DeepCORE: An interpretable multi-view deep neural network model to detect co-operative regulatory elements.

ABSTRACT: Gene transcription is an essential process involved in all aspects of cellular functions with significant impact on biological traits and diseases. This process is tightly regulated by multiple elements that co-operate to jointly modulate the transcription levels of target genes. To decipher the complicated regulatory network, we present a novel multi-view attention-based deep neural network that models the relationship between genetic, epigenetic, and transcriptional patterns and identifies co-operative regulatory elements (COREs). We applied this new method, named DeepCORE, to predict transcriptomes in various tissues and cell lines, which outperformed the state-of-the-art algorithms. Furthermore, DeepCORE contains an interpreter that extracts the attention values embedded in the deep ne

SUBMITTER: Chandrashekar PB 

PROVIDER: S-EPMC10825326 | biostudies-literature | 2024 Dec

REPOSITORIES: biostudies-literature