PMC:7247521 / 8512-9254 JSONTXT

{"project":"LitCovid-PubTator","denotations":[{"id":"132","span":{"begin":534,"end":573},"obj":"Gene"},{"id":"133","span":{"begin":344,"end":356},"obj":"Species"},{"id":"134","span":{"begin":163,"end":166},"obj":"Disease"},{"id":"135","span":{"begin":687,"end":690},"obj":"Disease"}],"attributes":[{"id":"A133","pred":"tao:has_database_id","subj":"133","obj":"Tax:9606"}],"namespaces":[{"prefix":"Tax","uri":"https://www.ncbi.nlm.nih.gov/taxonomy/"},{"prefix":"MESH","uri":"https://id.nlm.nih.gov/mesh/"},{"prefix":"Gene","uri":"https://www.ncbi.nlm.nih.gov/gene/"},{"prefix":"CVCL","uri":"https://web.expasy.org/cellosaurus/CVCL_"}],"text":"2.3 Construction of PPI network and MCODE modules analysis\nTo further explore the pharmacological mechanisms, five PPI networks were built including: MSXG, SGMH, XCH, WLS and Others targets PPI network. Specifically, the five kinds of target proteins were respectively uploaded to Metascape to build PPI networks, with the species limited to “Homo sapiens”. Next, MCODE analysis [19], a method for finding densely connected modules in PPI networks, was carried out by Cytoscape 3.2.1 (http://www.cytoscape.org/) [20]. Finally, KEGG (Kyoto Encyclopedia of Genes and Genomes) signaling pathway enrichment analysis was further conducted on the identified functional modules of MSXG, SGMH, XCH, WLS and Others targets PPI networks, respectively."}

{"project":"LitCovid-PMC-OGER-BB","denotations":[{"id":"T89","span":{"begin":43,"end":50},"obj":"SO:0000417"},{"id":"T90","span":{"begin":83,"end":98},"obj":"CHEBI:52217;CHEBI:52217"},{"id":"T91","span":{"begin":324,"end":331},"obj":"NCBITaxon:species"},{"id":"T92","span":{"begin":344,"end":356},"obj":"SP_6;NCBITaxon:9606"},{"id":"T93","span":{"begin":425,"end":432},"obj":"SO:0000417"},{"id":"T94","span":{"begin":556,"end":561},"obj":"SO:0000704"},{"id":"T95","span":{"begin":566,"end":573},"obj":"SO:0001026"},{"id":"T96","span":{"begin":664,"end":671},"obj":"SO:0000417"}],"text":"2.3 Construction of PPI network and MCODE modules analysis\nTo further explore the pharmacological mechanisms, five PPI networks were built including: MSXG, SGMH, XCH, WLS and Others targets PPI network. Specifically, the five kinds of target proteins were respectively uploaded to Metascape to build PPI networks, with the species limited to “Homo sapiens”. Next, MCODE analysis [19], a method for finding densely connected modules in PPI networks, was carried out by Cytoscape 3.2.1 (http://www.cytoscape.org/) [20]. Finally, KEGG (Kyoto Encyclopedia of Genes and Genomes) signaling pathway enrichment analysis was further conducted on the identified functional modules of MSXG, SGMH, XCH, WLS and Others targets PPI networks, respectively."}

{"project":"LitCovid-PD-FMA-UBERON","denotations":[{"id":"T11","span":{"begin":243,"end":251},"obj":"Body_part"},{"id":"T12","span":{"begin":566,"end":573},"obj":"Body_part"}],"attributes":[{"id":"A11","pred":"fma_id","subj":"T11","obj":"http://purl.org/sig/ont/fma/fma67257"},{"id":"A12","pred":"fma_id","subj":"T12","obj":"http://purl.org/sig/ont/fma/fma84116"}],"text":"2.3 Construction of PPI network and MCODE modules analysis\nTo further explore the pharmacological mechanisms, five PPI networks were built including: MSXG, SGMH, XCH, WLS and Others targets PPI network. Specifically, the five kinds of target proteins were respectively uploaded to Metascape to build PPI networks, with the species limited to “Homo sapiens”. Next, MCODE analysis [19], a method for finding densely connected modules in PPI networks, was carried out by Cytoscape 3.2.1 (http://www.cytoscape.org/) [20]. Finally, KEGG (Kyoto Encyclopedia of Genes and Genomes) signaling pathway enrichment analysis was further conducted on the identified functional modules of MSXG, SGMH, XCH, WLS and Others targets PPI networks, respectively."}

{"project":"LitCovid-PD-CLO","denotations":[{"id":"T61","span":{"begin":344,"end":356},"obj":"http://purl.obolibrary.org/obo/NCBITaxon_9606"},{"id":"T62","span":{"begin":386,"end":387},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T63","span":{"begin":556,"end":561},"obj":"http://purl.obolibrary.org/obo/OGG_0000000002"},{"id":"T64","span":{"begin":575,"end":584},"obj":"http://purl.obolibrary.org/obo/SO_0000418"}],"text":"2.3 Construction of PPI network and MCODE modules analysis\nTo further explore the pharmacological mechanisms, five PPI networks were built including: MSXG, SGMH, XCH, WLS and Others targets PPI network. Specifically, the five kinds of target proteins were respectively uploaded to Metascape to build PPI networks, with the species limited to “Homo sapiens”. Next, MCODE analysis [19], a method for finding densely connected modules in PPI networks, was carried out by Cytoscape 3.2.1 (http://www.cytoscape.org/) [20]. Finally, KEGG (Kyoto Encyclopedia of Genes and Genomes) signaling pathway enrichment analysis was further conducted on the identified functional modules of MSXG, SGMH, XCH, WLS and Others targets PPI networks, respectively."}

{"project":"LitCovid-PD-CHEBI","denotations":[{"id":"T30","span":{"begin":21,"end":24},"obj":"Chemical"},{"id":"T32","span":{"begin":116,"end":119},"obj":"Chemical"},{"id":"T34","span":{"begin":191,"end":194},"obj":"Chemical"},{"id":"T36","span":{"begin":243,"end":251},"obj":"Chemical"},{"id":"T37","span":{"begin":301,"end":304},"obj":"Chemical"},{"id":"T39","span":{"begin":436,"end":439},"obj":"Chemical"},{"id":"T41","span":{"begin":715,"end":718},"obj":"Chemical"}],"attributes":[{"id":"A30","pred":"chebi_id","subj":"T30","obj":"http://purl.obolibrary.org/obo/CHEBI_53266"},{"id":"A31","pred":"chebi_id","subj":"T30","obj":"http://purl.obolibrary.org/obo/CHEBI_60614"},{"id":"A32","pred":"chebi_id","subj":"T32","obj":"http://purl.obolibrary.org/obo/CHEBI_53266"},{"id":"A33","pred":"chebi_id","subj":"T32","obj":"http://purl.obolibrary.org/obo/CHEBI_60614"},{"id":"A34","pred":"chebi_id","subj":"T34","obj":"http://purl.obolibrary.org/obo/CHEBI_53266"},{"id":"A35","pred":"chebi_id","subj":"T34","obj":"http://purl.obolibrary.org/obo/CHEBI_60614"},{"id":"A36","pred":"chebi_id","subj":"T36","obj":"http://purl.obolibrary.org/obo/CHEBI_36080"},{"id":"A37","pred":"chebi_id","subj":"T37","obj":"http://purl.obolibrary.org/obo/CHEBI_53266"},{"id":"A38","pred":"chebi_id","subj":"T37","obj":"http://purl.obolibrary.org/obo/CHEBI_60614"},{"id":"A39","pred":"chebi_id","subj":"T39","obj":"http://purl.obolibrary.org/obo/CHEBI_53266"},{"id":"A40","pred":"chebi_id","subj":"T39","obj":"http://purl.obolibrary.org/obo/CHEBI_60614"},{"id":"A41","pred":"chebi_id","subj":"T41","obj":"http://purl.obolibrary.org/obo/CHEBI_53266"},{"id":"A42","pred":"chebi_id","subj":"T41","obj":"http://purl.obolibrary.org/obo/CHEBI_60614"}],"text":"2.3 Construction of PPI network and MCODE modules analysis\nTo further explore the pharmacological mechanisms, five PPI networks were built including: MSXG, SGMH, XCH, WLS and Others targets PPI network. Specifically, the five kinds of target proteins were respectively uploaded to Metascape to build PPI networks, with the species limited to “Homo sapiens”. Next, MCODE analysis [19], a method for finding densely connected modules in PPI networks, was carried out by Cytoscape 3.2.1 (http://www.cytoscape.org/) [20]. Finally, KEGG (Kyoto Encyclopedia of Genes and Genomes) signaling pathway enrichment analysis was further conducted on the identified functional modules of MSXG, SGMH, XCH, WLS and Others targets PPI networks, respectively."}

{"project":"LitCovid-PD-GO-BP","denotations":[{"id":"T26","span":{"begin":575,"end":592},"obj":"http://purl.obolibrary.org/obo/GO_0007165"},{"id":"T27","span":{"begin":575,"end":584},"obj":"http://purl.obolibrary.org/obo/GO_0023052"}],"text":"2.3 Construction of PPI network and MCODE modules analysis\nTo further explore the pharmacological mechanisms, five PPI networks were built including: MSXG, SGMH, XCH, WLS and Others targets PPI network. Specifically, the five kinds of target proteins were respectively uploaded to Metascape to build PPI networks, with the species limited to “Homo sapiens”. Next, MCODE analysis [19], a method for finding densely connected modules in PPI networks, was carried out by Cytoscape 3.2.1 (http://www.cytoscape.org/) [20]. Finally, KEGG (Kyoto Encyclopedia of Genes and Genomes) signaling pathway enrichment analysis was further conducted on the identified functional modules of MSXG, SGMH, XCH, WLS and Others targets PPI networks, respectively."}

{"project":"LitCovid-sentences","denotations":[{"id":"T54","span":{"begin":0,"end":59},"obj":"Sentence"},{"id":"T55","span":{"begin":60,"end":203},"obj":"Sentence"},{"id":"T56","span":{"begin":204,"end":358},"obj":"Sentence"},{"id":"T57","span":{"begin":359,"end":518},"obj":"Sentence"},{"id":"T58","span":{"begin":519,"end":742},"obj":"Sentence"}],"namespaces":[{"prefix":"_base","uri":"http://pubannotation.org/ontology/tao.owl#"}],"text":"2.3 Construction of PPI network and MCODE modules analysis\nTo further explore the pharmacological mechanisms, five PPI networks were built including: MSXG, SGMH, XCH, WLS and Others targets PPI network. Specifically, the five kinds of target proteins were respectively uploaded to Metascape to build PPI networks, with the species limited to “Homo sapiens”. Next, MCODE analysis [19], a method for finding densely connected modules in PPI networks, was carried out by Cytoscape 3.2.1 (http://www.cytoscape.org/) [20]. Finally, KEGG (Kyoto Encyclopedia of Genes and Genomes) signaling pathway enrichment analysis was further conducted on the identified functional modules of MSXG, SGMH, XCH, WLS and Others targets PPI networks, respectively."}

{"project":"2_test","denotations":[{"id":"32554251-12525261-6393498","span":{"begin":381,"end":383},"obj":"12525261"},{"id":"32554251-14597658-6393499","span":{"begin":514,"end":516},"obj":"14597658"}],"text":"2.3 Construction of PPI network and MCODE modules analysis\nTo further explore the pharmacological mechanisms, five PPI networks were built including: MSXG, SGMH, XCH, WLS and Others targets PPI network. Specifically, the five kinds of target proteins were respectively uploaded to Metascape to build PPI networks, with the species limited to “Homo sapiens”. Next, MCODE analysis [19], a method for finding densely connected modules in PPI networks, was carried out by Cytoscape 3.2.1 (http://www.cytoscape.org/) [20]. Finally, KEGG (Kyoto Encyclopedia of Genes and Genomes) signaling pathway enrichment analysis was further conducted on the identified functional modules of MSXG, SGMH, XCH, WLS and Others targets PPI networks, respectively."}