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Transcriptome of TACI KO and WT mouse marginal zone and follicular B cells

GSE300247 Mus musculus (mouse) RNA-seq (gene expression) 48 samples Submitted 2026/04/01 Platform GPL24247
At a glance

RNA-seq (gene expression) · mouse · 48 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
48 samples: 8 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.
Paper
TACI regulates marginal zone B cell developmentThe Journal of experimental medicine · 2026
Summary (written by the submitters)
The mature peripheral B cell compartment consists of follicular (FO) and marginal zone (MZ) B cells, which mature from transitional B cells in the spleen and mount T-dependent and T-independent antibody responses, respectively. TACI (Tnfrsf13b) is a member of the TNF-receptor superfamily expressed on mature and transitional B cells, with highest expression on MZ B cells and plasma cells, which is activated by the cytokines BAFF and APRIL.
Read the full summary ↓
BAFF also stimulates the related receptor BAFFR, which provides signals that are essential for mature B-cell survival. Previous studies of TACI-/- mice have observed that TACI-deficiency leads to an expansion of mature B cells, and therefore it has long been thought that TACI is a negative regulator of mature B-cell survival. However, TACI-/- mice also have elevated levels of BAFF, therefore the B-cell hyperplasia phenotype in TACI-/- mice is most likely a cell-extrinsic effect due to increased BAFF-BAFFR signalling in TACI-/- B cells. To investigate the cell-intrinsic role of TACI, we generated mouse mixed bone marrow chimeras from TACI-/- and WT mice and studied the effect of TACI loss in vivo, without the confounding factor of increased BAFF. Here, we have analysed the transcriptomes of TACI KO and TACI WT marginal zone and follicular B cells by RNAseq.
Published in
TACI regulates marginal zone B cell development
Luff DH, Vanes L, Boeing S et al. · The Journal of experimental medicine 2026 · PMID 42085021 · doi:10.1084/jem.20251308
This dataset
Open GSE300247 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 GSE300247_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 PRJNA1279969 and SRA study SRP593303. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 42085021) ↗
Study design
8 conditions, mostly with about 6 replicates each
WTCD452_MZ_M ×6 WTCD452_FO_M ×6 WTCD451_MZ_M ×6 WTCD451_FO_M ×6 KOCD452_MZ_M ×6 KOCD452_FO_M ×6 KOCD451_MZ_M ×6 KOCD451_FO_M ×6

Supports a between-group comparison across 48 samples.

How we read this: 8 replicated groups read from 48 sample titles; they account for 48 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

+ 8 more — browse all 48 samples with per-sample file links →

Datasets on a similar topic

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