Gibbs Sampling Method Identifies Disrupted Pathways and Genes in Periodontitis
INTERNATIONAL JOURNAL OF HUMAN GENETICS
Authors: Zhang, Qi-Zhi; Wei, Wei; Zhang, Xiu-Min; Pan, Xiao-Han; Xu, Xiao-Qing; Gao, Yan-Yan; Chen, Si-Cong; Zhao, Yan-Ying
Abstract
Periodontitis is a chrome inflammatory disease triggered by the host immune response. The aim of this study is to explote the disturbed pathways and genes in periodontitis. Transcriptome data of healthy and diseased gingival tissues and human pathway data were recruited from public available database. Then Gibbs sampling and Markov chain Monte Carlo (MCMC) algorithm were implemented to identify disturbed pathways and key genes. Disturbed pathways and key genes were identified under adjusted posterior value > 0.8. The researchers identified two disturbed pathways (cytokine-cytokine receptor interaction and hematopoietic cell lineage) and two key genes (TNFRSF17 and CXCL6). Gene expression analysis showed that all the disturbed pathways and key genes had increased expression levels in diseased gingival samples compared with healthy samples. The identified pathways and genes may play important role in periodontitis and could be consideied as potential biomarkers for early detection and therapy for periodontitis.
Presence of four major haplotypes in human BCMA gene: lack of association with systemic lupus erythematosus and rheumatoid arthritis
GENES AND IMMUNITY
Authors: Kawasaki, A; Tsuchiya, N; Fukazawa, T; Hashimoto, H; Tokunaga, K
Abstract
BCMA (TNFRSF17), along with TACI, has recently been demonstrated to be a receptor for BLyS (TNFSF13B). Recent studies indicated substantial role of BLyS signaling pathway for systemic lupus erythematosus (SLE). In the present study, we made an attempt to screen for polymorphisms of human BCMA, and to test their possible association with SLE and rheumatoid arthritis (RA). Two single nucleotide polymorphisms (SNPs) were detected within the coding sequence, both of which were synonymous substitutions. In addition, two SNPs within the promoter, two SNPs in the 5-untranslated region (UTP), one SNP and one single nucleotide deletion in the 3' UTR and four rare variations were detected. From the combination of the polymorphisms, it was elucidated that four major haplotypes account for most of the genotypes in the Japanese population. Association with SLE and RA was not detected, although a slight tendency for the increase of BCMA.03 in SLE was observed (P = 0.089). These results indicated that human BCMA is conserved with respect to the amino acid sequence, and evidence for association with SLE and RA was not observed.