Integrated Analysis of Proteomic Marker Databases and Studies Associated with Aging Processes and Age-Dependent Conditions: Optimization Proposals for Biomedical Research

Background: The search for reliable aging biomarkers using proteomic databases and large-scale proteomic studies presents a significant challenge in biogerontology. Existing proteomic databases and studies contain valuable information; however, there is inconsistency in approaches to biomarker selection and data integration. This creates barriers to translating existing knowledge into clinical practice and use in biomedical research. This work analyzed experimental proteomic studies, the content of proteomic databases, and proposed recommendations for optimization and improvement of proteomic database formation and enrichment. Methods: The study utilized publications devoted to proteomic data acquisition methods, proteomic databases, and experimental studies. Results: Methods for obtaining proteomic data were analyzed (Protein Pathway Array (PPA), Tissue Microarray (TMA), Luminex (Bead Array), MSD (Meso Scale Discovery), Simoa (Quanterix), SOMAscan (SomaLogic), Olink (PEA), Alamar NULISA (PEA+), and Oxford Nanopore. A total of 16 proteomic databases were investigated (HAGR, KEGG, STRING, Aging Atlas, HALL, Human Protein Atlas, UniProt, AgeAnnoMO, AgeFactDB, AgingBank, iProX, jMorp, jPOSTrepo, MassIVE, MetaboAge DB, PRIDE Archive). Additionally, 22 proteomic studies devoted to aging and age-associated diseases were analyzed. Conclusions: Proteomic databases and experimental studies individually contain valuable information about aging biomarkers. Using data from different sources within biomedical research poses challenges for improving and optimizing methodological solutions for publication selection, database formation, and marker development.