PMC:7341831 / 5303-5946 JSONTXT

{"project":"LitCovid-PD-FMA-UBERON","denotations":[{"id":"T16","span":{"begin":21,"end":25},"obj":"Body_part"},{"id":"T17","span":{"begin":69,"end":85},"obj":"Body_part"},{"id":"T18","span":{"begin":120,"end":124},"obj":"Body_part"},{"id":"T19","span":{"begin":255,"end":259},"obj":"Body_part"},{"id":"T20","span":{"begin":354,"end":360},"obj":"Body_part"},{"id":"T21","span":{"begin":420,"end":425},"obj":"Body_part"},{"id":"T22","span":{"begin":569,"end":575},"obj":"Body_part"}],"attributes":[{"id":"A16","pred":"fma_id","subj":"T16","obj":"http://purl.org/sig/ont/fma/fma7195"},{"id":"A17","pred":"fma_id","subj":"T17","obj":"http://purl.org/sig/ont/fma/fma7337"},{"id":"A18","pred":"fma_id","subj":"T18","obj":"http://purl.org/sig/ont/fma/fma7195"},{"id":"A19","pred":"fma_id","subj":"T19","obj":"http://purl.org/sig/ont/fma/fma7154"},{"id":"A20","pred":"fma_id","subj":"T20","obj":"http://purl.org/sig/ont/fma/fma50720"},{"id":"A21","pred":"fma_id","subj":"T21","obj":"http://purl.org/sig/ont/fma/fma9670"},{"id":"A22","pred":"fma_id","subj":"T22","obj":"http://purl.org/sig/ont/fma/fma312401"}],"text":"Macroscopically, the lung showed focal areas of consolidation in the right lower lobe. Microscopic visualization of the lung showed the presence of clearly defined Aspergillus structures, including hyphae and fungal spores, and a well-defined Aspergillus head with phialides, conidia, and spores, as well as bronchopneumonia, fibrin thrombi occluding an artery, and squamous metaplasia (Figure 1). The stored peripheral blood tested positive for the GM antigen (index 4.290). Since the diagnosis was made postmortem, and aspergillosis was not considered antemortem, no sputum was collected for fungus culture and no antifungal drugs were used."}

{"project":"LitCovid-PD-UBERON","denotations":[{"id":"T11","span":{"begin":21,"end":25},"obj":"Body_part"},{"id":"T12","span":{"begin":81,"end":85},"obj":"Body_part"},{"id":"T13","span":{"begin":120,"end":124},"obj":"Body_part"},{"id":"T14","span":{"begin":255,"end":259},"obj":"Body_part"},{"id":"T15","span":{"begin":354,"end":360},"obj":"Body_part"},{"id":"T16","span":{"begin":420,"end":425},"obj":"Body_part"},{"id":"T17","span":{"begin":569,"end":575},"obj":"Body_part"}],"attributes":[{"id":"A11","pred":"uberon_id","subj":"T11","obj":"http://purl.obolibrary.org/obo/UBERON_0002048"},{"id":"A12","pred":"uberon_id","subj":"T12","obj":"http://purl.obolibrary.org/obo/UBERON_3010752"},{"id":"A13","pred":"uberon_id","subj":"T13","obj":"http://purl.obolibrary.org/obo/UBERON_0002048"},{"id":"A14","pred":"uberon_id","subj":"T14","obj":"http://purl.obolibrary.org/obo/UBERON_0000033"},{"id":"A15","pred":"uberon_id","subj":"T15","obj":"http://purl.obolibrary.org/obo/UBERON_0001637"},{"id":"A16","pred":"uberon_id","subj":"T16","obj":"http://purl.obolibrary.org/obo/UBERON_0000178"},{"id":"A17","pred":"uberon_id","subj":"T17","obj":"http://purl.obolibrary.org/obo/UBERON_0007311"}],"text":"Macroscopically, the lung showed focal areas of consolidation in the right lower lobe. Microscopic visualization of the lung showed the presence of clearly defined Aspergillus structures, including hyphae and fungal spores, and a well-defined Aspergillus head with phialides, conidia, and spores, as well as bronchopneumonia, fibrin thrombi occluding an artery, and squamous metaplasia (Figure 1). The stored peripheral blood tested positive for the GM antigen (index 4.290). Since the diagnosis was made postmortem, and aspergillosis was not considered antemortem, no sputum was collected for fungus culture and no antifungal drugs were used."}

{"project":"LitCovid-PubTator","denotations":[{"id":"162","span":{"begin":164,"end":175},"obj":"Species"},{"id":"163","span":{"begin":243,"end":254},"obj":"Species"},{"id":"164","span":{"begin":450,"end":452},"obj":"Chemical"},{"id":"165","span":{"begin":308,"end":324},"obj":"Disease"},{"id":"166","span":{"begin":366,"end":385},"obj":"Disease"},{"id":"167","span":{"begin":521,"end":534},"obj":"Disease"}],"attributes":[{"id":"A162","pred":"tao:has_database_id","subj":"162","obj":"Tax:746128"},{"id":"A163","pred":"tao:has_database_id","subj":"163","obj":"Tax:746128"},{"id":"A164","pred":"tao:has_database_id","subj":"164","obj":"MESH:C012990"},{"id":"A165","pred":"tao:has_database_id","subj":"165","obj":"MESH:D001996"},{"id":"A166","pred":"tao:has_database_id","subj":"166","obj":"MESH:D008679"},{"id":"A167","pred":"tao:has_database_id","subj":"167","obj":"MESH:D001228"}],"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":"Macroscopically, the lung showed focal areas of consolidation in the right lower lobe. Microscopic visualization of the lung showed the presence of clearly defined Aspergillus structures, including hyphae and fungal spores, and a well-defined Aspergillus head with phialides, conidia, and spores, as well as bronchopneumonia, fibrin thrombi occluding an artery, and squamous metaplasia (Figure 1). The stored peripheral blood tested positive for the GM antigen (index 4.290). Since the diagnosis was made postmortem, and aspergillosis was not considered antemortem, no sputum was collected for fungus culture and no antifungal drugs were used."}

{"project":"LitCovid-PD-MONDO","denotations":[{"id":"T50","span":{"begin":308,"end":324},"obj":"Disease"},{"id":"T51","span":{"begin":521,"end":534},"obj":"Disease"}],"attributes":[{"id":"A50","pred":"mondo_id","subj":"T50","obj":"http://purl.obolibrary.org/obo/MONDO_0005682"},{"id":"A51","pred":"mondo_id","subj":"T51","obj":"http://purl.obolibrary.org/obo/MONDO_0005657"}],"text":"Macroscopically, the lung showed focal areas of consolidation in the right lower lobe. Microscopic visualization of the lung showed the presence of clearly defined Aspergillus structures, including hyphae and fungal spores, and a well-defined Aspergillus head with phialides, conidia, and spores, as well as bronchopneumonia, fibrin thrombi occluding an artery, and squamous metaplasia (Figure 1). The stored peripheral blood tested positive for the GM antigen (index 4.290). Since the diagnosis was made postmortem, and aspergillosis was not considered antemortem, no sputum was collected for fungus culture and no antifungal drugs were used."}

{"project":"LitCovid-PD-CLO","denotations":[{"id":"T33","span":{"begin":21,"end":25},"obj":"http://purl.obolibrary.org/obo/UBERON_0002048"},{"id":"T34","span":{"begin":21,"end":25},"obj":"http://www.ebi.ac.uk/efo/EFO_0000934"},{"id":"T35","span":{"begin":120,"end":124},"obj":"http://purl.obolibrary.org/obo/UBERON_0002048"},{"id":"T36","span":{"begin":120,"end":124},"obj":"http://www.ebi.ac.uk/efo/EFO_0000934"},{"id":"T37","span":{"begin":228,"end":229},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T38","span":{"begin":255,"end":259},"obj":"http://purl.obolibrary.org/obo/UBERON_0000033"},{"id":"T39","span":{"begin":255,"end":259},"obj":"http://www.ebi.ac.uk/efo/EFO_0000964"},{"id":"T40","span":{"begin":354,"end":360},"obj":"http://purl.obolibrary.org/obo/UBERON_0001637"},{"id":"T41","span":{"begin":354,"end":360},"obj":"http://www.ebi.ac.uk/efo/EFO_0000814"},{"id":"T42","span":{"begin":420,"end":425},"obj":"http://purl.obolibrary.org/obo/UBERON_0000178"},{"id":"T43","span":{"begin":420,"end":425},"obj":"http://www.ebi.ac.uk/efo/EFO_0000296"},{"id":"T44","span":{"begin":426,"end":432},"obj":"http://purl.obolibrary.org/obo/UBERON_0000473"}],"text":"Macroscopically, the lung showed focal areas of consolidation in the right lower lobe. Microscopic visualization of the lung showed the presence of clearly defined Aspergillus structures, including hyphae and fungal spores, and a well-defined Aspergillus head with phialides, conidia, and spores, as well as bronchopneumonia, fibrin thrombi occluding an artery, and squamous metaplasia (Figure 1). The stored peripheral blood tested positive for the GM antigen (index 4.290). Since the diagnosis was made postmortem, and aspergillosis was not considered antemortem, no sputum was collected for fungus culture and no antifungal drugs were used."}

{"project":"LitCovid-PD-CHEBI","denotations":[{"id":"T52","span":{"begin":450,"end":452},"obj":"Chemical"},{"id":"T54","span":{"begin":453,"end":460},"obj":"Chemical"},{"id":"T55","span":{"begin":616,"end":632},"obj":"Chemical"},{"id":"T57","span":{"begin":627,"end":632},"obj":"Chemical"}],"attributes":[{"id":"A52","pred":"chebi_id","subj":"T52","obj":"http://purl.obolibrary.org/obo/CHEBI_74120"},{"id":"A53","pred":"chebi_id","subj":"T52","obj":"http://purl.obolibrary.org/obo/CHEBI_27680"},{"id":"A54","pred":"chebi_id","subj":"T54","obj":"http://purl.obolibrary.org/obo/CHEBI_59132"},{"id":"A55","pred":"chebi_id","subj":"T55","obj":"http://purl.obolibrary.org/obo/CHEBI_35718"},{"id":"A56","pred":"chebi_id","subj":"T55","obj":"http://purl.obolibrary.org/obo/CHEBI_86327"},{"id":"A57","pred":"chebi_id","subj":"T57","obj":"http://purl.obolibrary.org/obo/CHEBI_23888"}],"text":"Macroscopically, the lung showed focal areas of consolidation in the right lower lobe. Microscopic visualization of the lung showed the presence of clearly defined Aspergillus structures, including hyphae and fungal spores, and a well-defined Aspergillus head with phialides, conidia, and spores, as well as bronchopneumonia, fibrin thrombi occluding an artery, and squamous metaplasia (Figure 1). The stored peripheral blood tested positive for the GM antigen (index 4.290). Since the diagnosis was made postmortem, and aspergillosis was not considered antemortem, no sputum was collected for fungus culture and no antifungal drugs were used."}

{"project":"LitCovid-PD-GO-BP","denotations":[{"id":"T5","span":{"begin":375,"end":385},"obj":"http://purl.obolibrary.org/obo/GO_0036074"}],"text":"Macroscopically, the lung showed focal areas of consolidation in the right lower lobe. Microscopic visualization of the lung showed the presence of clearly defined Aspergillus structures, including hyphae and fungal spores, and a well-defined Aspergillus head with phialides, conidia, and spores, as well as bronchopneumonia, fibrin thrombi occluding an artery, and squamous metaplasia (Figure 1). The stored peripheral blood tested positive for the GM antigen (index 4.290). Since the diagnosis was made postmortem, and aspergillosis was not considered antemortem, no sputum was collected for fungus culture and no antifungal drugs were used."}

{"project":"LitCovid-PD-GlycoEpitope","denotations":[{"id":"T5","span":{"begin":450,"end":452},"obj":"GlycoEpitope"}],"attributes":[{"id":"A5","pred":"glyco_epitope_db_id","subj":"T5","obj":"http://www.glycoepitope.jp/epitopes/EP0510"}],"text":"Macroscopically, the lung showed focal areas of consolidation in the right lower lobe. Microscopic visualization of the lung showed the presence of clearly defined Aspergillus structures, including hyphae and fungal spores, and a well-defined Aspergillus head with phialides, conidia, and spores, as well as bronchopneumonia, fibrin thrombi occluding an artery, and squamous metaplasia (Figure 1). The stored peripheral blood tested positive for the GM antigen (index 4.290). Since the diagnosis was made postmortem, and aspergillosis was not considered antemortem, no sputum was collected for fungus culture and no antifungal drugs were used."}

{"project":"LitCovid-sentences","denotations":[{"id":"T48","span":{"begin":0,"end":86},"obj":"Sentence"},{"id":"T49","span":{"begin":87,"end":397},"obj":"Sentence"},{"id":"T50","span":{"begin":398,"end":475},"obj":"Sentence"},{"id":"T51","span":{"begin":476,"end":643},"obj":"Sentence"}],"namespaces":[{"prefix":"_base","uri":"http://pubannotation.org/ontology/tao.owl#"}],"text":"Macroscopically, the lung showed focal areas of consolidation in the right lower lobe. Microscopic visualization of the lung showed the presence of clearly defined Aspergillus structures, including hyphae and fungal spores, and a well-defined Aspergillus head with phialides, conidia, and spores, as well as bronchopneumonia, fibrin thrombi occluding an artery, and squamous metaplasia (Figure 1). The stored peripheral blood tested positive for the GM antigen (index 4.290). Since the diagnosis was made postmortem, and aspergillosis was not considered antemortem, no sputum was collected for fungus culture and no antifungal drugs were used."}

{"project":"LitCovid-PMC-OGER-BB","denotations":[{"id":"T73","span":{"begin":21,"end":25},"obj":"UBERON:0002048"},{"id":"T74","span":{"begin":75,"end":80},"obj":"UBERON:0000101"},{"id":"T75","span":{"begin":81,"end":85},"obj":"UBERON:0002171"},{"id":"T76","span":{"begin":120,"end":124},"obj":"UBERON:0002048"},{"id":"T77","span":{"begin":164,"end":175},"obj":"NCBITaxon:5052"},{"id":"T78","span":{"begin":209,"end":215},"obj":"NCBITaxon:4751"},{"id":"T79","span":{"begin":255,"end":259},"obj":"UBERON:0000033"},{"id":"T80","span":{"begin":326,"end":332},"obj":"UBERON:0010210;CHEBI:5054;CHEBI:5054"},{"id":"T81","span":{"begin":333,"end":340},"obj":"UBERON:0010210"},{"id":"T82","span":{"begin":354,"end":360},"obj":"UBERON:0001637"},{"id":"T83","span":{"begin":420,"end":425},"obj":"UBERON:0000178"},{"id":"T84","span":{"begin":453,"end":460},"obj":"CHEBI:59132;CHEBI:59132"},{"id":"T85","span":{"begin":505,"end":515},"obj":"GO:0016265"},{"id":"T86","span":{"begin":554,"end":564},"obj":"GO:0016265"},{"id":"T87","span":{"begin":569,"end":575},"obj":"UBERON:0007311"},{"id":"T88","span":{"begin":594,"end":600},"obj":"NCBITaxon:4751"},{"id":"T89","span":{"begin":616,"end":626},"obj":"CHEBI:35718;CHEBI:35718"},{"id":"T90","span":{"begin":627,"end":632},"obj":"CHEBI:86327;CHEBI:86327"},{"id":"T45015","span":{"begin":21,"end":25},"obj":"UBERON:0002048"},{"id":"T95141","span":{"begin":75,"end":80},"obj":"UBERON:0000101"},{"id":"T63510","span":{"begin":81,"end":85},"obj":"UBERON:0002171"},{"id":"T50592","span":{"begin":120,"end":124},"obj":"UBERON:0002048"},{"id":"T54529","span":{"begin":164,"end":175},"obj":"NCBITaxon:5052"},{"id":"T53412","span":{"begin":209,"end":215},"obj":"NCBITaxon:4751"},{"id":"T84391","span":{"begin":255,"end":259},"obj":"UBERON:0000033"},{"id":"T7647","span":{"begin":326,"end":332},"obj":"UBERON:0010210;CHEBI:5054;CHEBI:5054"},{"id":"T64013","span":{"begin":333,"end":340},"obj":"UBERON:0010210"},{"id":"T81261","span":{"begin":354,"end":360},"obj":"UBERON:0001637"},{"id":"T18084","span":{"begin":420,"end":425},"obj":"UBERON:0000178"},{"id":"T70655","span":{"begin":453,"end":460},"obj":"CHEBI:59132;CHEBI:59132"},{"id":"T71653","span":{"begin":505,"end":515},"obj":"GO:0016265"},{"id":"T7484","span":{"begin":554,"end":564},"obj":"GO:0016265"},{"id":"T96965","span":{"begin":569,"end":575},"obj":"UBERON:0007311"},{"id":"T78632","span":{"begin":594,"end":600},"obj":"NCBITaxon:4751"},{"id":"T68516","span":{"begin":616,"end":626},"obj":"CHEBI:35718;CHEBI:35718"},{"id":"T92277","span":{"begin":627,"end":632},"obj":"CHEBI:86327;CHEBI:86327"}],"text":"Macroscopically, the lung showed focal areas of consolidation in the right lower lobe. Microscopic visualization of the lung showed the presence of clearly defined Aspergillus structures, including hyphae and fungal spores, and a well-defined Aspergillus head with phialides, conidia, and spores, as well as bronchopneumonia, fibrin thrombi occluding an artery, and squamous metaplasia (Figure 1). The stored peripheral blood tested positive for the GM antigen (index 4.290). Since the diagnosis was made postmortem, and aspergillosis was not considered antemortem, no sputum was collected for fungus culture and no antifungal drugs were used."}