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Investigation of genetic variations susceptibility to chronic periodontitis by OpenArray®: Biostatistics, Bioinformatics and Functional Analysis

Grant number: 16/18313-3
Support type:Scholarships abroad - Research Internship - Doctorate
Effective date (Start): December 01, 2016
Effective date (End): November 30, 2017
Field of knowledge:Health Sciences - Dentistry - Periodontology
Principal researcher:Raquel Mantuaneli Scarel Caminaga
Grantee:Rafael Nepomuceno Oliveira
Supervisor abroad: Silvana Pereira Barros
Home Institution: Faculdade de Odontologia (FOAr). Universidade Estadual Paulista (UNESP). Campus de Araraquara. Araraquara , SP, Brazil
Research place: University of North Carolina at Chapel Hill (UNC), United States  
Associated to the scholarship:14/13295-1 - Investigation of the association of genetic variation regarding susceptibility to chronic periodontal disease by OpenArray, BP.DR

Abstract

Many studies around the world have investigated genetic polymorphisms associated with susceptibility to periodontal disease (PD), but more studies are need to know risk factors to chronic periodontitis (CP) in the Brazilian population, mainly because its miscegenation. Moreover, there are few studies focused on identifying biological functionality of polymorphisms in the context of PD. This present BEPE proposal aims to complement the PhD project (supported by FAPESP) in the University of North Carolina at Chapel Hill (UNC). The PhD project in development in Brazil aims to investigate single nucleotide polymorphism (SNPs) in candidate genes that potentially could influence susceptibility to CP in a Brazilian population. A total of 712 patients were selected and divided as: (i) Group A (n = 356) patients with moderate or severe CP; Group B (n = 356): patients with mild CP and healthy patients. Genotyping data will be obtained from 64 SNP in candidate genes, by Real-Time PCR (Polymerase Chain Reaction) reactions using the OpenArrayTM system (Applied Biosystems). After doing this part in Brazil, we propose to execute in UNC a deeper and complex biostatistical and bioinformatics analyses of the genotypes data. Principal component analysis (PCA) of these genotyped SNPs will be made to explore the sample relationship. After doing the complete logistic regression for single SNPs and covariates, further test interactions between two SNPs and covariates and functional genomics analyses will be executed. Moreover, we aimed to do functional analysis of a selected SNP, investigating its potential transcriptional/ translational influence on the gene that resides, as well other genes biologically related with it, as other genes in the same signaling cascade.

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Scientific publications (6)
(References retrieved automatically from Web of Science and SciELO through information on FAPESP grants and their corresponding numbers as mentioned in the publications by the authors)
NEPOMUCENO, RAFAEL; PIGOSSI, SUZANE C.; FINOTI, LIVIA S.; ORRICO, SILVANA R. P.; CIRELLI, JONI A.; BARROS, SILVANA P.; OFFENBACHER, STEVEN; SCAREL-CAMINAGA, RAQUEL M.. Serum lipid levels in patients with periodontal disease: A meta-analysis and meta-regression. JOURNAL OF CLINICAL PERIODONTOLOGY, v. 44, n. 12, p. 1192-1207, . (16/18313-3, 14/13295-1)
CIRELLI, THAMIRIS; NEPOMUCENO, RAFAEL; ORRICO, SILVANA R. P.; ROSSA, JR., CARLOS; CIRELLI, JONI A.; NORTH, KARI E.; GRAFF, MARIAELISA; BARROS, SILVANA P.; SCAREL-CAMINAGA, RAQUEL M.. Validation in a Brazilian population of gene markers of periodontitis previously investigated by GWAS and bioinformatic studies. Journal of Periodontology, v. 92, n. 5, p. 689-703, . (16/18313-3, 16/03753-8, 14/13295-1)
RIMACHI HIDALGO, MARCO A.; CIRELLI, THAMIRIS; DA SILVA, BARBARA ROQUE; NICCHIO, INGRA GAGNO; NEPOMUCENO, RAFAEL; ORRICO, SILVANA R. P.; CIRELLI, JONI A.; THEODORO, LETICIA HELENA; BARROS, SILVANA P.; SCAREL-CAMINAGA, RAQUEL M.. Polymorphisms and haplotypes in the Interleukin 17 Alfa gene: potential effect of smoking habits in the association with periodontitis and type 2 diabetes mellitus. MOLECULAR BIOLOGY REPORTS, v. 48, n. 2, . (18/26367-1, 16/03753-8, 16/08070-6, 16/18313-3, 14/13295-1)
DA SILVA, BARBARA ROQUE; CIRELLI, THAMIRIS; NEPOMUCENO, RAFAEL; THEODORO, LETICIA HELENA; ORRICO, SILVANA R. P.; CIRELLI, JONI A.; BARROS, SILVANA P.; SCAREL-CAMINAGA, RAQUEL M.. Functional haplotype in the Interleukin8 (CXCL8) gene is associated with type 2 Diabetes Mellitus and Periodontitis in Brazilian population. DIABETES & METABOLIC SYNDROME-CLINICAL RESEARCH & REVIEWS, v. 14, n. 6, p. 1665-1672, . (14/13295-1, 16/03753-8, 16/18313-3, 16/25418-6, 18/26367-1, 16/08070-6)
CIRELLI, THAMIRIS; NEPOMUCENO, RAFAEL; GOVEIA, JESSICA MARINA; ORRICO, SILVANA R. P.; CIRELLI, JONI A.; THEODORO, LETICIA HELENA; BARROS, SILVANA P.; SCAREL-CAMINAGA, RAQUEL M.. Association of type 2 diabetes mellitus and periodontal disease susceptibility with genome-wide association-identified risk variants in a Southeastern Brazilian population. CLINICAL ORAL INVESTIGATIONS, v. 25, n. 6, . (18/26367-1, 14/13295-1, 16/18313-3, 16/08070-6, 16/03753-8)
CIRELLI, THAMIRIS; NEPOMUCENO, RAFAEL; RIOS, ANA CLAUDIA S.; ORRICO, SILVANA R. P.; CIRELLI, JONI A.; THEODORO, LETICIA H.; BARROS, SILVANA P.; SCAREL-CAMINAGA, RAQUEL M.. Genetic polymorphisms in theInterleukins IL1B, IL4,andIL6are associated with concomitant periodontitis and type 2 diabetes mellitus in Brazilian patients. JOURNAL OF PERIODONTAL RESEARCH, v. 55, n. 6, . (14/13295-1, 16/18313-3, 16/03753-8, 16/08070-6)

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