GEO series

Disruption of basal cell identity by Rank signaling drives mammary tumorigenesis

GSE272902 Mus musculus (mouse) RNA-seq (gene expression) 27 samples Submitted 2026/01/16 Platform GPL21626

At a glance

RNA-seq (gene expression) · mouse · 27 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: 27 samples: 6 conditions, mostly with about 5 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)

Rank signaling regulates mammary gland development and epithelial cell differentiation. Rank receptor is expressed by mammary basal and luminal populations, but, unlike luminal Rank, the contribution of basal Rank signaling to MG homeostasis remains poorly studied. We have combined timely regulated basal specific Rank expression with lineage tracing models and unveiled that basal Rank signaling controls basal cell identity in postnatal mammary glands.

Read the full summary ↓

Ectopic basal Rank disrupts basal but also luminal cell identity, resulting in aberrant luminal-like differentiation of basal cells and impaired lactogenesis. Mechanistically, overactivation of basal Rank signaling leads to basal cell lineage infidelity, illustrated by the appearance of premalignant lesions composed by a basal-derived hybrid population with alveolar features which ultimately generates basal and luminal breast adenocarcinomas. Proteomic, transcriptomic and chromatin analyses support that the loss of tumor suppressive epigenetic regulators driven by basal Rank contributes to epithelial cell dedifferentiation and tumorigenesis. The basal Rank signature generated associates to poor prognosis particularly in human adenocarcinomas of the luminal subtype stressing the clinical relevance of our findings. Interestingly, our results reinforce the idea that luminal breast tumors might originate from basal cells that have suffered a luminal-like aberrant dedifferentiation triggered by Rank signaling

This dataset

Open GSE272902 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 GSE272902_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 PRJNA1139209 and SRA study SRP521723. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗

Study design

6 conditions, mostly with about 5 replicates each

K14-RankD/D, BC, ×5 K14-Ctrl, BC, ×5 K14-Ctrl, LC, ×5 K14-RankD/D, LC, ×4 K14-Rank, BC, ×4 K14-Rank, LC, ×4

Supports a between-group comparison across 27 samples.

How we read this: 6 replicated groups read from 27 sample titles; they account for 27 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

GSM8414400 K14-RankD/D, BC, replicate 1 K14-RankD/D, BC,
GSM8414401 K14-RankD/D, LC, replicate 1 K14-RankD/D, LC,
GSM8414402 K14-RankD/D, BC, replicate 2 K14-RankD/D, BC,
GSM8414403 K14-RankD/D, LC, replicate 2 K14-RankD/D, LC,
GSM8414404 K14-RankD/D, BC, replicate 3 K14-RankD/D, BC,
GSM8414405 K14-RankD/D, LC, replicate 3 K14-RankD/D, LC,
GSM8414406 K14-Ctrl, BC, replicate 1 K14-Ctrl, BC,
GSM8414407 K14-Ctrl, LC, replicate 1 K14-Ctrl, LC,
GSM8414408 K14-RankD/D, BC, replicate 4 K14-RankD/D, BC,
GSM8414409 K14-RankD/D, LC, replicate 4 K14-RankD/D, LC,
GSM8414410 K14-RankD/D, BC, replicate 5 K14-RankD/D, BC,
GSM8414411 K14-Ctrl, LC, replicate 2 K14-Ctrl, LC,
GSM8414412 K14-Ctrl, BC, replicate 2 K14-Ctrl, BC,
GSM8414413 K14-Rank, BC, replicate 1 K14-Rank, BC,
GSM8414414 K14-Rank, LC, replicate 1 K14-Rank, LC,
GSM8414415 K14-Rank, BC, replicate 2 K14-Rank, BC,
GSM8414416 K14-Rank, LC, replicate 2 K14-Rank, LC,
GSM8414417 K14-Rank, BC, replicate 3 K14-Rank, BC,
GSM8414418 K14-Rank, LC, replicate 3 K14-Rank, LC,
GSM8414419 K14-Rank, BC, replicate 4 K14-Rank, BC,
GSM8414420 K14-Rank, LC, replicate 4 K14-Rank, LC,
GSM8414421 K14-Ctrl, BC, replicate 3 K14-Ctrl, BC,
GSM8414422 K14-Ctrl, LC, replicate 3 K14-Ctrl, LC,
GSM8414423 K14-Ctrl, BC, replicate 4 K14-Ctrl, BC,
GSM8414424 K14-Ctrl, LC, replicate 4 K14-Ctrl, LC,
GSM8414425 K14-Ctrl, BC, replicate 5 K14-Ctrl, BC,
GSM8414426 K14-Ctrl, LC, replicate 5 K14-Ctrl, LC,

Datasets on a similar topic

GSE272968 Disruption of basal cell identity by Rank signaling drives mammary tumorigenesis 15 samples shares tumorigenesis, disruption, identity, mammary, drives, basal, rank
GSE275908 CXCL12-CXCR4 signaling mediates the formation of a macrophageal niche for mammary gland development and tumorigenesis 30 samples shares tumorigenesis, mammary
GSE277228 Changing dynamics of the fibroblast differentiation hierarchy during mammary gland morphogenesis and tumorigenesis [scRNA-Seq I] 13 samples shares tumorigenesis, mammary
GSE243505 TRPS1 maintains luminal progenitors in the mammary gland by repressing SRF/MRTF activity [01b_bulk_rna_seq_luminal_vs_basal] 10 samples shares mammary, basal
GSE333887 Matched single-cell chromatin, transcriptome, and surface marker profiling captures in vivo epigenomic reprogramming during basal-to-luminal transition in the mammary gland [transplantations_OneCell_multiome] 14 samples shares mammary, basal
GSE262023 Retrograde mitochondrial signaling governs the identity and maturity of metabolic tissues 46 samples shares identity
GSE233979 Wnt signaling dosage controlled by a Ctnnb1 enhancer balances homeostasis and tumorigenesis of intestinal epithelia 20 samples shares tumorigenesis
GSE276731 Fibroblast growth factor receptor signaling modulates cholesterol storage in a SOAT1-dependent manner to promote mammary tumor cell invasion 18 samples shares mammary

Search all mouse RNA-seq datasets in GEO →

Share this dataset

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.