crisscrosslinkeR: identification and visualization of protein-RNA and protein-protein interactions from crosslinking mass spectrometry

Abstract

SUMMARY\nUnbiased detection of protein-protein and protein-RNA interactions within ribonucleoprotein complexes are enabled through crosslinking followed by mass spectrometry. Yet, different methods detect different types of molecular interactions and therefore require the usage of different software packages with limited compatibility. We present crisscrosslinkeR, an R package that maps both protein-protein and protein-RNA interactions detected by different types of approaches for crosslinking with mass spectrometry. crisscrosslinkeR produces output files that are compatible with visualization using popular software packages for the generation of publication-quality figures.\n\n\nAVAILABILITY AND IMPLEMENTATION\ncrisscrosslinkeR is a free and open-source package, available through GitHub: github.com/egmg726/crisscrosslinker.\n\n\nSUPPLEMENTARY INFORMATION\nWorkflows are available at https://egmg726.github.io/crisscrosslinker/.