GEO series

Dietary tyramine promotes colon cancer risk and development via increased DNA damage and enhanced inflammation [ApcMin/+]

GSE235264 Mus musculus (mouse) RNA-seq (gene expression) 69 samples Submitted 2025/03/05 Platform GPL21103

At a glance

RNA-seq (gene expression) · mouse · 69 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: 69 samples: 69 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: Roux-en-Y gastric bypass-associated fecal tyramine promotes colon cancer risk via increased DNA damage, cell proliferation, and inflammationMicrobiome · 2025

Summary (written by the submitters)

High consumption of dietary red or processed meat and fat are linked to increased risk of colorectal cancer (CRC). A number of potential mechanisms have been reported, such as the presence of dietary carcinogenic compounds, and elevated gut microbial degradation of proteins and glycoproteins. Tyramine is a commonly found biogenic amine in processed food and can also be produced by the gut microbiota from the dietary amino acid tyrosine.

Read the full summary ↓

The role of tyramine in intestinal mucosal health and CRC tumorigenesis has not been well studied. Therefore, we used the human colorectal HCT116 cell line and the ApcMin/+ mouse model to investigate the role of tyramine in CRC.

Published in

Roux-en-Y gastric bypass-associated fecal tyramine promotes colon cancer risk via increased DNA damage, cell proliferation, and inflammation

Glymenaki M, Curio S, Shrestha S et al. · Microbiome 2025 · PMID 40022152 · doi:10.1186/s40168-025-02049-2

This dataset

Open GSE235264 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 GSE235264_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 PRJNA985636 and SRA study SRP445053. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 40022152) ↗

Study design

69 samples, each with a distinct title — no replicated groups

Supports a case/control comparison: 12 samples read as cases, 57 as controls.

How we read this: Read from 69 sample titles: 69 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.

Samples in this study

GSM7498000 APC_699, APCmin/+, water, ileum, tumour
GSM7498001 APC_700, APCmin/+, tyramine, ileum, tumour
GSM7498002 APC_706, APCmin/+, tyramine, ileum, tumour
GSM7498003 APC_713, APCmin/+, water, ileum, tumour
GSM7498004 APC_718, APCmin/+, tyramine, ileum, tumour
GSM7498005 APC_853, APCmin/+, water, ileum, tumour
GSM7498006 APC_856, APCmin/+, tyramine, ileum, tumour
GSM7498007 APC_858, APCmin/+, water, ileum, tumour
GSM7498008 APC_860, APCmin/+, tyramine, ileum, tumour
GSM7498009 APC_864, APCmin/+, tyramine, ileum, tumour
GSM7498010 APC_865, APCmin/+, water, ileum, tumour
GSM7498011 APC_866, APCmin/+, water, ileum, tumour
GSM7498012 APC_699, APCmin/+, water, ileum, healthy
GSM7498013 APC_700, APCmin/+, tyramine, ileum, healthy
GSM7498014 APC_701, APCmin/+, water, ileum, healthy
GSM7498015 APC_702, wt, tyramine, ileum, healthy
GSM7498016 APC_704, APCmin/+, water, ileum, healthy
GSM7498017 APC_705, wt, water, ileum, healthy
GSM7498018 APC_706, APCmin/+, tyramine, ileum, healthy
GSM7498019 APC_708, wt, water, ileum, healthy
GSM7498020 APC_709, APCmin/+, water, ileum, healthy
GSM7498021 APC_710, wt, tyramine, ileum, healthy
GSM7498022 APC_711, wt, water, ileum, healthy
GSM7498023 APC_712, APCmin/+, tyramine, ileum, healthy
GSM7498024 APC_713, APCmin/+, water, ileum, healthy
GSM7498025 APC_714, wt, tyramine, ileum, healthy
GSM7498026 APC_716, wt, water, ileum, healthy
GSM7498027 APC_717, wt, tyramine, ileum, healthy
GSM7498028 APC_703, APCmin/+, tyramine, ileum, healthy
GSM7498029 APC_719, APCmin/+, water, ileum, healthy
GSM7498030 APC_853, APCmin/+, water, ileum, healthy
GSM7498031 APC_854, wt, water, ileum, healthy
GSM7498032 APC_707, APCmin/+, tyramine, ileum, healthy
GSM7498033 APC_715, APCmin/+, tyramine, ileum, healthy
GSM7498034 APC_857, wt, tyramine, ileum, healthy
GSM7498035 APC_858, APCmin/+, water, ileum, healthy
GSM7498036 APC_859, APCmin/+, tyramine, ileum, healthy
GSM7498037 APC_860, APCmin/+, tyramine, ileum, healthy
GSM7498038 APC_723, wt, tyramine, ileum, healthy
GSM7498039 APC_862, wt, water, ileum, healthy

+ 29 more — browse all 69 samples with per-sample file links →

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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.