PIQMIe is a web-based tool for reliable analysis and visualization of semi-quantitative mass spectrometry (MS)-based proteomics data. This tool readily integrates peptide and (non-redundant) protein identifications and quantitations, as obtained by the MaxQuant/Andromeda software with additional biological information from the UniProtKB database, and makes the linked data available in the form of a light-weight relational database (SQLite). Using the web interface, users are presented with a concise summary of their proteomics experiments in numerical and graphical forms, as well as with a searchable protein grid and interactive visualization tools to aid in the rapid assessment of the experiments and in the identification of proteins of interest. PIQMIe provides data access via a web interface and programmatic RESTful API.