AI Network Validations

biological validations of individual ai networks to verify the tissue/disease relevance of the ai networks, go term enrichment analysis and hub gene detection and evaluation were performed the networks analyzed were; the gastrointestinal – ai ulcerative colitis (uc) network, the breast – ai breast cancer/tissue network, and the blood – ai general network first, we used the louvain algorithm (resolution = 1 0, minimum module size = 10 genes) to detect important modules in the network top hub genes of each module were detected, ranked by their degree of centrality go term enrichment analysis of the genes within each module was performed using enrichr (1), and the results were evaluated for disease and/or tissue relevant biology results gastrointestinal – ai ulcerative colitis network in the ai uc network, eight modules were identified pathway enrichment results of some of these modules showed key pathogenic functions, such as; ubiquitin dependent protein catabolic process, immune system, and neutrophil degranulation (table 1 and 2) this indicates that vital uc disease biology can be captured based on the ai networks table 1 ai uc network, module 1, top 10 significantly enriched reactome terms true 486,175 unhandled content type unhandled content type unhandled content type unhandled content type unhandled content type unhandled content type unhandled content type unhandled content type 1 1 unhandled content type 1 1 unhandled content type 1 1 unhandled content type 1 1 unhandled content type 1 1 unhandled content type 1 1 unhandled content type 1 1 unhandled content type 1 1 unhandled content type table 2 ai uc network, module 1, top 10 significantly enriched go biological process (bp) terms true 489,172 unhandled content type unhandled content type unhandled content type unhandled content type unhandled content type unhandled content type unhandled content type unhandled content type 1 1 unhandled content type 1 1 unhandled content type 1 1 unhandled content type 1 1 unhandled content type 1 1 unhandled content type 1 1 unhandled content type 1 1 unhandled content type 1 1 unhandled content type 1 1 unhandled content type 1 1 unhandled content type breast – ai breast cancer/tissue network in the ai breast cancer network, nine modules were identified pathway analysis of the largest of these modules showed functions such as cilium assembly and cilium organization (table 3) these functions, which are frequently inhibited or lost in breast cancer, can contribute to cancer progression by promoting cell proliferation and metastasis another module showed important immune /cancer related functions, such as inflammatory response, cellular response to cytokine stimulus, and antigen receptor mediated signaling pathway (table 4) these pathways are highly relevant to the tumor immune microenvironment and suggest this module may be involved in immune cell infiltration and inflammatory signaling in breast cancer furthermore, one module showed enrichment of the cell cycle pathway, which is a hallmark of cancer one of the hub genes within this module, bub1, is also a well known driver gene for breast cancer these results indicate important cancer relevant processes being captured by the ai breast cancer network table 3 ai breast cancer network, module 1, top 10 significant enrichment go biological process (bp) terms true 490,171 unhandled content type unhandled content type unhandled content type unhandled content type unhandled content type unhandled content type unhandled content type unhandled content type 1 1 unhandled content type 1 1 unhandled content type 1 1 unhandled content type 1 1 unhandled content type 1 1 unhandled content type 1 1 unhandled content type table 4 ai breast cancer network, module 4, top 10 significant enrichment go biological process (bp) terms true 491,170 unhandled content type unhandled content type unhandled content type unhandled content type unhandled content type unhandled content type unhandled content type unhandled content type 1 1 unhandled content type 1 1 unhandled content type 1 1 unhandled content type 1 1 unhandled content type blood – ai general network in the ai blood network, 10 modules were identified this network includes a diverse collection of blood diseases including myeloid leukemia, pneumonia, and covid 19 thus, in the enrichment results, we observed functions involved in regulating viral replication and immune responses, such as mrna splicing, via spliceosome, innate immune system and neutrophil degranulation (table 5 and 6) one module additionally showed important hub genes, melk, bub1, chek1 these are critical cell cycle checkpoints, frequently dysregulated in myeloid leukemia and other blood cancers, where they contribute to uncontrolled cell proliferation and genomic instability table 5 ai blood network, module 0, top 10 significant enrichment go biological process (bp) terms true 492,169 unhandled content type unhandled content type unhandled content type unhandled content type unhandled content type unhandled content type unhandled content type unhandled content type 1 1 unhandled content type 1 1 unhandled content type 1 1 unhandled content type 1 1 unhandled content type 1 1 unhandled content type 1 1 unhandled content type 1 1 unhandled content type 1 1 unhandled content type 1 1 unhandled content type 1 1 unhandled content type table 6 ai blood network, module 0, top 10 significant enrichment reactome terms true 489,172 unhandled content type unhandled content type unhandled content type unhandled content type unhandled content type unhandled content type unhandled content type unhandled content type 1 1 unhandled content type 1 1 unhandled content type 1 1 unhandled content type 1 1 unhandled content type 1 1 unhandled content type 1 1 unhandled content type 1 1 unhandled content type 1 1 unhandled content type 1 1 unhandled content type 1 1 unhandled content type 1 1 unhandled content type 1 1 unhandled content type 1 1 unhandled content type 1 1 unhandled content type