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Human Papilloma Virus Integration Strictly Correlates with Global Genome Instability in Head and Neck Cancer
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Originator:The Pennsylvania State University
Publication_Date:2021
Title:
Human Papilloma Virus Integration Strictly Correlates with Global Genome Instability in Head and Neck Cancer
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Authors: Brandon LaBarge 1,2, Max Hennessey 1,2, Lijun Zhang 2, David Goldrich 1,2, Scott Chartrand 3, Carson Purnell 3, Sage Wright 3, David Goldenberg 1, James R. Broach 2,3 1 Department of Otolaryngology, PennState Health, Hershey PA 17033 2 Institute for Personalized Medicine and 3 Department of Biochemistry and Molecular Biology, Penn State College of Medicine, Hershey PA 17033.
Online_Linkage: http://www.datacommons.psu.edu/
Description:
Abstract: 
We applied a combination of whole genome sequencing and whole genome imaging to interrogate the genome structure of HPV-positive oropharyngeal squamous cell carcinomas. We found the virus integrated in the host genome in two thirds of the tumors examined but resided solely extrachromosomally in the other third. Integration of the virus occurred at essentially random sites within the genome and at more than one site in the genome in half the cases of integration. In several cases, integration occurred at the junction between inter- or intra-chromosomal translocations. Focal amplification of the virus and the genomics sequences surrounding it often occurred subsequent to integration, with the number of tandem repeats in the chromosome fully accounting for the increased copy number of the genome sequences flanking the site of integration. In all cases, viral integration correlated with pervasive genome-wide somatic alterations, including multiple insertions, deletions, translocations, inversions and point mutations. Few or no somatic structural variants were present in tumors with only episomal HPV. Our data can best be interpreted by positing that episomal HPV is captured in the host genome following an episode of global genome instability during tumor development. Viral integration and the associated extensive mutation of the genome correlated with more aggressive tumors, suggesting that HPV integration status may inform prognosis.
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Calendar_Date:2021
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Theme_Keyword:health
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Contact_Information:
Contact_Organization_Primary:
Contact_Organization:Penn State
Contact_Person:Lijun Zhang, Ph.D.
Contact_Position:Pennsylvania State University College of Medicine
Contact_Address:
Address_Type:mailing address
Address: 
Suite 2020, Mail Code: R125
Address: 
1214 Research Blvd
Address: 
Penn State IPM, Bioinformatics
City:Hummelstown
State_or_Province:Pennsylvania
Postal_Code:17036
Country:USA
Contact_Electronic_Mail_Address:lzhang6@pennstatehealth.psu.edu
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City:University Park
State_or_Province:Pennsylvania
Postal_Code:16802
Country:United States
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Contact_Electronic_Mail_Address:datacommons@psu.edu
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The USER shall indemnify, save harmless, and, if requested, defend those parties involved with the development and distribution of this data, their officers, agents, and employees from and against any suits, claims, or actions for injury, death, or property damage arising out of the use of or any defect in the FILES or any accompanying documentation. Those parties involved with the development and distribution excluded any and all implied warranties, including warranties or merchantability and fitness for a particular purpose and makes no warranty or representation, either express or implied, with respect to the FILES or accompanying documentation, including its quality, performance, merchantability, or fitness for a particular purpose. The FILES and documentation are provided "as is" and the USER assumes the entire risk as to its quality and performance. Those parties involved with the development and distribution of this data will not be liable for any direct, indirect, special, incidental, or consequential damages arising out of the use or inability to use the FILES or any accompanying documentation.
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Contact_Organization:Penn State Data Commons
Contact_Position:Metadata Coordinator
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Address_Type:mailing address
Address: 
115 Land and Water Building
City:University Park
State_or_Province:Pennsylvania
Postal_Code:16802
Country:United States
Contact_Voice_Telephone:814-865-8792
Contact_Electronic_Mail_Address:datacommons@psu.edu
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Metadata_Time_Convention:local time
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