LeNup: learning nucleosome positioning from DNA sequences with improved convolutional neural networks.

ABSTRACT:

Motivation

Nucleosome positioning plays significant roles in proper genome packing and its accessibility to execute transcription regulation. Despite a multitude of nucleosome positioning resources available on line including experimental datasets of genome-wide nucleosome occupancy profiles and computational tools to the analysis on these data, the complex language of eukaryotic Nucleosome positioning remains incompletely understood.

Results

Here, we address this challenge using an approach based on a state-of-the-art machine learning method. We present a novel convolutional neural network (CNN) to understand nucleosome positioning. We combined Inception-like networks with a gating mechanism for the response of multiple patterns and long term association in DNA sequences. W

SUBMITTER: Zhang J 

PROVIDER: S-EPMC5946947 | biostudies-literature | 2018 May

REPOSITORIES: biostudies-literature