Designing protein sequences that can fold into a given structure is a well-known inverse protein-folding problem. One important characteristic to attain for a protein design program is the ability to recover wild-type sequences given their native backbone structures. The highest average sequence identity accuracy achieved by current protein-design programs in this problem is around 30%, achieved by our previous system, SPIN. SPIN is a program that predicts sequences compatible with a provided structure using a neural network with fragment-based local and energy-based nonlocal profiles. Our new model, SPIN2, uses a deep neural network and additional structural features to improve on SPIN. SPIN2 achieves over 34% in sequence recovery in 10-fold cross-validation and independent tests, a 4% improvement over the previous version. The sequence profiles generated from SPIN2 are expected to be useful for improving existing fold recognition and protein design techniques. SPIN2 is available at http://sparks-lab.org.

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In this paper we propose two new methods of improving the robustness of Automatic Speaker Identification systems. These methods rely on using long-term information in the speech signal to improve the robustness of the features. The first method involves averaging filterbank parameters from consecutive short-time frames over a longer window. The second method investigates the use of frame lengths longer than generally assumed stationary. We show that these two methods result in an improvement over standard Mel Frequency Cepstral Coefficients in the presence of additive white Gaussian noise in speaker identification applications. Furthermore, additional improvements are observed at mid-range SNR when the proposed methods are used in combination.