|
|
2022, Vol. 26 ›› Issue (2): 253-259Selection of key genes related to biological functions and regulation pathway in periodontal reconstructionFeng Dongfei1, 2, He Hongxu1, Xie Qi1, Zhang Lili2, Zhou Hui1, Li Wei1
Abstract: BACKGROUND: In periodontal reconstruction tissue engineering, there is a wide range of options for biological signals which cannot be verified in sequence. Using bioinformatics methods, the relevant genes are integrated and analyzed, and the cascade regulatory pathways related to periodontal reconstruction are constructed, to find the key to open periodontal reconstruction. OBJECTIVE: To focus on periodontal reconstruction process and regulatory mechanism, aiming at screening out the key initiating genes in periodontal reconstruction and identify ideal gene targets for periodontal therapy. METHODS: GO function annotation system was used to analyze the genes of three biological functions including differentiation, osteogenesis, and fibrogenesis involved in periodontal reconstruction, and identify the intersection genes of each function. Integrated data from the major information databases of TRANSFAC, TarBase, TransmiR, miRTarBase and miRecords were collected to establish a "cascade regulatory pathway related to periodontal reconstruction," mapping all the genes in the biological process of periodontal reconstruction onto the regulatory network, to find out all the linear pathways in this subnet by breadth-first algorithm, and to seek the upstream regulatory genes. RESULTS AND CONCLUSION: The intersection genes of the three biological functions of stem cell differentiation, osteoblast differentiation/osteoblast proliferation, and fibroblast proliferation are CDK6 and SFRP1. In the cascade regulatory pathway, there are three primary genes that can be used as the key genes for upstream regulation of periodontal reconstruction: bone morphogenetic protein 7, PAX2 and SMAD3, two secondary genes: RUNX2 and JUN, and two tertiary genes: ESR1 and GNAS. The upstream initiation genes are mostly involved in the process of osteoblast differentiation/ osteoblast proliferation. It is predicted that there are eight possible genes that play a key role in the periodontal reconstruction process: SFRP1, bone morphogenetic protein 7, PAX2, SMAD3, RUNX2, JUN, ESR1, GNAS. The periodontal reconstruction process is highly possible to start with cell osteogenesis, including osteoblast differentiation and osteoblast proliferation, followed by fibroblast proliferation. Key words:stem cell, osteoblast, cell proliferation, periodontal reconstruction, bioinformatics, biological function, regulatory pathway, gene |