crisscrosslinkeR: identification and visualization of protein-RNA and protein-protein interactions from crosslinking
Emma H Gail1,2, Anup D Shah1,2,3,4, Ralf B Schittenhelm1,2,3
1Department of Biochemistry and Molecular Biology, Biomedicine Discovery Institute, Victoria 3800, Australia.
Summary:
Unbiased 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.
Availability And Implementation:
crisscrosslinkeR is a free and open-source package, available through GitHub: github.com/egmg726/crisscrosslinker.
Supplementary Information:
Supplementary data are available at Bioinformatics online.
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