Construction of tree models for pathogenesis of nasopharyngeal carcinoma

Authors

  • Zhongxi Huang,

    1. Cancer Institute, Department of Pathology, First Military Medical University, Guangzhou, People's Republic of China
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  • Richard Desper,

    1. Computational Biology Branch, National Center for Biotechnology Information, National Institutes of Health, Department of Health and Human Services, Bethesda, Maryland
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  • Alejandro A. Schäffer,

    Corresponding author
    1. Computational Biology Branch, National Center for Biotechnology Information, National Institutes of Health, Department of Health and Human Services, Bethesda, Maryland
    • NCBI/NIH, Bldg. 38A, Room 8N805; 8600 Rockville Pike, Bethesda, MD 20894
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  • Zhihua Yin,

    1. Cancer Institute, Central South University, Changsha, People's Republic of China
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  • Xin Li,

    1. Cancer Institute, Department of Pathology, First Military Medical University, Guangzhou, People's Republic of China
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  • Kaitai Yao

    Corresponding author
    1. Cancer Institute, Department of Pathology, First Military Medical University, Guangzhou, People's Republic of China
    2. Cancer Institute, Central South University, Changsha, People's Republic of China
    • Cancer Institute, Department of Pathology, First Military Medical University, Guangzhou, 510515, People's Republic of China
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  • This article is a US Government work and, as such, is in the public domain in the United States of America.

Abstract

Pathogenesis of nasopharyngeal carcinoma (NPC) is a multistep and multipathway process that cannot be fully explained by a fixed linear progression model. We used distance-based and branching-tree methods to construct more general tree-like models for NPC carcinogenesis from 170 comparative genomic hybridization (CGH) samples previously published in five smaller studies. Imbalances were classified into “overlap regions,” each containing the most commonly gained or lost band on each chromosome arm as well as adjacent bands that were gained or lost almost as often. The chromosome abnormalities associated with NPC were −3p26–13 (48.9%), −11q22–25 (38.1%), −16q12–24 (38.1%), −14q24–32 (32.4%), −13q21–32 (22.3%), −9p23–21(21.6%), +12p12 (46%), +12q13–15 (43.9%), +1q22–32 (33.1%), +3q13.1–26.2 (30.2%), and +8q22.1–24.2 (27.3%). NPC can be classified into two groups, one marked by +12p12 and +8q22.1–24.2 and the other by −3p26–13, −11q22–25, −14q24–32, and +1q22–32. The tree models predicted −3p26–13 and +12p12 as early events and +8q22.1–24.2 as a late event. The predictions for −3p26–13 and +8q22.1–24.2 were consistent with previous studies. The prediction for +12p12 is being reported for the first time. Many known NPC-related genes on chromosomal regions of these tree models are discussed, some of which may merit additional study. The potential applications of tree models are also discussed. © 2004 Wiley-Liss, Inc.

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