A distance-type measure approach to the analysis of copy number variation in DNA sequencing data.

ABSTRACT:

Background

The next generation sequencing technology allows us to obtain a large amount of short DNA sequence (DNA-seq) reads at a genome-wide level. DNA-seq data have been increasingly collected during the recent years. Count-type data analysis is a widely used approach for DNA-seq data. However, the related data pre-processing is based on the moving window method, in which a window size need to be defined in order to obtain count-type data. Furthermore, useful information can be reduced after data pre-processing for count-type data.

Results

In this study, we propose to analyze DNA-seq data based on the related distance-type measure. Distances are measured in base pairs (bps) between two adjacent alignments of short reads mapped to a reference genome. Our experimental data

SUBMITTER: Biswas B 

PROVIDER: S-EPMC6456939 | biostudies-literature | 2019 Apr

REPOSITORIES: biostudies-literature