Proteome Software

Proteome Software is a bioinformatics company specializing in the development of advanced software tools for mass spectrometry-based proteomics research. The company's flagship product suite, Scaffold, is widely used by researchers to visualize, validate, and annotate complex proteomics data, facilitating the identification and quantification of proteins. Their solutions support various workflows, including post-translational modification (PTM) analysis, data-independent acquisition (DIA), and small molecule identification. In September 2024, the company was acquired by Bruker to enhance its post-processing software capabilities for the timsTOF platform. Despite the acquisition, the software continues to support data from all major mass spectrometry hardware vendors.