biostudies-literatureKim HNCATS NIH HHSNIDCR NIH HHSNational Institute of Dental and Craniofacial ResearchNIH HHS1152-1164https://www.ebi.ac.uk/biostudies/studies/S-EPMC8376779biostudies-literatureUnknown48(9)<h4>Aim</h4>We investigated differential DNA methylation in gingival tissues in periodontal health, gingivitis, and periodontitis, and its association with differential mRNA expression.<h4>Materials and methods</h4>Gingival tissues were harvested from individuals and sites with clinically healthy and intact periodontium, gingivitis, and periodontitis. Samples were processed for differential DNA methylation and mRNA expression using the IlluminaEPIC (850 K) and the IlluminaHiSeq2000 platforms, respectively. Across the three phenotypes, we identified differentially methylated CpG sites and regions, differentially expressed genes (DEGs), and genes with concomitant differential methylation at their promoters and expression were identified. The findings were validated using our earlier databaseJournal of clinical periodontologyDifferential DNA methylation and mRNA transcription in gingival tissues in periodontal health and disease.PMC8376779UL1 TR000040Colgate Palmolive CompanyR01 DE015649R03 DE024735R03 DE029546DE021820DE024735DE015649NCATS: TR000040R21 DE021820Momen-Heravi FKim HHoffmann PKebschull MChen SPapapanou PNfalseDifferential DNA methylation and mRNA transcription in gingival tissues in periodontal health and disease.<h4>Aim</h4>We investigated differential DNA methylation in gingival tissues in periodontal health, gingivitis, and periodontitis, and its association with differential mRNA expression.<h4>Materials and methods</h4>Gingival tissues were harvested from individuals and sites with clinically healthy and intact periodontium, gingivitis, and periodontitis. Samples were processed for differential DNA methylation and mRNA expression using the IlluminaEPIC (850 K) and the IlluminaHiSeq2000 platforms, respectively. Across the three phenotypes, we identified differentially methylated CpG sites and regions, differentially expressed genes (DEGs), and genes with concomitant differential methylation at their promoters and expression were identified. The findings were validated using our earlier database2021-01-01T00:00:00Z2021 Sep2026-05-28T04:06:06.519Z2025-02-19T03:29:45.424ZS-EPMC83767793410122110.1111/jcpe.13504