RNA sequencing of nasal lavage samples from mock- and Streptococcus pneumoniae-infected infant mice
RNA-seq (gene expression) · mouse · 73 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
- 73 samples
- 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
- Immune pathways that regulate neutrophil activation and replenishment prevent persistent pneumococcal colonizationPLoS pathogens · 2026
Read the full summary ↓
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.
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.
Supplementary files
The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE324503_RAW.tar (it can run to tens of gigabytes).
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.
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 PRJNA1435641 and SRA study SRP682796. Searching any of these in the dataset finder brings you back here.
The sample list for this study is not cached yet. Press Load samples and it will be fetched from NCBI.
+ 73 more — browse all 73 samples with per-sample file links →
- GSE260491 Microbiota of infants consuming secretors or non-secretors mothers milk impacts gut and immune system in mice. 83 samples shares infant
- GSE294560 Bulk RNAseq profiling of Streptococcus pneumoniae EF3030 and Influenza A virus (A/California/07/2009(H1N1)) mono/coinfection in the mouse lungs. 60 samples shares streptococcus
- GSE289076 Quorum sensing by Streptococcus pyogenes induces global inflammatory suppression in host macrophages 30 samples shares streptococcus
- GSE297306 Transmission of Maternal Oral Pathobionts to the Infant Gut Predisposes Offspring to Exacerbated Enteritis. 20 samples shares infant
- GSE310711 Bifidobacteria infantis and human milk oligosaccharides have independent effects on immune response and amino acid metabolism in germ-free mouse models 15 samples shares infant
- GSE313404 Single-cell RNA sequencing reveals how myeloid cell reprogramming by commensal Prevotella enhances defense against Streptococcus pneumoniae lung infection 1 samples shares streptococcus
- GSE294007 Host aging induces a senescent-like phenotype in neutrophils with altered transcriptional responses to Streptococcus pneumoniae infection 11 samples shares streptococcus
- GSE313652 RNA-seq of bronchoalveolar lavage cells from wild-type mice reconstituted with wild-type or Cry1/2 double-knockout bone marrow. 6 samples shares lavage
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.