| Autor: |
Cadiz, Mika P., Jensen, Tanner D., Sens, Jonathon P., Zhu, Kuixi, Song, Won-Min, Zhang, Bin, Ebbert, Mark, Chang, Rui, Fryer, John D. |
| Rok vydání: |
2022 |
| DOI: |
10.6084/m9.figshare.19445728 |
| Popis: |
Additional file 2: Figure S1. MEGENA network analysis of freshly isolated cells establishes a reference transcriptional network for microglia. (a) Transcriptional regulatory network for freshly isolated microglia inferred by MEGENA. Nodes represent genes, and an edge between nodes represents the significant correlation of those two genes. Bar graph shows relative strength of these top 20 nodes and highlights the module to which each gene belongs. Heatmap shows the scaled expression of the top 100 genes of each of the 3 core MEGENA modules. Heatmap is represented by a downsampled 2000 of the freshly isolated cells. (b) Subnetwork of module 2. Weighted module expression is calculated by calculating the sum of the expression of each gene in the module, weighted by its strength in the network, and signed by whether that gene has positive or negative correlation with the largest hub of that module. Plotting the module weighted sum in a violin and feature plot shows strong, significant association of module 2 with the activated cluster (two-tailed t-test between activated vs homeostatic cluster, p-value = 1.93e-15). Metascape gene ontology (GO) enrichment suggests that this module is related to inflammatory response and the transcriptional response to stress. (c) Subnetwork of module 3, containing many homeostatic microglia markers. Weighted module expression is highest in the homeostatic cluster and significantly decreases in cells from the activated cluster (two-tailed t-test between activated vs homeostatic cluster, p-value = 4.34e-60). Metascape shows that pathways enriched for this module include ribonucleoprotein complex formation, functioning of the lysosome, and immune pathways like neutrophil degranulation and myeloid activation. (d) Network of the subnetwork for module 4, which contains many interferon-related genes. Module weighted sum is significantly increased in the interferon cluster compared to the homeostatic cluster (two-tailed t-test, p-value = 7.65e-23). Metascape enrichment analysis shows pathways related to interferon signaling and cytokine production. |
| Databáze: |
OpenAIRE |
| Externí odkaz: |
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