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Transcriptomic and Proteomic Signatures Following AS03-adjuvanted Influenza A/H7N9 Vaccine

GSE286042 Homo sapiens (human) RNA-seq (gene expression) 1232 samples Submitted 2026/07/29 Platform GPL24676
At a glance

RNA-seq (gene expression) · human · 1232 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
Homo sapiens (human)
Samples
1232 samples: 60 conditions, mostly with about 8 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.
Summary (written by the submitters)
Vaccines targeting avian influenza virus A/H7N9 are poorly immunogenic. While the immune responses can be improved with oil-in-water emulsion adjuvants such as Adjuvant System 03 (AS03), the cellular mechanisms underpinning the adjuvant effect are incompletely characterized and poorly understood. In this study, we used RNA-sequencing and quantitative proteomics to elucidate the response to two doses of influenza A/H7N9 vaccine, with and without AS03 in six immune cell types.
Read the full summary ↓
These responses were also compared to those seen after administration of an unadjuvanted seasonal influenza A/H3N2 variant vaccine to identify signatures unique to adjuvanted influenza vaccine and correlated with later antibody responses. Transcriptomic and proteomic analyses revealed that AS03-adjuvanted vaccine uniquely led to upregulation of immune pathways in innate immune cells within 24 hours following vaccination for phagocytosis, antigen presentation and processing, inflammasome activation, NK-cell mediated cytotoxicity, IgA production, and interferon-response pathways. Moreover, while major histocompatibility complex (MHC I and II) upregulation was observed across multiple immune cell types, the neutrophils showed a distinct activation of MHC II, suggesting that neutrophils may play a more important role in antigen presentation than previously understood. Taken together, these data provide a more complete mechanistic understanding of oil-in-water adjuvants and their role in enhancing the immune response for pandemic influenza preparedness.
This dataset
Open GSE286042 in finder → Find more human 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 GSE286042_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 PRJNA1207538. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗
Study design
60 conditions, mostly with about 8 replicates each
SUB01, B cells, A/H7N9 vaccine unadjuvanted, … ×8 SUB01, Dendritic cells, A/H7N9 vaccine unadju… ×8 SUB01, Monocytes, A/H7N9 vaccine unadjuvanted… ×8 SUB01, Neutrophils, A/H7N9 vaccine unadjuvant… ×8 SUB01, NK cells, A/H7N9 vaccine unadjuvanted,… ×8 SUB01, T cells, A/H7N9 vaccine unadjuvanted, … ×8 SUB02, B cells, A/H7N9 vaccine unadjuvanted, … ×8 SUB02, Dendritic cells, A/H7N9 vaccine unadju… ×8 +52 more

Supports a between-group comparison across 400 samples.

How we read this: 60 replicated groups read from the first 400 of 1232 sample titles; they account for 400 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

+ 1192 more — browse all 1232 samples with per-sample file links →

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