File contains the Supplementary Materials of publication from Biomeditsinskaya Khimiya, 2026 vol. 72, issue 2, pp. 118–127, DOI:10.18097/PBMCR1641

1. lfq.protein-peptides.csv and lfq.proteins.csv - input files generated by the LFQ module for the datasets PXD064519 (2 sets) and ZMP8KU.
2. PBMCR1641_SCRIPT.knwf - the example of KNIME workflow.
3. PBMCR1641_FullTable.xlsx - full summary table with all selected peptides pairs and intermediate calculations.