Identification of key regulators in Sarcoidosis through multidimensional systems biological approach

• Published in: Scientific reports Vol. 12; no. 1; p. 1236
• Main Authors: Tazyeen, Safia, Ahmed, Mohd Murshad, Farooqui, Anam, Alam, Aftab, Malik, Md. Zubbair, Saeed, Mohd, Ahmad, Irfan, Abohashrh, Mohammed, Singh, R. K. Brojen, Ishrat, Romana
• Format: Journal Article
• Language: English
• Published: London Nature Publishing Group UK 24.01.2022; Nature Publishing Group; Nature Portfolio
• Subjects: 631/114; 692/53; Case-Control Studies; CTLA-4 protein; Environmental factors; Gene expression; Gene Expression Profiling; Gene Regulatory Networks; Gene set enrichment analysis; Genetics; Humanities and Social Sciences; Humans; Immune system; Immunology; Inflammation; multidisciplinary; Protein Interaction Maps; Sarcoidosis; Sarcoidosis - genetics; Sarcoidosis - metabolism; Science; Science (multidisciplinary); Transcription factors
• ISSN: 2045-2322; 2045-2322
• DOI: 10.1038/s41598-022-05129-7

Sarcoidosis is a multi-organ disorder where immunology, genetic and environmental factors play a key role in causing Sarcoidosis, but its molecular mechanism remains unclear. Identification of its genetics profiling that regulates the Sarcoidosis network will be one of the main challenges to understand its aetiology. We have identified differentially expressed genes (DEGs) by analyzing the gene expression profiling of Sarcoidosis and compared it with healthy control. Gene set enrichment analysis showed that these DEGs were mainly enriched in the inflammatory response, immune system, and pathways in cancer. Sarcoidosis protein interaction network was constructed by a total of 877 DEGs (up-down) and calculated its network topological properties, which follow hierarchical scale-free fractal nature up to six levels of the organization. We identified a large number of leading hubs that contain six key regulators (KRs) including ICOS, CTLA4, FLT3LG, CD33, GPR29 and ITGA4 are deeply rooted in the network from top to bottom, considering a backbone of the network. We identified the transcriptional factors (TFs) which are closely interacted with KRs. These genes and their TFs regulating the Sarcoidosis network are expected to be the main target for the therapeutic approaches and potential biomarkers. However, experimental validations of KRs needed to confirm their efficacy.