This dataset contains raw and processed liquid atmospheric pressure matrix-assisted laser desorption/ionisation (LAP-MALDI) mass spectrometry (MS) data from two fungal species: Saccharomyces cerevisiae and Candida albicans, along with corresponding MS/MS data of lipids and proteins detected in the MS profiles.

From the lipid MS profiles, m/z values were searched against the LIPIDS MAPS database at www.lipidmaps.org/bulk_search.
Raw MS/MS of proteins data were processed using Mascot Distiller (version 2.8.5.1, 64-bit; Matrix Science, London, UK). The resulting protein fragment ion peak lists were submitted to the Mascot MS/MS Ions Search tool (version 3.1; Matrix Science) for protein characteristion and species identification. Protein database searches were conducted against the Mascot contaminants database (29 January 2016; 247 sequences; 128,130 residues) and the Swiss-Prot database (22 May 2024; 571,282 sequences; 206,678,396 residues).

BLAST searches were undertaken with the Mascot-identified amino acid sequences submitted to the BLAST search routine at www.uniprot.org/blast. 

All MS and MS/MS data were acquired using a modified Synapt G2-Si instrument coupled to an in-house–built atmospheric pressure MALDI source.