Win-win Cooperation: A Novel Dual-Modal Dual-Label Algorithm for Membrane Proteins Function Pre-screen

Integral membrane proteins (MPs) make up a large proportion of the genomes of many organisms and the amount of sequenced proteins is growing at an unprecedented pace. As a result, MPs function pre-screen is of great necessity. To be functional, MPs must be expressed and localized through a series of elaborate sub-cellular processes. It is worth noting that subtle changes in sequence may lead to drastic changes in expression and localization. In light of the above observation, taking the complementary information of sequence-based proteins into consideration, a novel boosting Dual-Modal Dual-Label (DMDL) algorithm with hypothesis reuse is proposed. On the one hand, DMDL treats sequence features and structure features as dual-modal. On the other hand, DMDL considers eukaryotic expression and plasma membrane localization as dual-label, which would be of great value as a pre-screen for MPs function. Meanwhile, two label sets interact, which can not only make the best use of two modal features, but also could effectively exploit the relationship between two label sets. An assessment of real-world channelrhodopsins (ChRs) chimeras clearly validate the effectiveness of DMDL algorithm compared with state-of-the-art algorithms. In addition, extensive experiments are performed on adapted public datasets, showing effectiveness of hypothesis reuse mechanism in DMDL.