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ALKBH8-Mediated Codon-Specific Translation Promotes Colorectal Tumorigenesis

GSE278268 Mus musculus (mouse) RNA-seq (gene expression) 20 samples Submitted 2025/08/24 Platform GPL24247Platform GPL24676Platform GPL28330
At a glance

RNA-seq (gene expression) · mouse · 20 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)
Topic
Colorectal cancerThis series is part of our curated briefing on it.
Samples
20 samples: 6 conditions, mostly in duplicateGroups 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
ALKBH8-mediated codon-specific translation promotes colorectal tumorigenesisNature communications · 2025
Summary (written by the submitters)
Reprogramming gene expression at the translational level drives intestinal tumorigenesis. Codon decoding during translation elongation relies on tRNA modifications, while their pathological relevance in colorectal cancer remains to be elucidated. Here, we show that AlkB homolog 8 (ALKBH8), a uridine 34 (U34) tRNA methyltransferase, is a direct target of Wnt/β-catenin and is upregulated in colorectal cancer.
Read the full summary ↓
Genetic ablation of ALKBH8 inhibits the development of intestinal tumors in Apcmin/+, AOM/DSS, and xenograft models. Loss of ALKBH8 induces ribosome pausing at adenine-ending codons, impairing the translation elongation of mRNAs enriched with these codons. Specifically, ALKBH8 regulates the translation of KRAS proto-oncogene in a codon-dependent manner. Rescue experiments demonstrate that the methyltransferase activity of ALKBH8 is required for its translation-promoting function. Together, our findings reveal ALKBH8-dependent mRNA translation as a critical mediator of intestinal tumorigenesis, underscoring its potential as a promising target for colorectal cancer therapy.
Published in
ALKBH8-mediated codon-specific translation promotes colorectal tumorigenesis
Qian Y, Wu C, Wei S et al. · Nature communications 2025 · PMID 41083459 · doi:10.1038/s41467-025-64144-0
This dataset
Open GSE278268 in finder → Find more RNA-seq datasets → Colorectal cancer landscape →
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 GSE278268_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 PRJNA1166187 and SRA study SRP535313. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 41083459) ↗
Study design
6 conditions, mostly in duplicate
Ctrl_Ribo ×2 A8KO_Ribo ×2 Ctrl_RNA ×2 A8KO_RNA ×2 shCon_RNA ×2 shCatenin_RNA ×2 A8OE_RNA ×1 A8OE_Ribo ×1 +6 more

Supports a between-group comparison across 12 samples.

How we read this: 6 replicated groups read from 20 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
More Colorectal cancer datasets

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