Plasma proteomic response to influenza vaccination (five cohorts)

A named list of five differential-abundance tables describing the day-7 versus day-0 plasma proteomic response to seasonal influenza vaccination, one table per independent cohort. It is used to demonstrate MetaVolcanoR on protein features, complementing the gene-expression example object diffexplist.

vaccine_proteomics

Format

A named list of length 5; each element a data.frame of 445 rows and 5 columns.

Source

Derived from public systems-vaccinology proteomics resources (ImmuneSpace / PRIDE / ProteomeXchange). See data-raw/make_vaccine_proteomics.R and the PrepareDatasets vignette for the retrieval and formatting workflow.

Details

Each element is a data.frame with one row per protein and the columns MetaVolcanoR expects:

Symbol

Protein identifier (gene-level symbol, as returned by Olink and most proteomics pipelines).

Log2FC

Log2 fold change, day 7 vs day 0.

pvalue

Differential-abundance p-value.

CI.L

Lower bound of the 95% confidence interval.

CI.R

Upper bound of the 95% confidence interval.

The consistently up-regulated proteins across cohorts recapitulate the canonical day-7 antibody-secreting-cell signature (immunoglobulin chains IGHG1/IGKC, plasmablast markers TNFRSF17/CD38, and plasma-cell factors MZB1/PRDM1/XBP1).

See also

diffexplist, rem_mv