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Status |
Public on Mar 05, 2014 |
Title |
Gene expression profiling of HPV-negative oropharyngeal cancers and Normal benign uvula, tonsil |
Organism |
Homo sapiens |
Experiment type |
Expression profiling by array
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Summary |
Head and neck cancer (HNC) is the fifth most common malignancy worldwide with an annual mortality rate of 200,000. About 90% of HNC can be classified as head and neck squamous cell carcinomas (HNSCC), of which approximately 75% are attributed to alcohol and tobacco consumption and 25 are associated with human papillomavirus (HPV), predominantly HPV16. HPV-associated OPC have better prognosis and a more favorable response to therapy as compared to HPV-negative tumors. Differences in risk factors, age of presentation, clinical behavior and gene expression profiles indicate that HPV-positive and HPV-negative tumors develop via different molecular mechanisms and are biologically distinct. This study aimed to compare the gene expression profiles of HPV-negative oropharyngeal squamous cell carcinoma (OPC) and normal benign uvula/tonsil tissues and determine what biological processes and pathways are affected in HPV-negative OPCs.
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Overall design |
ANALYSIS 6: Two-condition, one-color experiment: HPV-negative oropharyngeal tumor samples and normal benign uvula/tonsil tissues. Biological replicates: 16 HPV negtive samples and 4 Normal samples.
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Contributor(s) |
Tomar S, Altomare D, Kowli S, Kassler S, Sutkowski N, Gillespie MB, Creek KE, Pirisi L |
Citation(s) |
25899179 |
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Submission date |
Mar 04, 2014 |
Last update date |
Apr 23, 2018 |
Contact name |
Diego Altomare |
Organization name |
University of South Carolina
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Department |
Department of Drug Discovery and Biomedical Sciences
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Lab |
Functional Genomics Core
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Street address |
715 Sumter Street, Room 617
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City |
Columbia |
State/province |
SC |
ZIP/Postal code |
29208 |
Country |
USA |
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Platforms (1) |
GPL17077 |
Agilent-039494 SurePrint G3 Human GE v2 8x60K Microarray 039381 (Probe Name version) |
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Samples (20)
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GSM1339045 |
Analysis 6: HPV Negative - Biological replicate 1 |
GSM1339046 |
Analysis 6: HPV Negative - Biological replicate 2 |
GSM1339047 |
Analysis 6: HPV Negative - Biological replicate 3 |
GSM1339048 |
Analysis 6: HPV Negative - Biological replicate 4 |
GSM1339049 |
Analysis 6: HPV Negative - Biological replicate 5 |
GSM1339050 |
Analysis 6: HPV Negative - Biological replicate 6 |
GSM1339051 |
Analysis 6: HPV Negative - Biological replicate 7 |
GSM1339052 |
Analysis 6: HPV Negative - Biological replicate 8 |
GSM1339053 |
Analysis 6: HPV Negative - Biological replicate 9 |
GSM1339054 |
Analysis 6: HPV Negative - Biological replicate 10 |
GSM1339055 |
Analysis 6: HPV Negative - Biological replicate 11 |
GSM1339056 |
Analysis 6: HPV Negative - Biological replicate 12 |
GSM1339057 |
Analysis 6: HPV Negative - Biological replicate 13 |
GSM1339058 |
Analysis 6: HPV Negative - Biological replicate 14 |
GSM1339059 |
Analysis 6: HPV Negative - Biological replicate 15 |
GSM1339060 |
Analysis 6: HPV Negative - Biological replicate 16 |
GSM1339061 |
Analysis 6: Normal - Biological replicate 1 |
GSM1339062 |
Analysis 6: Normal - Biological replicate 2 |
GSM1339063 |
Analysis 6: Normal - Biological replicate 3 |
GSM1339064 |
Analysis 6: Normal - Biological replicate 4 |
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This SubSeries is part of SuperSeries: |
GSE55550 |
Gene expression profiles of oral and oropharyngeal cancers from European American and African American patients |
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Relations |
BioProject |
PRJNA240003 |