PMC:7247521 / 20558-23971 JSON TXT

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LitCovid-PubTator

LitCovid-PMC-OGER-BB

LitCovid-PD-FMA-UBERON

LitCovid-PD-UBERON

{"project":"LitCovid-PD-UBERON","denotations":[{"id":"T17","span":{"begin":2010,"end":2017},"obj":"Body_part"}],"attributes":[{"id":"A17","pred":"uberon_id","subj":"T17","obj":"http://purl.obolibrary.org/obo/UBERON_0002046"}],"text":"3.3 Construction of PPI network and MCODE modules analysis\nTo further explore the functional relationship among five formulae, PPI networks were constructed through Metascape, and visual composition carried out by Cytoscape. Firstly, the potential 192 target genes of MXSG were analyzed by PPI network, and the results showed that there were 144 nodes and 510 edges, which represented the interaction between protein and function. The MXSG PPI network function module was confirmed by the MCODE plug-in and a list of the corresponding meaningful modules presented (Fig. 5 A). 3 modules scores were \u003e 2.5. Module 1 (score: 5.769) consisted of 13 nodes and the seed gene was COX7A1; Module 2 (score: 4.429) consisted of 14 nodes and the seed gene was ALDH1A1; module 3 (score: 5.0) consisted of 11 nodes and the seed gene was CNR2. KEGG pathway enrichment analysis showed that MXSG modules were enriched in neuroactive ligand-receptor interaction, calcium signaling pathway, inflammatory mediator regulation of TRP channels, et.al.\nFig. 5 KEGG analysis of MCODE modules. MCODE analysis was performed after the construction of the five formulae’ targets PPI; then, KEGG analysis was conducted on the MCODE modules. A: MXSG, B: Others, C: WLS, D: SGMH, E: XCH.\nSecondly, the potential 99 target genes of Others were analyzed by PPI network, and the results showed that there were 77 nodes and 194 edges. Only 1 module score were \u003e 2.5 (Fig. 5B). Module 1 (score: 5.769) consisted of 13 nodes and the seed gene was COX7A1. KEGG pathway enrichment analysis showed that Others modules were enriched in huntington's disease, glycolysis / gluconeogenesis, Notch signaling pathway, et.al.\nThirdly, the potential 96 target genes of WLS were analyzed by PPI network, and the results showed that there were 60 nodes and 143 edges. Only 1 modules score were \u003e 2.5 (Fig. 5C). Module 1 (score: 2.706) consisted of 17 nodes and the seed gene was CNR2. KEGG pathway enrichment analysis showed that WLS modules were enriched in thyroid hormone signaling pathway, adipocytokine signaling pathway, neuroactive ligand-receptor interaction, et.al.\nFourthly, the potential 201 target genes of SGMH were analyzed by PPI network, and the results showed that there were 153 nodes and 505 edges. 3 modules scores were \u003e 2.5 (Fig. 5D). Module 1 (score: 3.529) consisted of 17 nodes and the seed gene was ACSS1; Module 2 (score: 4.5) consisted of 7 nodes and the seed gene was CNR2; module 3 (score: 3.5) consisted of 8 nodes and the seed gene was PRKCG. KEGG pathway enrichment analysis showed that SGMH modules were enriched in insulin resistance, adipocytokine signaling pathway, Th17 cell differentiation, et.al.\nAt last, the potential 221 target genes of XCH were analyzed by PPI network, and the results showed that there were 166 nodes and 643 edges. 5 modules scores were \u003e 2.5 (Fig. 5E). Module 1 (score: 5.769) consisted of 13 nodes and the seed gene was COX7A1; Module 2 (score: 2.769) consisted of 13 nodes and the seed gene was RRM1; module 3 (score: 5.5) consisted of 12 nodes and the seed gene was CNR2; module 4 (score: 2.909) consisted of 11 nodes and the seed gene was ACSS1; module 5 (score: 3.0) consisted of 7 nodes and the seed gene was FFAR1. KEGG pathway enrichment analysis showed that XCH modules were enriched in calcium signaling pathway, cGMP-PKG signaling pathway, neuroactive ligand-receptor interaction, et.al."}

LitCovid-PD-MONDO

{"project":"LitCovid-PD-MONDO","denotations":[{"id":"T57","span":{"begin":1596,"end":1616},"obj":"Disease"}],"attributes":[{"id":"A57","pred":"mondo_id","subj":"T57","obj":"http://purl.obolibrary.org/obo/MONDO_0007739"}],"text":"3.3 Construction of PPI network and MCODE modules analysis\nTo further explore the functional relationship among five formulae, PPI networks were constructed through Metascape, and visual composition carried out by Cytoscape. Firstly, the potential 192 target genes of MXSG were analyzed by PPI network, and the results showed that there were 144 nodes and 510 edges, which represented the interaction between protein and function. The MXSG PPI network function module was confirmed by the MCODE plug-in and a list of the corresponding meaningful modules presented (Fig. 5 A). 3 modules scores were \u003e 2.5. Module 1 (score: 5.769) consisted of 13 nodes and the seed gene was COX7A1; Module 2 (score: 4.429) consisted of 14 nodes and the seed gene was ALDH1A1; module 3 (score: 5.0) consisted of 11 nodes and the seed gene was CNR2. KEGG pathway enrichment analysis showed that MXSG modules were enriched in neuroactive ligand-receptor interaction, calcium signaling pathway, inflammatory mediator regulation of TRP channels, et.al.\nFig. 5 KEGG analysis of MCODE modules. MCODE analysis was performed after the construction of the five formulae’ targets PPI; then, KEGG analysis was conducted on the MCODE modules. A: MXSG, B: Others, C: WLS, D: SGMH, E: XCH.\nSecondly, the potential 99 target genes of Others were analyzed by PPI network, and the results showed that there were 77 nodes and 194 edges. Only 1 module score were \u003e 2.5 (Fig. 5B). Module 1 (score: 5.769) consisted of 13 nodes and the seed gene was COX7A1. KEGG pathway enrichment analysis showed that Others modules were enriched in huntington's disease, glycolysis / gluconeogenesis, Notch signaling pathway, et.al.\nThirdly, the potential 96 target genes of WLS were analyzed by PPI network, and the results showed that there were 60 nodes and 143 edges. Only 1 modules score were \u003e 2.5 (Fig. 5C). Module 1 (score: 2.706) consisted of 17 nodes and the seed gene was CNR2. KEGG pathway enrichment analysis showed that WLS modules were enriched in thyroid hormone signaling pathway, adipocytokine signaling pathway, neuroactive ligand-receptor interaction, et.al.\nFourthly, the potential 201 target genes of SGMH were analyzed by PPI network, and the results showed that there were 153 nodes and 505 edges. 3 modules scores were \u003e 2.5 (Fig. 5D). Module 1 (score: 3.529) consisted of 17 nodes and the seed gene was ACSS1; Module 2 (score: 4.5) consisted of 7 nodes and the seed gene was CNR2; module 3 (score: 3.5) consisted of 8 nodes and the seed gene was PRKCG. KEGG pathway enrichment analysis showed that SGMH modules were enriched in insulin resistance, adipocytokine signaling pathway, Th17 cell differentiation, et.al.\nAt last, the potential 221 target genes of XCH were analyzed by PPI network, and the results showed that there were 166 nodes and 643 edges. 5 modules scores were \u003e 2.5 (Fig. 5E). Module 1 (score: 5.769) consisted of 13 nodes and the seed gene was COX7A1; Module 2 (score: 2.769) consisted of 13 nodes and the seed gene was RRM1; module 3 (score: 5.5) consisted of 12 nodes and the seed gene was CNR2; module 4 (score: 2.909) consisted of 11 nodes and the seed gene was ACSS1; module 5 (score: 3.0) consisted of 7 nodes and the seed gene was FFAR1. KEGG pathway enrichment analysis showed that XCH modules were enriched in calcium signaling pathway, cGMP-PKG signaling pathway, neuroactive ligand-receptor interaction, et.al."}

LitCovid-PD-CLO

LitCovid-PD-CHEBI

LitCovid-PD-HP

{"project":"LitCovid-PD-HP","denotations":[{"id":"T15","span":{"begin":2601,"end":2619},"obj":"Phenotype"}],"attributes":[{"id":"A15","pred":"hp_id","subj":"T15","obj":"http://purl.obolibrary.org/obo/HP_0000855"}],"text":"3.3 Construction of PPI network and MCODE modules analysis\nTo further explore the functional relationship among five formulae, PPI networks were constructed through Metascape, and visual composition carried out by Cytoscape. Firstly, the potential 192 target genes of MXSG were analyzed by PPI network, and the results showed that there were 144 nodes and 510 edges, which represented the interaction between protein and function. The MXSG PPI network function module was confirmed by the MCODE plug-in and a list of the corresponding meaningful modules presented (Fig. 5 A). 3 modules scores were \u003e 2.5. Module 1 (score: 5.769) consisted of 13 nodes and the seed gene was COX7A1; Module 2 (score: 4.429) consisted of 14 nodes and the seed gene was ALDH1A1; module 3 (score: 5.0) consisted of 11 nodes and the seed gene was CNR2. KEGG pathway enrichment analysis showed that MXSG modules were enriched in neuroactive ligand-receptor interaction, calcium signaling pathway, inflammatory mediator regulation of TRP channels, et.al.\nFig. 5 KEGG analysis of MCODE modules. MCODE analysis was performed after the construction of the five formulae’ targets PPI; then, KEGG analysis was conducted on the MCODE modules. A: MXSG, B: Others, C: WLS, D: SGMH, E: XCH.\nSecondly, the potential 99 target genes of Others were analyzed by PPI network, and the results showed that there were 77 nodes and 194 edges. Only 1 module score were \u003e 2.5 (Fig. 5B). Module 1 (score: 5.769) consisted of 13 nodes and the seed gene was COX7A1. KEGG pathway enrichment analysis showed that Others modules were enriched in huntington's disease, glycolysis / gluconeogenesis, Notch signaling pathway, et.al.\nThirdly, the potential 96 target genes of WLS were analyzed by PPI network, and the results showed that there were 60 nodes and 143 edges. Only 1 modules score were \u003e 2.5 (Fig. 5C). Module 1 (score: 2.706) consisted of 17 nodes and the seed gene was CNR2. KEGG pathway enrichment analysis showed that WLS modules were enriched in thyroid hormone signaling pathway, adipocytokine signaling pathway, neuroactive ligand-receptor interaction, et.al.\nFourthly, the potential 201 target genes of SGMH were analyzed by PPI network, and the results showed that there were 153 nodes and 505 edges. 3 modules scores were \u003e 2.5 (Fig. 5D). Module 1 (score: 3.529) consisted of 17 nodes and the seed gene was ACSS1; Module 2 (score: 4.5) consisted of 7 nodes and the seed gene was CNR2; module 3 (score: 3.5) consisted of 8 nodes and the seed gene was PRKCG. KEGG pathway enrichment analysis showed that SGMH modules were enriched in insulin resistance, adipocytokine signaling pathway, Th17 cell differentiation, et.al.\nAt last, the potential 221 target genes of XCH were analyzed by PPI network, and the results showed that there were 166 nodes and 643 edges. 5 modules scores were \u003e 2.5 (Fig. 5E). Module 1 (score: 5.769) consisted of 13 nodes and the seed gene was COX7A1; Module 2 (score: 2.769) consisted of 13 nodes and the seed gene was RRM1; module 3 (score: 5.5) consisted of 12 nodes and the seed gene was CNR2; module 4 (score: 2.909) consisted of 11 nodes and the seed gene was ACSS1; module 5 (score: 3.0) consisted of 7 nodes and the seed gene was FFAR1. KEGG pathway enrichment analysis showed that XCH modules were enriched in calcium signaling pathway, cGMP-PKG signaling pathway, neuroactive ligand-receptor interaction, et.al."}

LitCovid-PD-GO-BP

LitCovid-sentences

PMC:7247521 / 20558-23971 JSONTXT

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PMC:7247521 / 20558-23971 JSON TXT