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Allele-Specific Expression Analysis in Cancer Using Next-Generation Sequencing Data

Allele-Specific Expression Analysis in Cancer Using Next-Generation Sequencing Data

Methods in Molecular Biology 1878: 125-137

Allele-specific expression arises when transcriptional activity at the different alleles of a gene differs considerably. Although extensive research has been carried out to detect and characterize this phenomenon, the landscape of allele-specific expression in cancer is still poorly understood. In this chapter, we describe a fast and reliable analysis pipeline to study allele-specific expression in cancer using next-generation sequencing data. The pipeline provides a gene-level analysis approach that exploits paired germline DNA and tumor RNA sequencing data and benefits from parallel computation resources when available.

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Accession: 065684334

Download citation: RISBibTeXText

PMID: 30378073

DOI: 10.1007/978-1-4939-8868-6_7

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