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Sanger Sequencing

Sanger Sequencing

DNA sequencing is a fundamental technique that is routinely used in the biological sciences. This method can be applied to a range of questions at different scales - from the sequencing of a cloned DNA fragment or the study of a mutation in a gene up to whole-genome sequencing. However, despite the widespread use of sequencing today, it was not until 1977 that Fredrick Sanger and his collaborators developed the chain-termination method to decode DNA sequences. It relies on the separation of a...

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Updated: Feb 16, 2026

Amplification, Next-generation Sequencing, and Genomic DNA Mapping of Retroviral Integration Sites

Amplification, Next-generation Sequencing, and Genomic DNA Mapping of Retroviral Integration Sites

Published on: March 22, 2016

BS-virus-finder: virus integration calling using bisulfite sequencing data.

Shengjie Gao^1,2,3,4,5,6, Xuesong Hu^2,3, Fengping Xu^3,7,8

¹Bioinformatics Research Center, Aarhus University, C. F. Møllers Allé 8, DK-8000, Aarhus C, Denmark.

|December 22, 2017

Summary

This summary is machine-generated.

A new software tool, BS-virus-finder (BSVF), detects viral integration breakpoints using bisulfite sequencing data. This tool enhances epigenetic studies by revealing links between viral integration and DNA methylation.

Keywords:

bisulfite sequencing carcinogenesis virus integration

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Area of Science:

Genomics
Epigenetics
Bioinformatics

Background:

DNA methylation regulates gene expression and is implicated in carcinogenesis.
Bisulfite sequencing is crucial for analyzing DNA methylation patterns.
Few tools exist for detecting viral integration using bisulfite sequencing data.

Purpose of the Study:

To develop a user-friendly software tool for detecting viral integration breakpoints.
To address the gap in bioinformatics tools for viral integration analysis.

Main Methods:

Development of BS-virus-finder (BSVF), a novel software tool.
Utilizing whole human genome bisulfite sequencing data for analysis.
The tool is available at https://github.com/BGI-SZ/BSVF.

Main Results:

BSVF demonstrates high sensitivity and specificity in detecting viral integration.
The software successfully identifies viral integration loci.

Conclusions:

BS-virus-finder is the first software to detect virus integration loci using bisulfite sequencing data.
BSVF is valuable for epigenetic studies and understanding viral integration's role in DNA methylation.