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Milk osteopontin protects against infant bronchiolitis by enhancing microbiome-mediated extramedullary DC hematopoiesis

GSE306448 Mus musculus (mouse) RNA-seq (gene expression) 32 samples Submitted 2026/07/01 Platform GPL30172
At a glance

RNA-seq (gene expression) · mouse · 32 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
32 samples: 32 samples, each with a distinct title — no replicated groupsGroups 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.
Summary (written by the submitters)
Breastfeeding reduces the risk of severe lower respiratory infections (sLRI), a leading cause of infant mortality however, the protective mechanisms remain elusive. Here we demonstrated that the absence of milk-derived osteopontin (OPN), highly expressed in colostrum, predisposes neonate mice to viral and bacterial sLRI, consequent to disrupted dendritic cell (DC) hematopoiesis in the liver and lung.
Read the full summary ↓
Oral supplementation with bovine milk-derived OPN to neonates reared by OPN-deficient dams ameliorated disease susceptibility. This protection was associated with increased enteric Lactobacillales abundance and an altered metabolome, most notably elevated levels of 3-phenyllactic acid (PLA). OPN or PLA supplementation restored DC hematopoiesis and disease tolerance via the induction of hepatic stem cell factor (SCF) and airway Flt3L. These beneficial effects were attenuated by plasmacytoid DC depletion, immunoneutralization of SCF, or genetic deletion of airway epithelial Flt3L. Our findings identify a novel microbiome-host interaction by which milk OPN confers protection against sLRI.
This dataset
Open GSE306448 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 GSE306448_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 PRJNA1310854 and SRA study SRP612628. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗
Study design
32 samples, each with a distinct title — no replicated groups

Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.

How we read this: Read from 32 sample titles: 32 distinct titles with little repetition. 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 →

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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.