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Alveolar Macrophages Undergo a Postnatal Transition from a Hyperphagocytic and Proinflammatory Profile to a Tolerogenic Profile

GSE314207 Mus musculus (mouse) RNA-seq (gene expression) 24 samples Submitted 2026/04/19 Platform GPL34290
At a glance

RNA-seq (gene expression) · mouse · 24 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
24 samples: 10 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
Alveolar macrophages undergo postnatal transition from a hyperphagocytic and proinflammatory profile to a tolerogenic profileiScience · 2026
Summary (written by the submitters)
Alveolar Macrophages (AMs) are crucial for lung immunity and homeostasis. While the ontogeny of AMs is well characterized, their postnatal phenotypic and functional maturation remains unclear. Here, we developed a bronchoalveolar lavage (BAL) protocol across key developmental stages and systematically analyzed age-dependent changes in AMs.
Read the full summary ↓
AM numbers increased with age, acquiring a mature phenotype alongside alveolar maturation.BAL-recovered AMs decreased in size and increased in roundness from day 3 onward and revealed distinct gene expression profiles across different ages. Functionally, phagocytic capacity peaked in 3-day-old mice. Furthermore, AMs from all ages beyond day 1 showed lower basal inflammatory cytokine expression and an attenuated response to LPS, indicating a postnatal transition toward a tolerant phenotype. The transition from a hyper-phagocytic, pro_x0002_inflammatory neonatal profile to a tolerogenic adult phenotype underscores the intrinsic adaptation of AMs to the immunotolerant microenvironment of the mature lung. Our study provides a comprehensive kinetic profile of postnatal AM development.
Published in
Alveolar macrophages undergo postnatal transition from a hyperphagocytic and proinflammatory profile to a tolerogenic profile
Yu H, Shang S, Xu Q et al. · iScience 2026 · PMID 42181286 · doi:10.1016/j.isci.2026.115894
This dataset
Open GSE314207 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 GSE314207_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 PRJNA1390257 and SRA study SRP656103. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 42181286) ↗
Study design
10 conditions, mostly in duplicate
D1 LPS ×3 D3 Ctrl ×3 D21 Ctrl ×3 D49 Ctrl ×3 D1 Ctrl ×2 D3 LPS ×2 D7 Ctrl ×2 D7 LPS ×2 +2 more

Supports a between-group comparison across 24 samples.

How we read this: 10 replicated groups read from 24 sample titles; they account for 24 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

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