Genomics

Dataset Information

0

Copy Number Alterations in HNSCC with or without Oncogene Expressing Human Papillomavirus


ABSTRACT: Oncogene expressing human papillomavirus type 16 (HPV16) is found in a subset of head and neck squamous cell carcinomas (HNSCC). HPV16 drives carcinogenesis by inactivating p53 and pRb with the viral oncoproteins E6 and E7, reflected by a low level of mutations in TP53 and allelic loss at 3p, 9p and 17p, genetic changes frequently found in HNSCCs of non-viral etiology. We hypothesize that two pathways to HNSCC exist: one determined by HPV16 and one by environmental carcinogens. To define the critical genetic events in these two pathways, we now present a detailed genome analysis of HNSCC with and without HPV16 involvement by employing high resolution micro-array comparative genomic hybridization. Four regions showed alterations in HPV-negative tumors that were absent in HPV-positive tumors: losses at 3p11.2-26.3, 5q11.2-35.2, 9p21.1-24, and gains/amplifications at 11q12.1-13.4. Also, HPV16-negative tumors demonstrated loss at 18q12.1-23, in contrast to gain in HPV16-positive tumors. Seven regions were altered at high frequency (>33%) in both groups: gains at 3q22.2-qter, 5p15.2-pter, 8p11.2-qter, 9q22-34.1, 20p-20q and losses at 11q14.1-qter and 13q11-33. These data show that HNSCC arising by environmental carcinogens are characterized by genetic alterations that differ from those observed in HPV16-induced HNSCC, and most likely occur early in carcinogenesis. A number of genetic changes are shared in both tumor groups and can be considered crucial in the later stages of HNSCC progression.

ORGANISM(S): Homo sapiens

PROVIDER: GSE11931 | GEO | 2009/05/26

SECONDARY ACCESSION(S): PRJNA113831

REPOSITORIES: GEO

Dataset's files

Source:
Action DRS
Other
Items per page:
1 - 1 of 1

Similar Datasets

2009-05-26 | E-GEOD-11931 | biostudies-arrayexpress
2015-06-24 | GSE65858 | GEO
2015-06-24 | E-GEOD-65858 | biostudies-arrayexpress
2018-09-24 | PXD011058 | Pride
2005-11-28 | GSE3292 | GEO
2007-09-20 | E-GEOD-3292 | biostudies-arrayexpress
2014-03-05 | E-GEOD-55543 | biostudies-arrayexpress
2014-03-05 | GSE55543 | GEO
2021-02-28 | MSV000086965 | MassIVE
2013-06-13 | E-GEOD-47864 | biostudies-arrayexpress