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pH-Responsive Nanostructured Calcium Phosphate Microrods as Pulmonary Delivery Platform: Fabrication, Characterization, and Comparative Assessment of Cytotoxic and Transcriptomic Responses in Alveolar Macrophages

GSE317613 Mus musculus (mouse) RNA-seq (gene expression) 15 samples Submitted 2026/05/14 Platform GPL34475
At a glance

RNA-seq (gene expression) · mouse · 15 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
15 samples: 5 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
pH-Responsive Nanostructured Calcium Phosphate Microrods as Pulmonary Delivery Platform: Fabrication, Characterization, and Comparative Assessment of Cytotoxic and Transcriptomic Responses in Alveolar MacrophagesPharmaceutics · 2026
Summary (written by the submitters)
Nanostructured, rod-shaped microparticles represent a promising drug-delivery plat-form for pulmonary delivery and targeting of alveolar macrophage by leveraging the aerodynamic advantages of fiber-like geometries. These microrods feature a hierar-chical architecture, designed for potential macromolecular payloads, and silica-based systems have previously been shown to successfully deliver oligonucleotides in vitro.
Read the full summary ↓
However, current microrod systems mainly rely on nanoparticulate silica-based frameworks with limited biodegradibility and lack targeted disintegration under the acidic conditions encountered in phagolysosomes. Therefore, a nanostructured calcium phosphate framework is proposed as a biodegradable and resorbable alternative with pH-responsive characteristics. This study describes the fabrication of nanostructured, rod-shaped calcium phosphate microparticles and discusses their suitability as a po-tential pulmonary drug-delivery platform. The particles feature a dissolution-driven disintegration in acidic and ion-rich environments relevant to phagolysosomes. In ad-dition, the particles exhibited a favorable acute cytotoxicity profile in the murine alve-olar macrophage cell line MH-S compared with their SiO2-based counterpart. Com-parative RNA-seq analysis of MH-S that are exposed to the particles indicate a mild transcriptomic response, while canonical signatures of classical or alternative macro-phage activation programs were not observed, supporting a generally well-tolerated exposure profile of the carrier. Together, these findings establish key prerequisites for employing calcium phosphate microrods as a biodegradable pulmonary carrier plat-form in subsequent studies incorporating therapeutic cargo.
Published in
pH-Responsive Nanostructured Calcium Phosphate Microrods as Pulmonary Delivery Platform: Fabrication, Characterization, and Comparative Assessment of Cytotoxic and Transcriptomic Responses in Alveolar Macrophages
Fries J, Bachmann R, Schechtel A et al. · Pharmaceutics 2026 · PMID 42076080 · doi:10.3390/pharmaceutics18040428
This dataset
Open GSE317613 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 GSE317613_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 PRJNA1414546 and SRA study SRP666493. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 42076080) ↗
Study design
5 conditions, mostly in triplicate
MH-S cells, untreated control, sample ×3 MH-S cells, treated with LPS + IFNγ, sample ×3 MH-S cells, treated with Il-4. sample ×3 MH-S cells, treated with calcium phosphate mi… ×3 MH-S cells, treated with SiO2 microrods, samp… ×3

Supports a between-group comparison across 15 samples.

How we read this: 5 replicated groups read from 15 sample titles; they account for 15 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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