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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
|
| 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 |
| |
| Submission date |
Mar 04, 2014 |
| Last update date |
Apr 23, 2018 |
| Contact name |
Diego Altomare |
| Organization name |
University of South Carolina
|
| Department |
Department of Drug Discovery and Biomedical Sciences
|
| Lab |
Functional Genomics Core
|
| Street address |
715 Sumter Street, Room 617
|
| 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)
|
| 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 |
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