← BioTransfer GEO Dataset Finder
GEO series

Effect of Zbtb24-depletion on gene expressions during the activation of total splenic B cells

GSE241746 Mus musculus (mouse) RNA-seq (gene expression) 18 samples Submitted 2024/09/11 Platform GPL23479
At a glance

RNA-seq (gene expression) · mouse · 18 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
18 samples: 6 conditions, mostly in triplicateGroups 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
The ICF2 gene Zbtb24 specifically regulates the differentiation of B1 cells via promoting heme synthesisCellular & molecular biology letters · 2024
Summary (written by the submitters)
ZBTB24-null ICF2 patients suffer from recurrent infections associated with antibody defects, implying a pivitol role of ZBTB24 in B cell biology. We thus generated B-cell specific Zbtb24 knockout mice and investigated its intrinsic role in B cell development and function both in vitro and in vivo. In accordance with findings obtained in ICF2 patients, Zbtb24 is dispensable for B cell developent and maintenance in mice.
Read the full summary ↓
Strikingly, lack of Zbtb24 does not significantly compromise the primary & secondary antibody responses against TD-Ags, but reduced TID-Ags-elicited antibodies in vivo. At the cellular level, we discovered that Zbtb24-depletion specifically impaires the plasma cell (PC) differentiation of B1, but not the conventional B2 cells comprising follicular and marginal zone B cells, without impacting their survival and proliferation. Mechanistically, ablation of Zbtb24 suppresses the biosynthesis o heme in B1 cells, and supplementation of hemin largely abrogates the differentiation defects of zbtb24-null B1 cells in vitro. Our study not only provides a plausible explanation for the recurrent respiratory and gastrointestinal infections in ICF2 patients, but is also relevant for other B1 cell-mediated barrier defenses and immune regulations.
Published in
The ICF2 gene Zbtb24 specifically regulates the differentiation of B1 cells via promoting heme synthesis
Gao H, Zhao Y, Zhao S et al. · Cellular & molecular biology letters 2024 · PMID 39277732 · doi:10.1186/s11658-024-00641-2
This dataset
Open GSE241746 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 GSE241746_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 PRJNA1009805 and SRA study SRP457101. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 39277732) ↗
Study design
6 conditions, mostly in triplicate
B cells from Spleen, CON 1, D ×3 B cells from Spleen, CON 2, D ×3 B cells from Spleen, CON 3, D ×3 B cells from Spleen, Zbtb24 B-CKO 1, D ×3 B cells from Spleen, Zbtb24 B-CKO 2, D ×3 B cells from Spleen, Zbtb24 B-CKO 3, D ×3

Supports a between-group comparison across 18 samples.

How we read this: 6 replicated groups read from 18 sample titles; they account for 18 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

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.