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Lyn expression in macrophages promotes TLR activation and restricts proliferation in an isoform-independent manner

GSE300925 Mus musculus (mouse) RNA-seq (gene expression) 48 samples Submitted 2025/11/18 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: 12 conditions, mostly with about 4 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
Lyn expression in macrophages promotes TLR activation and restricts proliferation in an isoform-independent mannerJournal of leukocyte biology · 2025
Summary (written by the submitters)
Toll-like receptor (TLR) signaling is vital to macrophage function, and dysregulation is associated with many disease states. The Src-family kinase (SFK) Lyn serves activating and inhibitory roles downstream of TLRs, yet distinct functions of the isoforms LynA and LynB in TLR signaling have not been investigated. We used isoform-specific knockout mice (LynAKO and LynBKO) to interrogate the contribution of each isoform to TLR signaling in bone marrow-derived macrophages (BMDMs).
Read the full summary ↓
Bulk RNA sequencing and cytokine analyses revealed that complete Lyn deficiency (LynKO) dampens TLR4- and TLR7-induced inflammatory gene expression and TNF production, but enhances extracellular matrix (ECM) gene expression and promotes cell-cycle progression and macrophage proliferation. In contrast, expression of either LynA or LynB was sufficient to preserve wild-type (WT) transcriptional responses and TNF production, despite moderately reduced total Lyn levels. These data suggest that Lyn promotes macrophage activation downstream of TLRs and restrains aberrant proliferation and matrix deposition in a largely dose-dependent rather than isoform-specific manner. Our findings provide new insight into the roles of LynA and LynB in TLR signaling and can inform future studies of macrophage-driven pa-thology in autoimmune disease, fibrosis, and cancer.
Published in
Lyn expression in macrophages promotes TLR activation and restricts proliferation in an isoform-independent manner
Lindstedt AJ, Greene JT, Xu Y et al. · Journal of leukocyte biology 2025 · PMID 41054812 · doi:10.1093/jleuko/qiaf140
This dataset
Open GSE300925 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 GSE300925_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 PRJNA1282690 and SRA study SRP594892. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 41054812) ↗
Study design
12 conditions, mostly with about 4 replicates each
LynAKO BMDMs, LPS-treated, ×4 LynAKO BMDMs, Non-treated, ×4 LynAKO BMDMs, R848-treated, ×4 LynBKO BMDMs, LPS-treated, ×4 LynBKO BMDMs, Non-treated, ×4 LynBKO BMDMs, R848-treated, ×4 LynKO BMDMs, LPS-treated, ×4 LynKO BMDMs, Non-treated, ×4 +4 more

Supports a between-group comparison across 48 samples.

How we read this: 12 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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