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Analysis of experimental colorectal liver metastases identifies distinct proliferation independent transcriptional programs in micro- versus macrometastases

GSE310664 Homo sapiens (human) RNA-seq (gene expression) 22 samples Submitted 2026/01/14 Platform GPL18573
At a glance

RNA-seq (gene expression) · human · 22 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
22 samples: 8 conditions, mostly in triplicateGroups 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
Analysis of experimental colorectal liver metastases identifies distinct proliferation-independent transcriptional programs in micro- versus macrometastasesJournal of translational medicine · 2025
Summary (written by the submitters)
Human engineered CRC organoids were equiped with the sTomato-p27K- quiescense reporter. Quiescent cells are characterized by distinct transcriptional programs
Published in
Analysis of experimental colorectal liver metastases identifies distinct proliferation-independent transcriptional programs in micro- versus macrometastases
Peters NA, Heinz MC, Küçükköse E et al. · Journal of translational medicine 2025 · PMID 41339903 · doi:10.1186/s12967-025-07218-3
This dataset
Open GSE310664 in finder → Find more human 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 GSE310664_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 PRJNA1366912 and SRA study SRP647511. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 41339903) ↗
Study design
8 conditions, mostly in triplicate
CRC29 cells, -sTom-p27K- high expression ×3 CRC29 cells, -sTom-p27K- low expression ×3 CRC29 cells, -sTom-p27K- medium expression ×3 HUB098 cells, -sTom-p27K- low expression ×3 HUB098 cells, -sTom-p27K- med expression ×3 HUB098 cells, -sTom-p27K- high expression ×2 TOR10 cells, -sTom-p27K- low expression ×2 TOR10 cells, -sTom-p27K- med expression ×2 +1 more

Supports a between-group comparison across 21 samples.

How we read this: 8 replicated groups read from 22 sample titles; they account for 21 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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