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Direct circMAN1A2(2,3,4,5)-CENPB mRNA interaction regulates cell proliferation and cancer progression

GSE274247 Homo sapiens (human) RNA-seq (gene expression) 32 samples Submitted 2025/07/27 Platform GPL24676Platform GPL20795
At a glance

RNA-seq (gene expression) · human · 32 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)
Topic
Colorectal cancerThis series is part of our curated briefing on it.
Samples
32 samples: 16 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
Direct circMAN1A2(2,3,4,5)-CENPB mRNA interaction regulates cell proliferation and cancer progressionNature communications · 2025
Summary (written by the submitters)
A large number of covalently closed circular RNAs (circRNAs), produced from back-splicing of eukaryotic exons, have been identified among different cell lines/tissues. Interestingly, multiple circRNAs could be produced from a single gene locus through alternative circularization (AC), expanding the complexity and diversity of circRNAs.
Read the full summary ↓
However, functions of most AC circRNAs remains poorly understood. Here, we profiled the landscape of AC across multiple cell lines and colorectal cancer (CRC) tissues, identifying predominantly expressed circRNAs (pe-circRNA) in each AC gene loci. While the expression of top pe-circRNAs exhibits a cell-type-specific manner, circMAN1A2(2,3,4,5), a pe-circRNA that is universally expressed in examined cells and CRC samples, was shown to play an important role in cell proliferation and CRC progression. Mechanistically, circMAN1A2(2,3,4,5) directly interacted with the 3' untranslated region of Centromere Protein B (CENPB) mRNA via its characteristic back-splicing junction site, which enhanced IGF2BP2-mediated CENPB mRNA stability. Inhibition of circMAN1A2(2,3,4,5) expression with specific shRNAs and locked nucleic acids (LNAs) resulted in repressed cell proliferation and tumor progression in the subcutaneous mouse CRC model. These results together uncover the prevalence of AC and the regulatory role of a specific AC circRNA, circMAN1A2(2,3,4,5), in cell proliferation and tumor progression.
Published in
Direct circMAN1A2(2,3,4,5)-CENPB mRNA interaction regulates cell proliferation and cancer progression
Cao M, Yuan GH, Cao SM et al. · Nature communications 2025 · PMID 41022764 · doi:10.1038/s41467-025-63686-7
This dataset
Open GSE274247 in finder → Find more human 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 GSE274247_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 PRJNA1145455 and SRA study SRP524820. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 41022764) ↗
Study design
16 conditions, mostly in duplicate
HT29, scramble, ×2 HT29, shRNA1 circMAN1A2(2,3,4,5) KD, ×2 HT29, shRNA2 circMAN1A2(2,3,4,5) KD, ×2 DLD-1, scramble, ×2 DLD-1, shRNA1 circMAN1A2(2,3,4,5) KD, ×2 DLD-1, shRNA2 circMAN1A2(2,3,4,5) KD, ×2 HeLa, scramble, ×2 HeLa, shRNA1 circMAN1A2(2,3,4,5) KD, ×2 +8 more

Supports a between-group comparison across 32 samples.

How we read this: 16 replicated groups read from 32 sample titles; they account for 32 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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