GEO series

Stag2-mediated chromatin dynamics regulates antibody class switch recombination [ChIP-Seq]

GSE312228 Mus musculus (mouse) ChIP-seq / ATAC-seq (genome binding and open chromatin) 17 samples Submitted 2026/05/20 Platform GPL24247

At a glance

ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 17 samples

What it is: ChIP-seq / ATAC-seq (genome binding and open chromatin)Where proteins bind the genome, or which regions are open and active.
Organism: Mus musculus (mouse)
Samples: 17 samples: 7 conditions, mostly in duplicateGroups 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: Stag2-mediated chromatin dynamics regulates antibody class switch recombinationProceedings of the National Academy of Sciences of the United States of America · 2026

Summary (written by the submitters)

Class switch recombination (CSR) in B lymphocytes generates different functional antibody isotypes and cohesin-mediated chromatin loop extrusion is proposed to promote CSR. However, the detailed regulatory mechanism of cohesin in CSR is largely lacking. Here, we revealed that Stag2 is a specific cohesin regulator playing critical roles in promoting CSR.

Read the full summary ↓

Stag2-deficiency, not Stag1-deficiency, significantly decreases the interaction of acceptor CH with CSR center, leading to decreased transcription of acceptor CH and impaired CSR. Notably, Stag2 could compensate for Stag1 binding within Igh upon Stag1-deficiency, while Stag2-deficiency significantly decreases Stag1 binding within Igh. Interestingly, Stag2 expression is higher than Stag1 during germinal center (GC) B cell development and Stag2 expression has a high correlation with CSR level in GC B cells upon vaccination and SARS-Cov-2 infection. Furthermore, Stag2 is also highly expressed in GC B cells within different tumors, corresponding to the high level of CSR in tumors. Altogether, our findings uncover the unrecognized specific roles of Stag2 in regulating CSR during physiological and pathological immune responses.

Published in

Stag2-mediated chromatin dynamics regulates antibody class switch recombination

Wan Z, Yu L, Yang Z et al. · Proceedings of the National Academy of Sciences of the United States of America 2026 · PMID 42085150 · doi:10.1073/pnas.2536391123

This dataset

Open GSE312228 in finder → Find more mouse ChIP / ATAC / CUT&Tag 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 GSE312228_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: Look for peak files (.bed, .narrowPeak) and signal tracks (.bigWig) among the supplementary files; the raw reads are on ENA.

Also filed as BioProject PRJNA1372704 and SRA study SRP650774. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 42085150) ↗

Study design

7 conditions, mostly in duplicate

RAD21_ChIPseq_WT ×4 RAD21_ChIPseq_SA1_KO ×2 RAD21_ChIPseq_SA2_KO ×2 STAG2_ChIPseq_WT ×2 STAG2_ChIPseq_SA1_KO ×2 STAG1_ChIPseq_WT ×2 STAG1_ChIPseq_SA2_KO ×2 IgG_ChIPseq_WT ×1

Supports a between-group comparison across 16 samples.

How we read this: 7 replicated groups read from 17 sample titles; they account for 16 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

GSM9341280 RAD21_ChIPseq_WT_rep1 RAD21_ChIPseq_WT
GSM9341282 RAD21_ChIPseq_WT_rep2 RAD21_ChIPseq_WT
GSM9341284 RAD21_ChIPseq_SA1_KO_rep1 RAD21_ChIPseq_SA1_KO
GSM9341285 RAD21_ChIPseq_SA1_KO_rep2 RAD21_ChIPseq_SA1_KO
GSM9341287 RAD21_ChIPseq_WT_rep3 RAD21_ChIPseq_WT
GSM9341289 RAD21_ChIPseq_WT_rep4 RAD21_ChIPseq_WT
GSM9341291 RAD21_ChIPseq_SA2_KO_rep1 RAD21_ChIPseq_SA2_KO
GSM9341292 RAD21_ChIPseq_SA2_KO_rep2 RAD21_ChIPseq_SA2_KO
GSM9341294 STAG2_ChIPseq_WT_rep1 STAG2_ChIPseq_WT
GSM9341296 STAG2_ChIPseq_WT_rep2 STAG2_ChIPseq_WT
GSM9341298 STAG2_ChIPseq_SA1_KO_rep1 STAG2_ChIPseq_SA1_KO
GSM9341299 STAG2_ChIPseq_SA1_KO_rep2 STAG2_ChIPseq_SA1_KO
GSM9341301 STAG1_ChIPseq_WT_rep1 STAG1_ChIPseq_WT
GSM9341303 STAG1_ChIPseq_WT_rep2 STAG1_ChIPseq_WT
GSM9341305 STAG1_ChIPseq_SA2_KO_rep1 STAG1_ChIPseq_SA2_KO
GSM9341307 STAG1_ChIPseq_SA2_KO_rep2 STAG1_ChIPseq_SA2_KO
GSM9629001 IgG_ChIPseq_WT_rep1

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