Highlights • PhosR implements a suite of methods for comprehensive phosphoproteomic data analysis • Stably phosphorylated sites are useful for phospho-data normalization and integration • Signalomes constructed from PhosR enable interpretation of global signal transduction • PhosR reveals unappreciated interactions between the AMPK and insulin signaling Summary Mass spectrometry (MS)-based phosphoproteomics has revolutionized our ability to profile phosphorylation-based signaling in cells and...
