Deep neural networks for interpreting RNA-binding protein target preferences.

ABSTRACT: Deep learning has become a powerful paradigm to analyze the binding sites of regulatory factors including RNA-binding proteins (RBPs), owing to its strength to learn complex features from possibly multiple sources of raw data. However, the interpretability of these models, which is crucial to improve our understanding of RBP binding preferences and functions, has not yet been investigated in significant detail. We have designed a multitask and multimodal deep neural network for characterizing in vivo RBP targets. The model incorporates not only the sequence but also the region type of the binding sites as input, which helps the model to boost the prediction performance. To interpret the model, we quantified the contribution of the input features to the predictive score of each RBP. Learnin

SUBMITTER: Ghanbari M 

PROVIDER: S-EPMC7050519 | biostudies-literature | 2020 Feb

REPOSITORIES: biostudies-literature