Comparison of FACS-isolated mammary epithelial populations (CD49f/CD61)
Single-cell RNA-seq · mouse · 18 samples
- What it is
- Single-cell RNA-seqGene activity measured in thousands of individual cells, so cell types can be told apart. Read from the summary: GEO's own type field only says 'expression profiling by sequencing', so confirm it in the paper.
- Organism
- Mus musculus (mouse)
- Samples
- 18 samples: 18 samples, each with a distinct title — no replicated groupsGroups 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
- ERα dysfunction caused by ESR1 mutations and therapeutic pressure promotes lineage plasticity in ER(+) breast cancerNature cancer · 2025
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.
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.
Supplementary files
The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE207079_RAW.tar (it can run to tens of gigabytes).
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.
What the files usually look like: Single-cell studies usually ship their counts as 10x files (matrix.mtx, barcodes.tsv, features.tsv), an .h5 file, or an .rds / .h5ad object that Seurat or Scanpy can open. Look for those among the supplementary files.
Also filed as BioProject PRJNA853576. Searching any of these in the dataset finder brings you back here.
Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Read from 18 sample titles: 18 distinct titles with little repetition. 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.
- GSM6276820 Virgin, sample1, basal
- GSM6276821 Virgin, sample1, AP
- GSM6276822 Virgin, sample1, HSL
- GSM6276823 Virgin, sample2, basal
- GSM6276824 Virgin, sample2, AP
- GSM6276825 Virgin, sample2, HSL
- GSM6276826 Virgin, sample3, basal
- GSM6276827 Virgin, sample3, AP
- GSM6276828 Virgin, sample3, HSL
- GSM6276829 Virgin, sample4, basal
- GSM6276830 Virgin, sample4, AP
- GSM6276831 Virgin, sample4, HSL
- GSM6276832 Virgin, sample5, basal
- GSM6276833 Virgin, sample5, AP
- GSM6276834 Virgin, sample5, HSL
- GSM6276835 Virgin, sample6, basal
- GSM6276836 Virgin, sample6, AP
- GSM6276837 Virgin, sample6, HSL
- GSE20402 Mouse mammary epithelial cell subpopulations from pregnant and virgin mice 14 samples shares populations, epithelial, mammary
- GSE20401 Mammary epithelial cell subpopulations from control and ovariectomized mice 12 samples shares populations, epithelial, mammary
- GSE205991 Multiple subpopulations in medullary thymic epithelial cells are regulated by Aire with distinctive modes of gene regulations [deep single-cell RNA-seq] 2148 samples shares populations, epithelial
- GSE205410 Multiple subpopulations in medullary thymic epithelial cells are regulated by Aire with distinctive modes of gene regulations [bulkRNA-seq] 47 samples shares populations, epithelial
- GSE196376 Comparison of sorted TRM populations and TRM-like cells in vitro 24 samples shares populations, comparison
- GSE202483 Analysis by RNA-seq of the transcriptional profile of three sub-populations of mouse colon epithelial cells (Lgr5+ columnar basal cells, goblet cells, enterocytes). 9 samples shares populations, epithelial
- GSE226493 Fezf2 promotes differentiation of Aire-expressing and mimetic epithelial populations regulating thymic homeostasis 8 samples shares populations, epithelial
- GSE299841 Comparison of gene expression between mouse lung resident MSC subpopulations. 6 samples shares populations, comparison
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.