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Gene expression data from epithelial and mesenchymal tumor cells isolated from E-A14 mouse mammary tumors grown in immunodeficient and immunocompetent mice

GSE155577 Mus musculus (mouse) RNA-seq (gene expression) 26 samples Submitted 2026/07/31 Platform GPL15103
At a glance

RNA-seq (gene expression) · mouse · 26 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
26 samples: 5 conditions, mostly with about 6 replicates eachGroups 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.
Summary (written by the submitters)
Epithelial-mesenchymal transition (EMT) is a central oncogenic mechanism, contributing to transformation and metastatic dissemination. Several reports described that inflammation and innate immune cells favor EMT induction, contrasting with an understudied role of adaptive immunity in EMT promotion. Using an original murine mammary tumor model, we demonstrated that tumor cells maintain their epithelial phenotype in mice deficient for adaptive immune response but undergo EMT in the presence of T-cell mediated immunity.
Read the full summary ↓
CD4 but not CD8 T cell depletion prevents EMT, undoubtedly demonstrating that CD4 T cell-mediated immunity favors EMT induction. Immune infiltrate and transcriptomic analyses revealed an inverse correlation between mesenchymal tumor cell and intratumoral neutrophil proportions, due to the reduced ability of mesenchymal cells to recruit neutrophils. Moreover, we demonstrated also the pro-EMT role of neutrophils. Last, transcriptomic database analysis of human breast tumors further strengthens the notion of a cooperation between CD4 T cells and neutrophils in EMT promotion.
This dataset
Open GSE155577 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 GSE155577_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 PRJNA650384 and SRA study SRP275596. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗
Study design
5 conditions, mostly with about 6 replicates each
Her2(+)EpCAM(+) mammary tumor cells - CD4 and… ×6 Her2(+)EpCAM(-) mammary tumor cells - CD4 and… ×6 Her2(+)EpCAM(+) mammary tumor cells - IgG con… ×6 Her2(+)EpCAM(-) mammary tumor cells - IgG con… ×6 E-A14 cell line ×2

Supports a between-group comparison across 26 samples.

How we read this: 5 replicated groups read from 26 sample titles; they account for 26 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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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.