Analysis of Ugandan cervical carcinomas identifies human papillomavirus clade–specific epigenome and transcriptome landscapes
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...
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| Veröffentlicht in: | Nature genetics 2020-08, Vol.52 (8), p.800-810 |
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| creator | Gagliardi, Alessia Porter, Vanessa L. Zong, Zusheng Bowlby, Reanne Titmuss, Emma Namirembe, Constance Griner, Nicholas B. Petrello, Hilary Bowen, Jay Chan, Simon K. Culibrk, Luka Darragh, Teresa M. Stoler, Mark H. Wright, Thomas C. Gesuwan, Patee Dyer, Maureen A. Ma, Yussanne Mungall, Karen L. Jones, Steven J. M. Nakisige, Carolyn Novik, Karen Orem, Jackson Origa, Martin Gastier-Foster, Julie M. Yarchoan, Robert Casper, Corey Mills, Gordon B. Rader, Janet S. Ojesina, Akinyemi I. Gerhard, Daniela S. Mungall, Andrew J. Marra, Marco A. |
| description | 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.
Genomic analysis of 118 cervical tumors from Ugandan individuals identifies HPV-clade-specific differences in tumor DNA methylation, regulatory-region-associated histone marks, gene expression and pathway dysregulation. |
| doi_str_mv | 10.1038/s41588-020-0673-7 |
| format | Article |
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+
) 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.
Genomic analysis of 118 cervical tumors from Ugandan individuals identifies HPV-clade-specific differences in tumor DNA methylation, regulatory-region-associated histone marks, gene expression and pathway dysregulation.</description><identifier>ISSN: 1061-4036</identifier><identifier>EISSN: 1546-1718</identifier><identifier>DOI: 10.1038/s41588-020-0673-7</identifier><identifier>PMID: 32747824</identifier><language>eng</language><publisher>New York: Nature Publishing Group US</publisher><subject>38/39 ; 38/90 ; 38/91 ; 45/15 ; 45/22 ; 45/23 ; 45/56 ; 631/208/212 ; 631/208/212/177 ; 631/208/212/2019 ; 631/67/1517 ; 631/67/1858 ; Adult ; Aged ; Agriculture ; Analysis ; Animal Genetics and Genomics ; Binding sites ; Biomedical and Life Sciences ; Biomedicine ; Cancer ; Cancer Research ; Cervical cancer ; Cervical carcinoma ; Cervix ; Chromosomes ; Deoxyribonucleic acid ; DNA ; DNA methylation ; DNA Methylation - genetics ; Endogenous retroviruses ; Epigenome - genetics ; Female ; Gene expression ; Gene Function ; Genes ; Genetic aspects ; Genomes ; Genomics ; Histones ; HIV ; HIV (Viruses) ; HIV patients ; Human Genetics ; Human immunodeficiency virus ; Human papillomavirus ; Humans ; Methylation ; Middle Aged ; Mutation ; Papillomaviridae - pathogenicity ; Papillomavirus infections ; Papillomavirus Infections - genetics ; Papillomavirus Infections - virology ; Papillomaviruses ; Promoter Regions, Genetic - genetics ; Signal Transduction - genetics ; Transcriptome - genetics ; Tumors ; Uganda ; Up-Regulation - genetics ; Uterine Cervical Neoplasms - genetics ; Uterine Cervical Neoplasms - virology</subject><ispartof>Nature genetics, 2020-08, Vol.52 (8), p.800-810</ispartof><rights>The Author(s), under exclusive licence to Springer Nature America, Inc. 2020</rights><rights>COPYRIGHT 2020 Nature Publishing Group</rights><rights>Copyright Nature Publishing Group Aug 2020</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c605t-8b16d610e303eaf5fe54281223dec2d4ae780aeb18ab24e45a493c98112bff53</citedby><cites>FETCH-LOGICAL-c605t-8b16d610e303eaf5fe54281223dec2d4ae780aeb18ab24e45a493c98112bff53</cites><orcidid>0000-0001-5979-8465 ; 0000-0002-0681-3665 ; 0000-0003-3394-2208 ; 0000-0002-3609-661X ; 0000-0001-6861-9043 ; 0000-0002-3057-1395 ; 0000-0002-6024-503X ; 0000-0002-0905-2742 ; 0000-0002-1993-6912 ; 0000-0001-7146-7175 ; 0000-0002-5366-9010 ; 0000-0002-0144-9614 ; 0000-0002-7167-4884</orcidid></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://link.springer.com/content/pdf/10.1038/s41588-020-0673-7$$EPDF$$P50$$Gspringer$$H</linktopdf><linktohtml>$$Uhttps://link.springer.com/10.1038/s41588-020-0673-7$$EHTML$$P50$$Gspringer$$H</linktohtml><link.rule.ids>230,314,776,780,881,27901,27902,41464,42533,51294</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/32747824$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Gagliardi, Alessia</creatorcontrib><creatorcontrib>Porter, Vanessa L.</creatorcontrib><creatorcontrib>Zong, Zusheng</creatorcontrib><creatorcontrib>Bowlby, Reanne</creatorcontrib><creatorcontrib>Titmuss, Emma</creatorcontrib><creatorcontrib>Namirembe, Constance</creatorcontrib><creatorcontrib>Griner, Nicholas B.</creatorcontrib><creatorcontrib>Petrello, Hilary</creatorcontrib><creatorcontrib>Bowen, Jay</creatorcontrib><creatorcontrib>Chan, Simon K.</creatorcontrib><creatorcontrib>Culibrk, Luka</creatorcontrib><creatorcontrib>Darragh, Teresa M.</creatorcontrib><creatorcontrib>Stoler, Mark H.</creatorcontrib><creatorcontrib>Wright, Thomas C.</creatorcontrib><creatorcontrib>Gesuwan, Patee</creatorcontrib><creatorcontrib>Dyer, Maureen A.</creatorcontrib><creatorcontrib>Ma, Yussanne</creatorcontrib><creatorcontrib>Mungall, Karen L.</creatorcontrib><creatorcontrib>Jones, Steven J. M.</creatorcontrib><creatorcontrib>Nakisige, Carolyn</creatorcontrib><creatorcontrib>Novik, Karen</creatorcontrib><creatorcontrib>Orem, Jackson</creatorcontrib><creatorcontrib>Origa, Martin</creatorcontrib><creatorcontrib>Gastier-Foster, Julie M.</creatorcontrib><creatorcontrib>Yarchoan, Robert</creatorcontrib><creatorcontrib>Casper, Corey</creatorcontrib><creatorcontrib>Mills, Gordon B.</creatorcontrib><creatorcontrib>Rader, Janet S.</creatorcontrib><creatorcontrib>Ojesina, Akinyemi I.</creatorcontrib><creatorcontrib>Gerhard, Daniela S.</creatorcontrib><creatorcontrib>Mungall, Andrew J.</creatorcontrib><creatorcontrib>Marra, Marco A.</creatorcontrib><title>Analysis of Ugandan cervical carcinomas identifies human papillomavirus clade–specific epigenome and transcriptome landscapes</title><title>Nature genetics</title><addtitle>Nat Genet</addtitle><addtitle>Nat Genet</addtitle><description>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.
Genomic analysis of 118 cervical tumors from Ugandan individuals identifies HPV-clade-specific differences in tumor DNA methylation, regulatory-region-associated histone marks, gene expression and pathway dysregulation.</description><subject>38/39</subject><subject>38/90</subject><subject>38/91</subject><subject>45/15</subject><subject>45/22</subject><subject>45/23</subject><subject>45/56</subject><subject>631/208/212</subject><subject>631/208/212/177</subject><subject>631/208/212/2019</subject><subject>631/67/1517</subject><subject>631/67/1858</subject><subject>Adult</subject><subject>Aged</subject><subject>Agriculture</subject><subject>Analysis</subject><subject>Animal Genetics and Genomics</subject><subject>Binding sites</subject><subject>Biomedical and Life Sciences</subject><subject>Biomedicine</subject><subject>Cancer</subject><subject>Cancer Research</subject><subject>Cervical cancer</subject><subject>Cervical carcinoma</subject><subject>Cervix</subject><subject>Chromosomes</subject><subject>Deoxyribonucleic acid</subject><subject>DNA</subject><subject>DNA methylation</subject><subject>DNA Methylation - genetics</subject><subject>Endogenous retroviruses</subject><subject>Epigenome - genetics</subject><subject>Female</subject><subject>Gene expression</subject><subject>Gene Function</subject><subject>Genes</subject><subject>Genetic aspects</subject><subject>Genomes</subject><subject>Genomics</subject><subject>Histones</subject><subject>HIV</subject><subject>HIV (Viruses)</subject><subject>HIV patients</subject><subject>Human Genetics</subject><subject>Human immunodeficiency virus</subject><subject>Human papillomavirus</subject><subject>Humans</subject><subject>Methylation</subject><subject>Middle Aged</subject><subject>Mutation</subject><subject>Papillomaviridae - pathogenicity</subject><subject>Papillomavirus infections</subject><subject>Papillomavirus Infections - genetics</subject><subject>Papillomavirus Infections - virology</subject><subject>Papillomaviruses</subject><subject>Promoter Regions, Genetic - genetics</subject><subject>Signal Transduction - genetics</subject><subject>Transcriptome - genetics</subject><subject>Tumors</subject><subject>Uganda</subject><subject>Up-Regulation - genetics</subject><subject>Uterine Cervical Neoplasms - genetics</subject><subject>Uterine Cervical Neoplasms - virology</subject><issn>1061-4036</issn><issn>1546-1718</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2020</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><sourceid>8G5</sourceid><sourceid>BENPR</sourceid><sourceid>GUQSH</sourceid><sourceid>M2O</sourceid><recordid>eNqNks9qFEEQxgdRTIw-gBcZ8KKHif1vZnovwhKMBgIBjV6b2p6aSYf5Z9fMYk7mHXxDn8RaNyauKEgfpqn6fV9PFV-SPJXiUAptX5GRubWZUCITRamz8l6yL3NTZLKU9j7fRSEzI3SxlzwiuhRCGiPsw2RPq9KUVpn95Ouyh_aKAqVDnX5soK-gTz3GdfDQph6iD_3QAaWhwn4KdUBKL-aOoRHG0LbcW4c4U-pbqPD79Tca0TPmUxxDg6zFlE3TKUJPPoZx2lRaLpGHEelx8qCGlvDJzfcgOT9-c370Ljs9e3tytDzNfCHyKbMrWVSFFKiFRqjzGnOjrFRKV-hVZQBLKwBX0sJKGTQ5mIX2CyulWtV1rg-S11vbcV51WHmeJULrxhg6iFdugOB2O324cM2wdqVhEyvY4MWNQRw-z0iT6wJ5bHkSHGZyyvCfFYtSW0af_4FeDnPkNf-kpNWmKMUd1UCLLvT1wO_6jalbFlrmwvIETB3-heJTYRf80GMduL4jeLkjYGbCL1MDM5E7-fD-_9mzT7us3LI-DkQR69vdSeE2YXTbMDoOo9uE0ZWsefb70m8Vv9LHgNoCxK2-wXi3qX-7_gCceOuJ</recordid><startdate>20200801</startdate><enddate>20200801</enddate><creator>Gagliardi, Alessia</creator><creator>Porter, Vanessa L.</creator><creator>Zong, Zusheng</creator><creator>Bowlby, Reanne</creator><creator>Titmuss, Emma</creator><creator>Namirembe, Constance</creator><creator>Griner, Nicholas B.</creator><creator>Petrello, Hilary</creator><creator>Bowen, Jay</creator><creator>Chan, Simon K.</creator><creator>Culibrk, Luka</creator><creator>Darragh, Teresa M.</creator><creator>Stoler, Mark H.</creator><creator>Wright, Thomas C.</creator><creator>Gesuwan, Patee</creator><creator>Dyer, Maureen A.</creator><creator>Ma, Yussanne</creator><creator>Mungall, Karen L.</creator><creator>Jones, Steven J. 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M. ; Nakisige, Carolyn ; Novik, Karen ; Orem, Jackson ; Origa, Martin ; Gastier-Foster, Julie M. ; Yarchoan, Robert ; Casper, Corey ; Mills, Gordon B. ; Rader, Janet S. ; Ojesina, Akinyemi I. ; Gerhard, Daniela S. ; Mungall, Andrew J. ; Marra, Marco A.</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c605t-8b16d610e303eaf5fe54281223dec2d4ae780aeb18ab24e45a493c98112bff53</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2020</creationdate><topic>38/39</topic><topic>38/90</topic><topic>38/91</topic><topic>45/15</topic><topic>45/22</topic><topic>45/23</topic><topic>45/56</topic><topic>631/208/212</topic><topic>631/208/212/177</topic><topic>631/208/212/2019</topic><topic>631/67/1517</topic><topic>631/67/1858</topic><topic>Adult</topic><topic>Aged</topic><topic>Agriculture</topic><topic>Analysis</topic><topic>Animal Genetics and Genomics</topic><topic>Binding sites</topic><topic>Biomedical and Life Sciences</topic><topic>Biomedicine</topic><topic>Cancer</topic><topic>Cancer Research</topic><topic>Cervical cancer</topic><topic>Cervical carcinoma</topic><topic>Cervix</topic><topic>Chromosomes</topic><topic>Deoxyribonucleic acid</topic><topic>DNA</topic><topic>DNA methylation</topic><topic>DNA Methylation - genetics</topic><topic>Endogenous retroviruses</topic><topic>Epigenome - genetics</topic><topic>Female</topic><topic>Gene expression</topic><topic>Gene Function</topic><topic>Genes</topic><topic>Genetic aspects</topic><topic>Genomes</topic><topic>Genomics</topic><topic>Histones</topic><topic>HIV</topic><topic>HIV (Viruses)</topic><topic>HIV patients</topic><topic>Human Genetics</topic><topic>Human immunodeficiency virus</topic><topic>Human papillomavirus</topic><topic>Humans</topic><topic>Methylation</topic><topic>Middle Aged</topic><topic>Mutation</topic><topic>Papillomaviridae - pathogenicity</topic><topic>Papillomavirus infections</topic><topic>Papillomavirus Infections - genetics</topic><topic>Papillomavirus Infections - virology</topic><topic>Papillomaviruses</topic><topic>Promoter Regions, Genetic - genetics</topic><topic>Signal Transduction - genetics</topic><topic>Transcriptome - genetics</topic><topic>Tumors</topic><topic>Uganda</topic><topic>Up-Regulation - genetics</topic><topic>Uterine Cervical Neoplasms - genetics</topic><topic>Uterine Cervical Neoplasms - virology</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Gagliardi, Alessia</creatorcontrib><creatorcontrib>Porter, Vanessa L.</creatorcontrib><creatorcontrib>Zong, Zusheng</creatorcontrib><creatorcontrib>Bowlby, Reanne</creatorcontrib><creatorcontrib>Titmuss, Emma</creatorcontrib><creatorcontrib>Namirembe, Constance</creatorcontrib><creatorcontrib>Griner, Nicholas B.</creatorcontrib><creatorcontrib>Petrello, Hilary</creatorcontrib><creatorcontrib>Bowen, Jay</creatorcontrib><creatorcontrib>Chan, Simon K.</creatorcontrib><creatorcontrib>Culibrk, Luka</creatorcontrib><creatorcontrib>Darragh, Teresa M.</creatorcontrib><creatorcontrib>Stoler, Mark H.</creatorcontrib><creatorcontrib>Wright, Thomas C.</creatorcontrib><creatorcontrib>Gesuwan, Patee</creatorcontrib><creatorcontrib>Dyer, Maureen A.</creatorcontrib><creatorcontrib>Ma, Yussanne</creatorcontrib><creatorcontrib>Mungall, Karen L.</creatorcontrib><creatorcontrib>Jones, Steven J. M.</creatorcontrib><creatorcontrib>Nakisige, Carolyn</creatorcontrib><creatorcontrib>Novik, Karen</creatorcontrib><creatorcontrib>Orem, Jackson</creatorcontrib><creatorcontrib>Origa, Martin</creatorcontrib><creatorcontrib>Gastier-Foster, Julie M.</creatorcontrib><creatorcontrib>Yarchoan, Robert</creatorcontrib><creatorcontrib>Casper, Corey</creatorcontrib><creatorcontrib>Mills, Gordon B.</creatorcontrib><creatorcontrib>Rader, Janet S.</creatorcontrib><creatorcontrib>Ojesina, Akinyemi I.</creatorcontrib><creatorcontrib>Gerhard, Daniela S.</creatorcontrib><creatorcontrib>Mungall, Andrew J.</creatorcontrib><creatorcontrib>Marra, Marco A.</creatorcontrib><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>Opposing Viewpoints in Context (Gale)</collection><collection>Gale In Context: Science</collection><collection>ProQuest Central (Corporate)</collection><collection>Bacteriology Abstracts (Microbiology B)</collection><collection>Calcium & Calcified Tissue Abstracts</collection><collection>Chemoreception Abstracts</collection><collection>Entomology Abstracts (Full archive)</collection><collection>Industrial and Applied Microbiology Abstracts (Microbiology A)</collection><collection>Neurosciences Abstracts</collection><collection>Nucleic Acids Abstracts</collection><collection>Virology and AIDS Abstracts</collection><collection>Health & Medical Collection</collection><collection>ProQuest Central (purchase pre-March 2016)</collection><collection>Biology Database (Alumni Edition)</collection><collection>Medical Database (Alumni Edition)</collection><collection>ProQuest Pharma Collection</collection><collection>Public Health Database</collection><collection>Technology Research Database</collection><collection>ProQuest SciTech Collection</collection><collection>ProQuest Natural Science Collection</collection><collection>Hospital Premium Collection</collection><collection>Hospital Premium Collection (Alumni Edition)</collection><collection>ProQuest Central (Alumni) (purchase pre-March 2016)</collection><collection>Research Library (Alumni Edition)</collection><collection>ProQuest Central (Alumni Edition)</collection><collection>ProQuest One Sustainability</collection><collection>ProQuest Central UK/Ireland</collection><collection>ProQuest Central Essentials</collection><collection>Biological Science Collection</collection><collection>ProQuest Central</collection><collection>Natural Science Collection</collection><collection>Environmental Sciences and Pollution Management</collection><collection>ProQuest One Community College</collection><collection>ProQuest Central Korea</collection><collection>Engineering Research Database</collection><collection>Health Research Premium Collection</collection><collection>Health Research Premium Collection (Alumni)</collection><collection>ProQuest Central Student</collection><collection>Research Library Prep</collection><collection>AIDS and Cancer Research Abstracts</collection><collection>SciTech Premium Collection</collection><collection>ProQuest Health & Medical Complete (Alumni)</collection><collection>ProQuest Biological Science Collection</collection><collection>Health & Medical Collection (Alumni Edition)</collection><collection>Medical Database</collection><collection>Research Library</collection><collection>Algology Mycology and Protozoology Abstracts (Microbiology C)</collection><collection>Biological Science Database</collection><collection>Research Library (Corporate)</collection><collection>Biotechnology and BioEngineering Abstracts</collection><collection>ProQuest One Academic Eastern Edition (DO NOT USE)</collection><collection>ProQuest One Academic</collection><collection>ProQuest One Academic UKI Edition</collection><collection>ProQuest Central Basic</collection><collection>Genetics Abstracts</collection><collection>MEDLINE - Academic</collection><collection>PubMed Central (Full Participant titles)</collection><jtitle>Nature genetics</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Gagliardi, Alessia</au><au>Porter, Vanessa L.</au><au>Zong, Zusheng</au><au>Bowlby, Reanne</au><au>Titmuss, Emma</au><au>Namirembe, Constance</au><au>Griner, Nicholas B.</au><au>Petrello, Hilary</au><au>Bowen, Jay</au><au>Chan, Simon K.</au><au>Culibrk, Luka</au><au>Darragh, Teresa M.</au><au>Stoler, Mark H.</au><au>Wright, Thomas C.</au><au>Gesuwan, Patee</au><au>Dyer, Maureen A.</au><au>Ma, Yussanne</au><au>Mungall, Karen L.</au><au>Jones, Steven J. M.</au><au>Nakisige, Carolyn</au><au>Novik, Karen</au><au>Orem, Jackson</au><au>Origa, Martin</au><au>Gastier-Foster, Julie M.</au><au>Yarchoan, Robert</au><au>Casper, Corey</au><au>Mills, Gordon B.</au><au>Rader, Janet S.</au><au>Ojesina, Akinyemi I.</au><au>Gerhard, Daniela S.</au><au>Mungall, Andrew J.</au><au>Marra, Marco A.</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Analysis of Ugandan cervical carcinomas identifies human papillomavirus clade–specific epigenome and transcriptome landscapes</atitle><jtitle>Nature genetics</jtitle><stitle>Nat Genet</stitle><addtitle>Nat Genet</addtitle><date>2020-08-01</date><risdate>2020</risdate><volume>52</volume><issue>8</issue><spage>800</spage><epage>810</epage><pages>800-810</pages><issn>1061-4036</issn><eissn>1546-1718</eissn><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.
Genomic analysis of 118 cervical tumors from Ugandan individuals identifies HPV-clade-specific differences in tumor DNA methylation, regulatory-region-associated histone marks, gene expression and pathway dysregulation.</abstract><cop>New York</cop><pub>Nature Publishing Group US</pub><pmid>32747824</pmid><doi>10.1038/s41588-020-0673-7</doi><tpages>11</tpages><orcidid>https://orcid.org/0000-0001-5979-8465</orcidid><orcidid>https://orcid.org/0000-0002-0681-3665</orcidid><orcidid>https://orcid.org/0000-0003-3394-2208</orcidid><orcidid>https://orcid.org/0000-0002-3609-661X</orcidid><orcidid>https://orcid.org/0000-0001-6861-9043</orcidid><orcidid>https://orcid.org/0000-0002-3057-1395</orcidid><orcidid>https://orcid.org/0000-0002-6024-503X</orcidid><orcidid>https://orcid.org/0000-0002-0905-2742</orcidid><orcidid>https://orcid.org/0000-0002-1993-6912</orcidid><orcidid>https://orcid.org/0000-0001-7146-7175</orcidid><orcidid>https://orcid.org/0000-0002-5366-9010</orcidid><orcidid>https://orcid.org/0000-0002-0144-9614</orcidid><orcidid>https://orcid.org/0000-0002-7167-4884</orcidid><oa>free_for_read</oa></addata></record> |
| fulltext | fulltext |
| identifier | ISSN: 1061-4036 |
| ispartof | Nature genetics, 2020-08, Vol.52 (8), p.800-810 |
| issn | 1061-4036 1546-1718 |
| language | eng |
| recordid | cdi_pubmedcentral_primary_oai_pubmedcentral_nih_gov_7498180 |
| source | MEDLINE; SpringerLink Journals; Nature Journals Online |
| subjects | 38/39 38/90 38/91 45/15 45/22 45/23 45/56 631/208/212 631/208/212/177 631/208/212/2019 631/67/1517 631/67/1858 Adult Aged Agriculture Analysis Animal Genetics and Genomics Binding sites Biomedical and Life Sciences Biomedicine Cancer Cancer Research Cervical cancer Cervical carcinoma Cervix Chromosomes Deoxyribonucleic acid DNA DNA methylation DNA Methylation - genetics Endogenous retroviruses Epigenome - genetics Female Gene expression Gene Function Genes Genetic aspects Genomes Genomics Histones HIV HIV (Viruses) HIV patients Human Genetics Human immunodeficiency virus Human papillomavirus Humans Methylation Middle Aged Mutation Papillomaviridae - pathogenicity Papillomavirus infections Papillomavirus Infections - genetics Papillomavirus Infections - virology Papillomaviruses Promoter Regions, Genetic - genetics Signal Transduction - genetics Transcriptome - genetics Tumors Uganda Up-Regulation - genetics Uterine Cervical Neoplasms - genetics Uterine Cervical Neoplasms - virology |
| title | Analysis of Ugandan cervical carcinomas identifies human papillomavirus clade–specific epigenome and transcriptome landscapes |
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