Use of combination proteomic analysis to demonstrate molecular similarity of head and neck squamous cell carcinoma arising from different subsites

Paul Maurice Weinberger, Mark Merkley, Jeffrey R Lee, Bao Ling Adam, Christine G. Gourin, Robert H. Podolsky, Bruce G. Haffty, Evangelia Papadavid, Clarence Sasaki, Amanda Psyrri, William S. Dynan

Research output: Contribution to journalArticle

14 Citations (Scopus)

Abstract

Objective: To evaluate head and neck squamous cell carcinomas (HNSCCs) for differences in protein expression between oral cavity, oropharynx, larynx, and hypopharynx subsites. Design: Retrospective proteomic analysis using tissue microarray (TMA) and 2-dimensional difference gel electrophoresis (2D-DIGE). For the TMA, automated quantitative protein expression analysis was used to interrogate levels of 4 cell-cycle regulatory proteins chosen for their known roles in cancer (cyclin D1, p53, Rb, and p14). For the 2D-DIGE, lesional and normal adjacent tissues were enriched by laser capture microdissection. Total protein was extracted, analyzed by 2D-DIGE with saturation dye labeling, and evaluated for relative abundance levels of individual protein spots. Setting: Two tertiary-care academic medical centers. Patients: Seventy-one patients with HNSCC for TMA, and 14 patients with HNSCC with frozen tumor and normal tissue for 2D-DIGE. Results: The automated quantitative analysis of protein expression analysis revealed no difference between subsite for cyclin D1, p53, Rb, or p14 expression. The 2D-DIGE study was based on 28 gels (14 cancer gels and 14 adjacent normal gels), and 732 spots were identified as matching across more than 90% of gels. Significance was evaluated based on false discovery rate (FDR) estimated from permuted data sets. There were no significant differences in protein expression between subsites (FDR greater than or equal to 30% in all instances). Conclusions: Observed differences in outcomes between HNSCCs from different subsites may not reflect differences in tumor biologic characteristics between subsites. Rather, it is possible that observed clinical heterogeneity among HNSCCs may be based on other factors, such as viral vs chemical carcinogenesis.

Original languageEnglish (US)
Pages (from-to)694-703
Number of pages10
JournalArchives of Otolaryngology - Head and Neck Surgery
Volume135
Issue number7
DOIs
StatePublished - Jul 1 2009

Fingerprint

Two-Dimensional Difference Gel Electrophoresis
Proteomics
Gels
Proteins
Cyclin D1
Neoplasms
Tissue Array Analysis
Laser Capture Microdissection
Hypopharynx
Cell Cycle Proteins
Oropharynx
Tertiary Healthcare
Larynx
Mouth
Carcinoma, squamous cell of head and neck
Carcinogenesis
Coloring Agents

ASJC Scopus subject areas

  • Surgery
  • Otorhinolaryngology

Cite this

Use of combination proteomic analysis to demonstrate molecular similarity of head and neck squamous cell carcinoma arising from different subsites. / Weinberger, Paul Maurice; Merkley, Mark; Lee, Jeffrey R; Adam, Bao Ling; Gourin, Christine G.; Podolsky, Robert H.; Haffty, Bruce G.; Papadavid, Evangelia; Sasaki, Clarence; Psyrri, Amanda; Dynan, William S.

In: Archives of Otolaryngology - Head and Neck Surgery, Vol. 135, No. 7, 01.07.2009, p. 694-703.

Research output: Contribution to journalArticle

Weinberger, PM, Merkley, M, Lee, JR, Adam, BL, Gourin, CG, Podolsky, RH, Haffty, BG, Papadavid, E, Sasaki, C, Psyrri, A & Dynan, WS 2009, 'Use of combination proteomic analysis to demonstrate molecular similarity of head and neck squamous cell carcinoma arising from different subsites', Archives of Otolaryngology - Head and Neck Surgery, vol. 135, no. 7, pp. 694-703. https://doi.org/10.1001/archoto.2009.78
Weinberger, Paul Maurice ; Merkley, Mark ; Lee, Jeffrey R ; Adam, Bao Ling ; Gourin, Christine G. ; Podolsky, Robert H. ; Haffty, Bruce G. ; Papadavid, Evangelia ; Sasaki, Clarence ; Psyrri, Amanda ; Dynan, William S. / Use of combination proteomic analysis to demonstrate molecular similarity of head and neck squamous cell carcinoma arising from different subsites. In: Archives of Otolaryngology - Head and Neck Surgery. 2009 ; Vol. 135, No. 7. pp. 694-703.
@article{d0330029b7264b9fbc196e411b3f3b15,
title = "Use of combination proteomic analysis to demonstrate molecular similarity of head and neck squamous cell carcinoma arising from different subsites",
abstract = "Objective: To evaluate head and neck squamous cell carcinomas (HNSCCs) for differences in protein expression between oral cavity, oropharynx, larynx, and hypopharynx subsites. Design: Retrospective proteomic analysis using tissue microarray (TMA) and 2-dimensional difference gel electrophoresis (2D-DIGE). For the TMA, automated quantitative protein expression analysis was used to interrogate levels of 4 cell-cycle regulatory proteins chosen for their known roles in cancer (cyclin D1, p53, Rb, and p14). For the 2D-DIGE, lesional and normal adjacent tissues were enriched by laser capture microdissection. Total protein was extracted, analyzed by 2D-DIGE with saturation dye labeling, and evaluated for relative abundance levels of individual protein spots. Setting: Two tertiary-care academic medical centers. Patients: Seventy-one patients with HNSCC for TMA, and 14 patients with HNSCC with frozen tumor and normal tissue for 2D-DIGE. Results: The automated quantitative analysis of protein expression analysis revealed no difference between subsite for cyclin D1, p53, Rb, or p14 expression. The 2D-DIGE study was based on 28 gels (14 cancer gels and 14 adjacent normal gels), and 732 spots were identified as matching across more than 90{\%} of gels. Significance was evaluated based on false discovery rate (FDR) estimated from permuted data sets. There were no significant differences in protein expression between subsites (FDR greater than or equal to 30{\%} in all instances). Conclusions: Observed differences in outcomes between HNSCCs from different subsites may not reflect differences in tumor biologic characteristics between subsites. Rather, it is possible that observed clinical heterogeneity among HNSCCs may be based on other factors, such as viral vs chemical carcinogenesis.",
author = "Weinberger, {Paul Maurice} and Mark Merkley and Lee, {Jeffrey R} and Adam, {Bao Ling} and Gourin, {Christine G.} and Podolsky, {Robert H.} and Haffty, {Bruce G.} and Evangelia Papadavid and Clarence Sasaki and Amanda Psyrri and Dynan, {William S.}",
year = "2009",
month = "7",
day = "1",
doi = "10.1001/archoto.2009.78",
language = "English (US)",
volume = "135",
pages = "694--703",
journal = "JAMA Otolaryngology - Head and Neck Surgery",
issn = "2168-6181",
publisher = "American Medical Association",
number = "7",

}

TY - JOUR

T1 - Use of combination proteomic analysis to demonstrate molecular similarity of head and neck squamous cell carcinoma arising from different subsites

AU - Weinberger, Paul Maurice

AU - Merkley, Mark

AU - Lee, Jeffrey R

AU - Adam, Bao Ling

AU - Gourin, Christine G.

AU - Podolsky, Robert H.

AU - Haffty, Bruce G.

AU - Papadavid, Evangelia

AU - Sasaki, Clarence

AU - Psyrri, Amanda

AU - Dynan, William S.

PY - 2009/7/1

Y1 - 2009/7/1

N2 - Objective: To evaluate head and neck squamous cell carcinomas (HNSCCs) for differences in protein expression between oral cavity, oropharynx, larynx, and hypopharynx subsites. Design: Retrospective proteomic analysis using tissue microarray (TMA) and 2-dimensional difference gel electrophoresis (2D-DIGE). For the TMA, automated quantitative protein expression analysis was used to interrogate levels of 4 cell-cycle regulatory proteins chosen for their known roles in cancer (cyclin D1, p53, Rb, and p14). For the 2D-DIGE, lesional and normal adjacent tissues were enriched by laser capture microdissection. Total protein was extracted, analyzed by 2D-DIGE with saturation dye labeling, and evaluated for relative abundance levels of individual protein spots. Setting: Two tertiary-care academic medical centers. Patients: Seventy-one patients with HNSCC for TMA, and 14 patients with HNSCC with frozen tumor and normal tissue for 2D-DIGE. Results: The automated quantitative analysis of protein expression analysis revealed no difference between subsite for cyclin D1, p53, Rb, or p14 expression. The 2D-DIGE study was based on 28 gels (14 cancer gels and 14 adjacent normal gels), and 732 spots were identified as matching across more than 90% of gels. Significance was evaluated based on false discovery rate (FDR) estimated from permuted data sets. There were no significant differences in protein expression between subsites (FDR greater than or equal to 30% in all instances). Conclusions: Observed differences in outcomes between HNSCCs from different subsites may not reflect differences in tumor biologic characteristics between subsites. Rather, it is possible that observed clinical heterogeneity among HNSCCs may be based on other factors, such as viral vs chemical carcinogenesis.

AB - Objective: To evaluate head and neck squamous cell carcinomas (HNSCCs) for differences in protein expression between oral cavity, oropharynx, larynx, and hypopharynx subsites. Design: Retrospective proteomic analysis using tissue microarray (TMA) and 2-dimensional difference gel electrophoresis (2D-DIGE). For the TMA, automated quantitative protein expression analysis was used to interrogate levels of 4 cell-cycle regulatory proteins chosen for their known roles in cancer (cyclin D1, p53, Rb, and p14). For the 2D-DIGE, lesional and normal adjacent tissues were enriched by laser capture microdissection. Total protein was extracted, analyzed by 2D-DIGE with saturation dye labeling, and evaluated for relative abundance levels of individual protein spots. Setting: Two tertiary-care academic medical centers. Patients: Seventy-one patients with HNSCC for TMA, and 14 patients with HNSCC with frozen tumor and normal tissue for 2D-DIGE. Results: The automated quantitative analysis of protein expression analysis revealed no difference between subsite for cyclin D1, p53, Rb, or p14 expression. The 2D-DIGE study was based on 28 gels (14 cancer gels and 14 adjacent normal gels), and 732 spots were identified as matching across more than 90% of gels. Significance was evaluated based on false discovery rate (FDR) estimated from permuted data sets. There were no significant differences in protein expression between subsites (FDR greater than or equal to 30% in all instances). Conclusions: Observed differences in outcomes between HNSCCs from different subsites may not reflect differences in tumor biologic characteristics between subsites. Rather, it is possible that observed clinical heterogeneity among HNSCCs may be based on other factors, such as viral vs chemical carcinogenesis.

UR - http://www.scopus.com/inward/record.url?scp=67651092079&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=67651092079&partnerID=8YFLogxK

U2 - 10.1001/archoto.2009.78

DO - 10.1001/archoto.2009.78

M3 - Article

VL - 135

SP - 694

EP - 703

JO - JAMA Otolaryngology - Head and Neck Surgery

JF - JAMA Otolaryngology - Head and Neck Surgery

SN - 2168-6181

IS - 7

ER -