Fig. 1: Schematic representation of the experimental strategy used in discovery-phase proteomics and for targeted validation of potential biomarkers in plasma samples.
From: Multiplexed quantitative proteomics provides mechanistic cues for malaria severity and complexity
a Malaria patients were diagnosed by microscopy and RDT, and some randomly selected samples were confirmed further using PCR. Dengue patients were included as a non-malaria febrile infectious disease control and were diagnosed using IgM and NS1 antigen. b Depleted plasma samples were trypsin digested, and TMT labeled for studying the plasma proteome (host) alterations in malaria patients. A label-free quantitation (LFQ) approach was used for the detection and quantification of the parasite (P. falciparum) proteins in host plasma. c Protein search was performed using proteome discoverer 2.2, and then PSMs files were analyzed using the MSstatsTMT package. d Machine learning was performed using the elastic net regression method. e Top hits of differentially abundant proteins were selected for validation using multiple reaction monitoring (MRM) assays. *Patients number is based on available clinical data.
