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Rheumatoid arthritis is the most common inflammatory arthritis and is a major effect of disability. This study aimed to explore the vital genes of auto immune diseases(rheumatoid arthritis) in homo sapiens by using bioinformatics analysis and exploration on the genes that causes the rheumatoid arthritis.The gene expression profile GSE 100191 was downloaded from the gene expression omnibus (GEO) database. Pathway enrichment analysis of genes were performed in the database for annotation, visualization and integrated discovery (DAVID) server. Further analysis was carried out by STRING server and Cytoscape to perform functional annotation and protein-protein interactions (PPI), network construction. The genes were separated to do the further analysis in Cytoscape and String website to find the hub gene and confident score. SNP analysis were performed using dbSNP, PolyPhen-2, SNAP2, pMUT, SNPs & GO and Mutpred software by using HDAC1 gene. There were 138 downregulated gene and 112 upregulated gene. HDAC1 was chosen from the 20 hub genes for SNP analysis. 34 SNP was found to be malignant. The gene HDAC1 (Histone Deacetylase 1), which is involved in rheumatoid arthritis, is important. This is the study which used computational approaches to classify significant nsSNP in HDAC1. The discovery of featured genes which were significantly related to cell cycle and DNA replication has potential for use in the clinic for the diagnosis of rheumatoid arthritis in the future.