Transcriptional profiling by sequencing of oropharyngeal cancer

Rebecca R. Laborde, Vivian W. Wang, Todd M. Smith, N. Eric Olson, Steven M. Olsen, Joaquín J. García, Kerry D. Olsen, Eric J. Moore, Jan Kasperbauer, Nicole M. Tombers, David I Smith

Research output: Contribution to journalArticle

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Abstract

Objective: To compare full transcriptome expression levels of matched tumor and normal samples from patients with oropharyngeal carcinoma stratified by known tumor etiologic factors. Patients and Methods: Full transcriptome sequencing was analyzed for 10 matched tumor and normal tissue samples from patients with previously untreated oropharyngeal carcinoma. Transcriptomes were analyzed using massively parallel messenger RNA sequencing and validated using the NanoString nCounter system. Global gene expression levels were compared in samples grouped by smoking status and human papillomavirus status. This study was completed between June 10, 2010, and June 30, 2011. Results: Global gene expression analysis indicated tumor tissue from former smokers grouped more closely to the never smokers than the current smokers. Pathway analysis revealed alterations in the expression of genes involved in the p53 DNA damage-repair pathway, including CHEK2 and ATR, which display patterns of increased expression that is associated with human papillomavirus-negative current smokers rather than former or never smokers. Conclusion: These findings support the application of messenger RNA sequencing technology as an important clinical tool for more accurately stratifying patients based on individual tumor biology with the goal of improving our understanding of tumor prognosis and treatment response, ultimately leading to individualized patient care strategies.

Original languageEnglish (US)
Pages (from-to)226-232
Number of pages7
JournalMayo Clinic Proceedings
Volume87
Issue number3
DOIs
StatePublished - 2012

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Oropharyngeal Neoplasms
Transcriptome
RNA Sequence Analysis
Neoplasms
Gene Expression
Carcinoma
Messenger RNA
DNA Repair
DNA Damage
Patient Care
Smoking
Technology

ASJC Scopus subject areas

  • Medicine(all)

Cite this

Laborde, R. R., Wang, V. W., Smith, T. M., Olson, N. E., Olsen, S. M., García, J. J., ... Smith, D. I. (2012). Transcriptional profiling by sequencing of oropharyngeal cancer. Mayo Clinic Proceedings, 87(3), 226-232. https://doi.org/10.1016/j.mayocp.2011.10.008

Transcriptional profiling by sequencing of oropharyngeal cancer. / Laborde, Rebecca R.; Wang, Vivian W.; Smith, Todd M.; Olson, N. Eric; Olsen, Steven M.; García, Joaquín J.; Olsen, Kerry D.; Moore, Eric J.; Kasperbauer, Jan; Tombers, Nicole M.; Smith, David I.

In: Mayo Clinic Proceedings, Vol. 87, No. 3, 2012, p. 226-232.

Research output: Contribution to journalArticle

Laborde, RR, Wang, VW, Smith, TM, Olson, NE, Olsen, SM, García, JJ, Olsen, KD, Moore, EJ, Kasperbauer, J, Tombers, NM & Smith, DI 2012, 'Transcriptional profiling by sequencing of oropharyngeal cancer', Mayo Clinic Proceedings, vol. 87, no. 3, pp. 226-232. https://doi.org/10.1016/j.mayocp.2011.10.008
Laborde RR, Wang VW, Smith TM, Olson NE, Olsen SM, García JJ et al. Transcriptional profiling by sequencing of oropharyngeal cancer. Mayo Clinic Proceedings. 2012;87(3):226-232. https://doi.org/10.1016/j.mayocp.2011.10.008
Laborde, Rebecca R. ; Wang, Vivian W. ; Smith, Todd M. ; Olson, N. Eric ; Olsen, Steven M. ; García, Joaquín J. ; Olsen, Kerry D. ; Moore, Eric J. ; Kasperbauer, Jan ; Tombers, Nicole M. ; Smith, David I. / Transcriptional profiling by sequencing of oropharyngeal cancer. In: Mayo Clinic Proceedings. 2012 ; Vol. 87, No. 3. pp. 226-232.
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