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Transcriptome Sequencing for the Detection of Chimeric Transcripts

  • Hsueh-Ting ChuEmail author
Protocol
Part of the Methods in Molecular Biology book series (MIMB, volume 1381)

Abstract

The occurrence of chimeric transcripts has been reported in many cancer cells and seen as potential biomarkers and therapeutic targets. Modern high-throughput sequencing technologies offer a way to investigate individual chimeric transcripts and the systematic information of associated gene expressions about underlying genome structural variations and genomic interactions. The detection methods of finding chimeric transcripts from massive amount of short read sequence data are discussed here. Both assembly-based and alignment-based methods are used for the investigation of chimeric transcripts.

Key words

Transcriptome sequencing Chimeric transcript Fusion genes Cancer genes De novo assembly 

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Copyright information

© Springer Science+Business Media New York 2016

Authors and Affiliations

  1. 1.Department of Computer Science and Information EngineeringAsia UniversityTaichung CityTaiwan
  2. 2.Department of Medical Research, China Medical University HospitalChina Medical UniversityTaichungTaiwan

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