Experimental determination of protein function is resource-consuming. As an alternative, computational prediction of protein function has received attention. In this context, protein structural classification (PSC) can help, by allowing for determining structural classes of currently unclassified proteins based on their features, and then relying on the fact that proteins with similar structures have similar functions. Existing PSC approaches rely on sequence-based or direct three-dimensional (3D) structure-based protein features. By contrast, we first model 3D structures of proteins as protein structure networks (PSNs). Then, we use network-based features for PSC. We propose the use of graphlets, state-of-the-art features in many research areas of network science, in the task of PSC. Moreover, because graphlets can deal only with unweighted PSNs, and because accounting for edge weights when constructing PSNs could improve PSC accuracy, we also propose a deep learning framework that automatically learns network features from weighted PSNs. When evaluated on a large set of approximately 9400 CATH and approximately 12 800 SCOP protein domains (spanning 36 PSN sets), the best of our proposed approaches are superior to existing PSC approaches in terms of accuracy, with comparable running times. Our data and code are available at
https://doi.org/10.5281/zenodo.3787922
Input feed-forward output feedback passive (IF-OFP) systems define a great number of dynamical systems. In this report, we show that dissipativity and passivity-based control combined with event-triggered networked control systems (NCS) provide a powerful platform for the design of cyber-physical systems (CPS). We propose QSR-dissipativity, passivity and L 2stability conditions for an event-triggered networked control system in three cases where: (i) an input-output event-triggering sampler condition is located on the plant's output side, (ii) an input-output event-triggering sampler condition is located on controller's output side, (iii) input-output event-triggering sampler conditions are located on the outputs of both the plant and controller. We will show that this leads to a large decrease in communicational load amongst sub-units in networked control structures. We show that passivity and stability conditions depend on passivity levels for the plant and controller. Our results also illustrate the trade-off among passivity levels, stability, and system's dependence on the rate of communication between the plant and controller.
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