Computational Approaches for Finding Long Insertions and Deletions with NGS Data

Jin Zhang, Chong Chu, Yufeng Wu

Research output: Chapter in Book/Report/Conference proceedingChapterpeer-review


This chapter explains several aspects of the computational methods that call certain types of structural variation (SV), namely long insertions and deletions, using next-generation sequencing (NGS). It describes the main approaches from different categories, including the combined approaches. Each approach relies on some kind of signal contained in the reads that indicate the occurrence of SVs. Such signals are called as signatures of SVs. The chapter then introduces some ongoing projects that SV calling methods have been applied to. It provides a conclusion and discussion for future research directions. It provides an RD method called CNVnator (8), which calls copy number variations (CNV). The chapter focuses on describing computational tools that use combined signatures. The 1000 Genomes Project (1, 3) is the first large-scale project to sequence a large number of people in providing a comprehensive resource on human population genetic variation.

Original languageEnglish
Title of host publicationComputational Methods for Next Generation Sequencing Data Analysis
Number of pages21
ISBN (Electronic)9781119272182
ISBN (Print)9781118169483
StatePublished - Sep 6 2016


  • CNVnator
  • Computational methods
  • Genomic structural variation
  • Human population genetic variation
  • NGS data analysis
  • Read pair signature


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