Ten quick tips for sequence-based prediction of protein properties using machine learning
Fig 5
Defining positives and negatives in PPI interface data.
A positive is a residue that was observed to be interacting, however, in general it is hard to obtain negative data for PPI. For epitope-antibody binding negative data may be available for some parts of the protein: peptides that were tested and shown to not bind. Buried residues may be considered negatives or you may prefer to exclude them altogether. Created with Biorender.com.