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Erlotinib Suppresses Tumorigenesis in a Mouse Model of Colitis-Associated Cancer

GSE263502 Mus musculus (mouse) RNA-seq (gene expression) 12 samples Submitted 2025/03/13 Platform GPL21626
At a glance

RNA-seq (gene expression) · mouse · 12 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
Mus musculus (mouse)
Samples
12 samples: 4 × Mouse colon, Control vs 4 × Mouse colon, CAC vs 4 × Mouse colon, CAC+Erl70Groups 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
Erlotinib suppresses tumorigenesis in a mouse model of colitis-associated cancerBiomedicine & pharmacotherapy = Biomedecine & pharmacotherapie · 2024
Summary (written by the submitters)
Colitis-associated cancer (CAC) in inflammatory bowel diseases exhibits more aggressive behavior than sporadic colorectal cancer; however, the molecular mechanisms remain unclear. No definitive preventative agent against CAC is currently established in the clinical setting. We investigated the molecular mechanisms of CAC in the azoxymethane/dextran sulfate sodium (AOM/DSS) mouse model and assessed the antitumor efficacy of erlotinib, a small molecule inhibitor of the epidermal growth factor receptor (EGFR).
Read the full summary ↓
Erlotinib premixed with AIN-93G diet at 70 or 140 parts per million (ppm) inhibited tumor multiplicity significantly by 96%, with ~60% of the treated mice exhibiting zero polyps at 12 weeks. Bulk RNA-sequencing revealed more than a thousand significant gene alterations in the colons of AOM/DSS-treated mice, with KEGG enrichment analysis highlighting 46 signaling pathways in CAC development. Erlotinib altered several signaling pathways and rescued 40 key genes dysregulated in CAC, including those involved in the Hippo and Wnt signaling. These findings suggest that the clinically-used antitumor agent erlotinib might be repurposed for suppression of CAC, and that further studies are warranted on the crosstalk between dysregulated Wnt and EGFR signaling in the corresponding patient population.
Published in
Erlotinib suppresses tumorigenesis in a mouse model of colitis-associated cancer
Liu M, Zhong XS, Krishnachaitanya SS et al. · Biomedicine & pharmacotherapy = Biomedecine & pharmacotherapie 2024 · PMID 38723513 · doi:10.1016/j.biopha.2024.116580
This dataset
Open GSE263502 in finder → Find more mouse RNA-seq datasets →
Download · which file do I need?

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.

1 · Just have a look

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.

Series matrix ↓
2 · Re-analyse it

Supplementary files

The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE263502_RAW.tar (it can run to tens of gigabytes).

All supplementary files ↗ Whole study · RAW.tar ↓
3 · Start from the raw reads

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.

Raw reads on ENA ↗

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 PRJNA1097651 and SRA study SRP500370. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 38723513) ↗
Study design
4 × Mouse colon, Control vs 4 × Mouse colon, CAC vs 4 × Mouse colon, CAC+Erl70

Supports a between-group comparison across 12 samples.

How we read this: 3 replicated groups read from 12 sample titles; they account for 12 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.

Samples in this study
Datasets on a similar topic

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