Protein tertiary structure defines its functions, classification and binding sites. Similar struc... more Protein tertiary structure defines its functions, classification and binding sites. Similar structural characteristics between two proteins often lead to the similar characteristics thereof. Determining structural similarity accurately in real time is a crucial research issue. In this paper, we present a novel and effective scoring scheme that is dependent on novel features extracted from protein alpha carbon distance matrices. Our scoring scheme is inspired from pattern recognition and computer vision. Our method is significantly better than the current state of the art methods in terms of family match of pairs of protein structures and other statistical measurements. The effectiveness of our method is tested on standard benchmark structures. A web service is available at http://research.buet.ac.bd:8080/Comograd/score.html where you can get the similarity measurement score between two protein structures based on our method.
In this paper, we present a canonical structure for controlling information flow in neural networ... more In this paper, we present a canonical structure for controlling information flow in neural networks with an efficient feedback routing mechanism based on a strategy of Distributed Iterative Gating (DIGNet). The structure of this mechanism derives from a strong conceptual foundation, and presents a light-weight mechanism for adaptive control of computation similar to recurrent convolutional neural networks by integrating feedback signals with a feed forward architecture. In contrast to other RNN formulations, DIGNet generates feedback signals in a cascaded manner that implicitly carries information from all the layers above. This cascaded feedback propagation by means of the propagator gates is found to be more effective compared to other feedback mechanisms that use feedback from output of either the corresponding stage or from the previous stage. Experiments reveal the high degree of capability that this recurrent approach with cascaded feedback presents over feed-forward baselines...
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