 MCF10A, Control-KO,
- GSM9077001 MCF10A, Control-KO, repl 3 MCF10A, Control-KO,
- GSM9077002 MCF10A, APE1-KO, repl 1 MCF10A, APE1-KO,
- GSM9077003 MCF10A, APE1-KO, repl 2 MCF10A, APE1-KO,
- GSM9077004 MCF10A, APE1-KO, repl 3 MCF10A, APE1-KO,
- GSM9077005 MCF10A, XRCC1-KO, repl 1 MCF10A, XRCC1-KO,
- GSM9077006 MCF10A, XRCC1-KO, repl 2 MCF10A, XRCC1-KO,
- GSM9077007 MCF10A, XRCC1-KO, repl 3 MCF10A, XRCC1-KO,
- GSE267788 Mechanical stretch induces senescence of alveolar epithelial cells and drives fibroblast activation by paracrine mechanisms 25 samples shares senescence, drives
- GSE314625 WSTF deficiency reprograms regulatory networks by linking locus‑specific chromatin remodeling to altered isoform expression and misdirected signaling [mRNA-seq] 18 samples shares deficiency, chromatin
- GSE249492 ARID1A regulates DSB repair through chromatin organization and its deficiency triggers DNA damage-mediated immune response 280 samples shares deficiency, chromatin
- GSE249442 ARID1A regulates DSB repair through chromatin organization and its deficiency triggers DNA damage-mediated immune response [ACT-seq] 48 samples shares deficiency, chromatin
- GSE249439 ARID1A regulates DSB repair through chromatin organization and its deficiency triggers DNA damage-mediated immune response [ATAC-seq] 48 samples shares deficiency, chromatin
- GSE243047 METTL3-mediated chromatin contacts promote phase separation during senescence. 22 samples shares senescence, chromatin
- GSE301514 ID3 Deficiency Alters Chromatin Accessibility at DSB Sites and Enhances Vulnerability to HDAC Inhibition [ATAC-seq] 12 samples shares deficiency, chromatin
- GSE330223 Convergence of cytokine dysregulation and antibody deficiency in common variable immunodeficiency with inflammatory complications 42 samples shares deficiency
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.