SEGF: A Novel Method for Gene Fusion Detection from Single-End Next-Generation Sequencing Data.

ABSTRACT: With the development and application of next-generation sequencing (NGS) and target capture technology, the demand for an effective analysis method to accurately detect gene fusion from high-throughput data is growing. Hence, we developed a novel fusion gene analyzing method called single-end gene fusion (SEGF) by starting with single-end DNA-seq data. This approach takes raw sequencing data as input, and integrates the commonly used alignment approach basic local alignment search tool (BLAST) and short oligonucleotide analysis package (SOAP) with stringent passing filters to achieve successful fusion gene detection. To evaluate SEGF, we compared it with four other fusion gene discovery analysis methods by analyzing sequencing results of 23 standard DNA samples and DNA extracted from 286 l

SUBMITTER: Xu H 

PROVIDER: S-EPMC6070977 | biostudies-literature | 2018 Jul

REPOSITORIES: biostudies-literature