DNAscent v2: detecting replication forks in nanopore sequencing data with deep learning.

ABSTRACT:

Background

Measuring DNA replication dynamics with high throughput and single-molecule resolution is critical for understanding both the basic biology behind how cells replicate their DNA and how DNA replication can be used as a therapeutic target for diseases like cancer. In recent years, the detection of base analogues in Oxford Nanopore Technologies (ONT) sequencing reads has become a promising new method to supersede existing single-molecule methods such as DNA fibre analysis: ONT sequencing yields long reads with high throughput, and sequenced molecules can be mapped to the genome using standard sequence alignment software.

Results

This paper introduces DNAscent v2, software that uses a residual neural network to achieve fast, accurate detection of the thymidine analogu

SUBMITTER: Boemo MA 

PROVIDER: S-EPMC8191041 | biostudies-literature | 2021 Jun

REPOSITORIES: biostudies-literature