DNA Steganalysis Using Deep Recurrent Neural Networks

Recent advances in next-generation sequencing technologies have facilitated the use of deoxyribonucleic acid (DNA) as a novel covert channels in steganography. There are various methods that exist in other domains to detect hidden messages in conventional covert channels. However, they have not been applied to DNA steganography. The current most common detection approaches, namely frequency analysis-based methods, often overlook important signals when directly applied to DNA steganography because those methods depend on the distribution of the number of sequence characters. To address this limitation, we propose a general sequence learning-based DNA steganalysis framework. The proposed approach learns the intrinsic distribution of coding and non-coding sequences and detects hidden messages by exploiting distribution variations after hiding these messages. Using deep recurrent neural networks (RNNs), our framework identifies the distribution variations by using the classification score to predict whether a sequence is to be a coding or non-coding sequence. We compare our proposed method to various existing methods and biological sequence analysis methods implemented on top of our framework. According to our experimental results, our approach delivers a robust detection performance compared to other tools

Dreaming neural networks: forgetting spurious memories and reinforcing pure ones

The standard Hopfield model for associative neural networks accounts for biological Hebbian learning and acts as the harmonic oscillator for pattern recognition, however its maximal storage capacity is $\alpha \sim 0.14$, far from the theoretical bound for symmetric networks, i.e. $\alpha =1$. Inspired by sleeping and dreaming mechanisms in mammal brains, we propose an extension of this model displaying the standard on-line (awake) learning mechanism (that allows the storage of external information in terms of patterns) and an off-line (sleep) unlearning$\&$consolidating mechanism (that allows spurious-pattern removal and pure-pattern reinforcement): this obtained daily prescription is able to saturate the theoretical bound $\alpha=1$, remaining also extremely robust against thermal noise. Both neural and synaptic features are analyzed both analytically and numerically. In particular, beyond obtaining a phase diagram for neural dynamics, we focus on synaptic plasticity and we give explicit prescriptions on the temporal evolution of the synaptic matrix. We analytically prove that our algorithm makes the Hebbian kernel converge with high probability to the projection matrix built over the pure stored patterns. Furthermore, we obtain a sharp and explicit estimate for the "sleep rate" in order to ensure such a convergence. Finally, we run extensive numerical simulations (mainly Monte Carlo sampling) to check the approximations underlying the analytical investigations (e.g., we developed the whole theory at the so called replica-symmetric level, as standard in the Amit-Gutfreund-Sompolinsky reference framework) and possible finite-size effects, finding overall full agreement with the theory.Comment: 31 pages, 12 figure

Machine learning in spectral domain

Deep neural networks are usually trained in the space of the nodes, by adjusting the weights of existing links via suitable optimization protocols. We here propose a radically new approach which anchors the learning process to reciprocal space. Specifically, the training acts on the spectral domain and seeks to modify the eigenvectors and eigenvalues of transfer operators in direct space. The proposed method is ductile and can be tailored to return either linear or non linear classifiers. The performance are competitive with standard schemes, while allowing for a significant reduction of the learning parameter space. Spectral learning restricted to eigenvalues could be also employed for pre-training of the deep neural network, in conjunction with conventional machine-learning schemes. Further, it is surmised that the nested indentation of eigenvectors that defines the core idea of spectral learning could help understanding why deep networks work as well as they do