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Tumor Biology

, Volume 36, Issue 12, pp 9259–9265 | Cite as

Fuzzy clustering demonstrates that codon 72 SNP rs1042522 of TP53 gene associated with HNSCC but not with prognoses

  • Ugo Borges Pinheiro
  • Carlos Alberto de Carvalho Fraga
  • Danilo Cangussu Mendes
  • Lucyana Conceição Farias
  • Cláudio Marcelo Cardoso
  • Christine Mendes Silveira
  • Marcos Flávio Silveira Vasconcelos D̕Angelo
  • Kimberly Marie Jones
  • Sérgio Henrique Souza Santos
  • Alfredo Maurício Batista de Paula
  • André Luiz Sena Guimarães
Research Article

Abstract

It is estimated that 7.6 million people will die as a consequence of head and neck squamous cell carcinoma (HNSCC). Genetic predisposition has emerged as an important risk factor in the development and prognosis of HNSCC. Considering this, the aim of the current study is to assess whether codon 72 SNP of the TP53 gene (rs1042522) is associated with an increased odds ratio of developing HNSCC or with a worse prognosis in patients with HNSCC. Analysis of the rs1042522 in HNSCC patients and in control individuals. Differences between the case and control groups were determined using chi-squared tests. Multivariate analysis was performed to evaluate the odds ratio of HNSCC. Fussy C Means Clustering was to cluster HNSCC patients for survival analyses. Time of survival was calculated using the Kaplan-Meier estimator and comparing this to the log rank test. Statistical significance was set at p < 0.05. A total of 71.4 % of the Arg/Arg genotype were from HNSCC patients, while only 28.6 % of Arg/Arg genotype were found in the control group. Logistic regression demonstrated that the Arg/Arg genotype, smoking, and alcohol consumption increase the odds ratio of HNSCC. No association between TP53 codon 72 polymorphism and P53 expression. No association between rs1042522 and survival or prognoses was observed. This study identified that individuals carrying the arginine allele at rs1042522 have an increased odds ratio of HNSCC. However, no association between codon 72 SNP of the TP53 gene and HNSCC prognosis or P53 expression was observed.

Keywords

Tumor suppressor gene Survival Oral cancer Survival p53 

Notes

Acknowledgments

This study was supported by grants from the Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq), Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES), and the Fundação de Amparo a Pesquisa do Estado de Minas Gerais (FAPEMIG). Dr.Guimarães, Dr. Santos, and Dr. de Paula are research fellows of the CNPq.

Supplementary material

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Supplementary Figure 3

Survival of HNSCC patients according to TNM. The results of the Kaplan-Meier estimator were compared to the log rank test. (A) was without Fuzzy C Means clustering (p = 0.03) and (B) was with Fuzzy C Means clustering (p = 0.02) (GIF 16 kb)

13277_2015_3677_MOESM1_ESM.tif (11.8 mb)
(TIFF 12080 kb)
13277_2015_3677_MOESM2_ESM.doc (110 kb)
ESM 1 (DOC 109 kb)
13277_2015_3677_MOESM3_ESM.doc (30 kb)
ESM 2 (DOC 30 kb)

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Copyright information

© International Society of Oncology and BioMarkers (ISOBM) 2015

Authors and Affiliations

  • Ugo Borges Pinheiro
    • 1
  • Carlos Alberto de Carvalho Fraga
    • 1
  • Danilo Cangussu Mendes
    • 1
  • Lucyana Conceição Farias
    • 1
  • Cláudio Marcelo Cardoso
    • 2
  • Christine Mendes Silveira
    • 2
  • Marcos Flávio Silveira Vasconcelos D̕Angelo
    • 3
  • Kimberly Marie Jones
    • 4
  • Sérgio Henrique Souza Santos
    • 5
  • Alfredo Maurício Batista de Paula
    • 1
  • André Luiz Sena Guimarães
    • 1
  1. 1.Department of DentistryUniversidade Estadual de Montes ClarosMontes ClarosBrazil
  2. 2.Department of Medicine and Department of Computer ScienceUniversidade Estadual de Montes ClarosMontes ClarosBrazil
  3. 3.Universidade Estadual de Montes ClarosMontes ClarosBrazil
  4. 4.Center for ResearchThe Educative Association of BrazilMontes ClarosBrazil
  5. 5.Department PharmacologyUniversidade Federal de Minas GeraisBelo HorizonteBrazil

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