GEO series

Single-cell V(D)J-seq of tumors from Eif3e cg1cre KO mice

GSE320525 Mus musculus (mouse) Single-cell RNA-seq 14 samples Submitted 2026/05/01 Platform GPL24247

At a glance

Single-cell RNA-seq · mouse · 14 samples

What it is: Single-cell RNA-seqGene activity measured in thousands of individual cells, so cell types can be told apart.
Organism: Mus musculus (mouse)
Samples: 14 samples: 14 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.

Summary (written by the submitters)

white nodules collected from tissues with evident tumor development in organs of cKO mice, such as liver, lung, and spleen were predominantly enriched with B cells or CD4+ T cells, and the lymphocytes within these tissues exhibited highly monoclonal enrichment (in one case, oligoclonal enrichment was observed), indicating that lymphocytes in the tumor tissues of cKO mice display characteristics of monoclonal expansion.

This dataset

Open GSE320525 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 GSE320525_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: 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 PRJNA1424683. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗

Study design

14 samples, each with a distinct title — no replicated groups

Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.

How we read this: Read from 14 sample titles: 14 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.

Samples in this study

GSM9544974 scRNA-seq of mouse29_lung
GSM9544975 sc V(D)J-seq of BCR in mouse29_lung
GSM9544976 scRNA-seq of mouse31_spleen
GSM9544977 sc V(D)J-seq of BCR in mouse31_spleen
GSM9544978 scRNA-seq of mouse33_thymus
GSM9544979 sc V(D)J-seq of BCR in mouse33_thymus
GSM9544980 scRNA-seq of mouse27_liver
GSM9544981 sc V(D)J-seq of BCR in mouse27_liver
GSM9544982 scRNA-seq of mouse34_LungThy
GSM9544983 sc V(D)J-seq of BCR in mouse34_LungThy
GSM9544984 scRNA-seq of mouse30_liver
GSM9544985 sc V(D)J-seq of TCR in mouse30_liver
GSM9544986 scRNA-seq of mouse32_spleen
GSM9544987 sc V(D)J-seq of TCR in mouse32_spleen

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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.