1. Collagen Type III Alpha 1 chain regulated by GATA-Binding Protein 6 affects Type II IFN response and propanoate metabolism in the recurrence of lower grade glioma.
- Author
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Huang R, Li Z, Zhu X, Yan P, Song D, Yin H, Hu P, Lin R, Wu S, Meng T, Zhang J, and Huang Z
- Subjects
- Adolescent, Adult, Aged, Aged, 80 and over, Brain Neoplasms genetics, Brain Neoplasms immunology, Brain Neoplasms pathology, Female, Gene Regulatory Networks, Glioma genetics, Glioma immunology, Glioma pathology, Humans, Interferon alpha-2 genetics, Male, Metabolic Networks and Pathways genetics, Metabolic Networks and Pathways immunology, Middle Aged, Neoplasm Grading, Neoplasm Proteins biosynthesis, Neoplasm Proteins genetics, Neoplasm Recurrence, Local pathology, Prognosis, Proportional Hazards Models, Risk, Young Adult, Brain Neoplasms metabolism, Collagen Type III physiology, GATA6 Transcription Factor physiology, Gene Expression Regulation, Neoplastic, Glioma metabolism, Interferon alpha-2 biosynthesis, Neoplasm Proteins physiology, Neoplasm Recurrence, Local metabolism, Propionates metabolism
- Abstract
Some studies suggested the prognosis value of immune gene in lower grade glioma (LGG). Recurrence in LGG is a tough clinical problem for many LGG patients. Therefore, prognosis biomarker is required. Multivariate prognosis Cox model was constructed and then calculated the risk score. And differential expressed transcription factors (TFs) and differential expressed immune genes (DEIGs) were co-analysed. Besides, significant immune cells/pathways were identified by single sample gene set enrichment analysis (ssGSEA). Moreover, gene set variation analysis (GSVA) and univariate Cox regression were applied to filter prognostic signalling pathways. Additionally, significant DEIG and immune cells/pathways, and significant DEIG and pathways were co-analysed. Further, differential enriched pathways were identified by GSEA. In sum, a scientific hypothesis for recurrence LGG including TF, immune gene and immune cell/pathway was established. In our study, a total of 536 primary LGG samples, 2,498 immune genes and 318 TFs were acquired. Based on edgeR method, 2,164 DEGs, 2,498 DEIGs and 31 differentials expressed TFs were identified. A total of 106 DEIGs were integrated into multivariate prognostic model. Additionally, the AUC of the ROC curve was 0.860, and P value of Kaplan-Meier curve < 0.001. GATA6 (TF) and COL3A1 (DEIG) were selected (R = 0.900, P < 0.001, positive) as significant TF-immune gene links. Type II IFN response (P < 0.001) was the significant immune pathway. Propanoate metabolism (P < 0.001) was the significant KEGG pathway. We proposed that COL3A1 was positively regulated by GATA6, and by effecting type II IFN response and propanoate metabolism, COL3A1 involved in LGG recurrence., (© 2020 The Authors. Journal of Cellular and Molecular Medicine published by Foundation for Cellular and Molecular Medicine and John Wiley & Sons Ltd.)
- Published
- 2020
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