A. Ercüment Çiçek

RPI-Zero reads a full-length protein and a whole spliced transcript in one input and returns a binding probability from sequence alone, with no structure and no interaction data for a new molecule. Its companion benchmark draws on 11.6 million CLIP peaks for 209 proteins from four public databases, splits whole sequence-similarity clusters into training and test, and matches negatives to positives in length and transcript popularity. On the unseen-RNA, unseen-protein and unseen-pair test slices its AUPRC is 0.753, 0.637 and 0.589, which is 2.7%, 7.4% and 4.6% above the second-best method on each slice.

RPI-Zero reads a full-length protein and a whole spliced transcript in one input and returns a binding probability from sequence alone, with no structure and no interaction data for a new molecule. Its companion benchmark draws on 11.6 million CLIP peaks for 209 proteins from four public databases, splits whole sequence-similarity clusters into training and test, and matches negatives to positives in length and transcript popularity. On the unseen-RNA, unseen-protein and unseen-pair test slices its AUPRC is 0.753, 0.637 and 0.589, which is 2.7%, 7.4% and 4.6% above the second-best method on each slice.