Detecting Small Inversions Using SRinversion

Methods Mol Biol. 2018;1833:107-114. doi: 10.1007/978-1-4939-8666-8_8.

Abstract

Rapid development of next generation sequencing (NGS) technology has substantially improved our ability to detect genomic variations. However, unlike other variations, such as point mutations, insertions, and deletions, which can be identified in high sensitivities and specificities based on NGS reads, most of inversions, especially those shorter than 1 kb, remain difficult to detect. Here we introduce a new framework, SRinversion, which was developed specifically for detection of inversions shorter than 1 kb by splitting and realigning poorly mapped or unmapped reads of the NGS data.

Keywords: NGS; Short inversion detection; Split reads method; Structural variations.

MeSH terms

  • High-Throughput Nucleotide Sequencing / methods*
  • Sequence Analysis, DNA / methods*
  • Sequence Inversion*