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Targeted Sequencing Strategies in Cancer Research

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Next Generation Sequencing in Cancer Research

Abstract

Despite the rapidly decreasing cost and increasing throughput of next-generation sequencing technologies, deep targeted resequencing has maintained its importance in the sensitive detection of mutations by focusing only on targets of biomedical or clinical relevance. In this chapter, we review current as well as emerging technologies that enable the capture of specific elements from a sample. In particular, we focus on targeted resequencing in cancer research. To date, the cancer research community has sequenced over 2,500 cancer samples from 17 different tissue types by whole-exome targeted resequencing. In addition, clinically relevant targets such as known cancer genes and cancer-associated miRNAs and viruses have been sequenced selectively by targeted next-generation sequencing technologies. We expect that the use of targeted resequencing in cancer research will soon become a standard research and analysis method, and in turn further technological developments that allow for the improved extraction of genetic components will be rapidly adopted.

HoJoon Lee and Billy T. Lau have contributed equally to this work.

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Acknowledgements

Support came from National Institutes of Health Grants P01 HG000205 (B.T.L. and H.P.J.), R21 CA140089 (H.P.J.), and NIH U01 CS151920 (H.L. and H.P.J). Additional support came from Doris Duke Clinical Foundation Clinical Scientist Development Award (H.P.J) and the Howard Hughes Medical Foundation Early Career Grant (H.P.J.).

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Authors and Affiliations

  1. Division of Oncology, Department of Medicine, Stanford University School of Medicine, CCSR 1115, 269 Campus Drive, Stanford, CA, 94305, USA

    HoJoon Lee & Hanlee P. Ji

  2. Stanford Genome Technology Center, Stanford University School of Medicine, 855 S. California Avenue, Palo Alto, CA, 94304, USA

    Billy T. Lau

  3. Stanford Genome Technology Center, Stanford University School of Medicine, 855 S. California Avenue, Stanford, CA, 94304, USA

    Hanlee P. Ji

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  1. HoJoon Lee
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Correspondence to Hanlee P. Ji .

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  1. Dept. Pathology & Laboratory Medicine, University of Calgary, Calgary, Alberta, Canada

    Wei Wu

  2. The Wellcome Trust Centre for Human Gene, University of Oxford, Oxford, United Kingdom

    Hani Choudhry

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Lee, H., Lau, B.T., Ji, H.P. (2013). Targeted Sequencing Strategies in Cancer Research. In: Wu, W., Choudhry, H. (eds) Next Generation Sequencing in Cancer Research. Springer, New York, NY. https://doi.org/10.1007/978-1-4614-7645-0_7

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