ProtExA is a web-tool for protein post-processing analysis from proteomics experiments acting as an all-in-one tool for the statistical and functional analysis of protein expression datasets. It facilitates protein differential expression analysis and protein co-expression network analysis as well as pathway and post-pathway analysis through network-based bioinformatics approaches. ProtExA combines four main pillars of omics data analysis, commonly used in bioinformatics pipelines, providing significant information about the functional relations between protein and genes. These include:

•  Differential Expression Analysis (DEA) and filtering to identify lists of top-scored proteins-genes
•  Enrichment analysis to identify related pathways and their functional connectivity
•  Creation of protein-protein co-expression networks
•  Network clustering on co-expression networks to identify sub-networks that may related related to the biological condition under study

Spesifically, for a given set of protein expression data across samples, ProtExA: (1) performs statistical analysis and filtering to highlight the differentially expressed proteins, (2) generates protein co-expression networks using a variety of methodologies, (3) applies clustering methodologies to identify sub-networks of co-expressed proteins, (4) performs enrichment analysis to identify top-scored pathways and (5) generates pathway-to-pathway and pathway-to-gene networks.

The proposed web-tool is a simple yet informative tool facilitating the end users who receive the output results of a proteomic analysis to understand and exploit further their data.