Analysis of Ugandan cervical carcinomas identifies human papillomavirus clade–specific epigenome and transcriptome landscapes

Alessia Gagliardi, Vanessa L. Porter, Zusheng Zong, Reanne Bowlby, Emma Titmuss, Constance Namirembe, Nicholas B. Griner, Hilary Petrello, Jay Bowen, Simon K. Chan, Luka Culibrk, Teresa M. Darragh, Mark H. Stoler, Thomas C. Wright, Patee Gesuwan, Maureen A. Dyer, Yussanne Ma, Karen L. Mungall, Steven J.M. Jones, Carolyn NakisigeKaren Novik, Jackson Orem, Martin Origa, Julie M. Gastier-Foster, Robert Yarchoan, Corey Casper, Gordon B. Mills, Janet S. Rader, Akinyemi I. Ojesina, Daniela S. Gerhard, Andrew J. Mungall, Marco A. Marra

    Research output: Contribution to journalArticlepeer-review

    4 Scopus citations

    Abstract

    Cervical cancer is the most common cancer affecting sub-Saharan African women and is prevalent among HIV-positive (HIV+) individuals. No comprehensive profiling of cancer genomes, transcriptomes or epigenomes has been performed in this population thus far. We characterized 118 tumors from Ugandan patients, of whom 72 were HIV+, and performed extended mutation analysis on an additional 89 tumors. We detected human papillomavirus (HPV)-clade-specific differences in tumor DNA methylation, promoter- and enhancer-associated histone marks, gene expression and pathway dysregulation. Changes in histone modification at HPV integration events were correlated with upregulation of nearby genes and endogenous retroviruses.

    Original languageEnglish (US)
    Pages (from-to)800-810
    Number of pages11
    JournalNature genetics
    Volume52
    Issue number8
    DOIs
    StatePublished - Aug 1 2020

    ASJC Scopus subject areas

    • Genetics

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