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The transcriptomic profile of the naïve or CpG-stimulated Rfx7-deficient mouse Follicular B cells and RFX7-transfected lymphoma human cell line U-2932

GSE308503 Homo sapiens (human) RNA-seq (gene expression) 29 samples Submitted 2026/04/15 Platform GPL30173Platform GPL30172
At a glance

RNA-seq (gene expression) · human · 29 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
Homo sapiens (human)
Samples
29 samples: 10 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
Regulatory factor X 7 limits Myc activity during B cell activation and suppresses Myc-dependent lymphomagenesisNature immunology · 2026
Summary (written by the submitters)
PART 1) Alterations of the transcription factor RFX7 have been reported in different B-cell malignancies. We therefore set out to study the role of RFX7 in B cell activation. So we performed bulk RNA-seq on sorted wild-type or Rfx7-deficient follicular B cells, either naive or activated with CpG. PART 2) RFX7 frameshift and non-sense mutations have been reported in different B-cell malignancies. We therefore set out to study the role of selected truncations in a human lymphoma cell line. We performed bulk RNA-seq on sorted U-2932 cells transfected with different RFX7 encoding constructs.
Published in
Regulatory factor X 7 limits Myc activity during B cell activation and suppresses Myc-dependent lymphomagenesis
Fischer BA, Khameneh HJ, Guerra J et al. · Nature immunology 2026 · PMID 42225953 · doi:10.1038/s41590-026-02526-2
This dataset
Open GSE308503 in finder → Find more 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 GSE308503_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 PRJNA1330776 and SRA study SRP621891. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 42225953) ↗
Study design
10 conditions, mostly in triplicate
Follicular B cells, 18hr CpG, WT ×4 Follicular B cells, 18hr CpG, Rfx7 KO ×3 NLS ×3 Q688 ×3 W782 ×3 WT ×3 WTplusQ688 ×3 WTplusW782 ×3 +2 more

Supports a between-group comparison across 29 samples.

How we read this: 10 replicated groups read from 29 sample titles; they account for 29 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
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