PMC:7306567 / 13085-14404
Annnotations
{"target":"https://pubannotation.org/docs/sourcedb/PMC/sourceid/7306567","sourcedb":"PMC","sourceid":"7306567","source_url":"https://www.ncbi.nlm.nih.gov/pmc/7306567","text":"Discussion on clinical presentation and diagnosis of IAPA\nIf a patient is admitted to the ICU and has influenza with pulmonary infiltrates, the diagnosis of IAPA should be considered and further investigation performed as appropriate. Ideally, this would include in order of invasiveness, serum GM testing, fungal cultures of sputum and/or tracheal aspirate, pulmonary CT, bronchoscopy to visualize the large airways and obtain BAL fluid for GM testing and fungal and bacterial cultures. Testing is most appropriate in patients who are on mechanical ventilation, but the diagnostic strategy is less clear in patients not intubated. As up to 50% of patients may present with tracheobronchitis, the presence of plaques and ulceration might be considered for inclusion in the definition of IPA [35]. Policies for taking biopsies of lesions seen on bronchoscopy may vary, mainly because of concerns about the risk of bleeding with biopsy in ICU patients. The use of a flexible brush may also be sufficient to make the diagnosis.\nAlthough a positive serum GM is highly indicative of IA, BAL GM can be positive in patients with Aspergillus colonization. It therefore does not absolutely discriminate between colonization and invasive disease. However, it clearly makes it more likely that an invasive disease is present [36].","divisions":[{"label":"title","span":{"begin":0,"end":57}},{"label":"p","span":{"begin":58,"end":1024}}],"tracks":[{"project":"LitCovid-PD-FMA-UBERON","denotations":[{"id":"T16","span":{"begin":289,"end":294},"obj":"Body_part"},{"id":"T17","span":{"begin":326,"end":332},"obj":"Body_part"},{"id":"T18","span":{"begin":1045,"end":1050},"obj":"Body_part"}],"attributes":[{"id":"A16","pred":"fma_id","subj":"T16","obj":"http://purl.org/sig/ont/fma/fma63083"},{"id":"A17","pred":"fma_id","subj":"T17","obj":"http://purl.org/sig/ont/fma/fma312401"},{"id":"A18","pred":"fma_id","subj":"T18","obj":"http://purl.org/sig/ont/fma/fma63083"},{"subj":"T16","pred":"source","obj":"LitCovid-PD-FMA-UBERON"},{"subj":"T17","pred":"source","obj":"LitCovid-PD-FMA-UBERON"},{"subj":"T18","pred":"source","obj":"LitCovid-PD-FMA-UBERON"}]},{"project":"LitCovid-PD-UBERON","denotations":[{"id":"T14","span":{"begin":289,"end":294},"obj":"Body_part"},{"id":"T15","span":{"begin":326,"end":332},"obj":"Body_part"},{"id":"T16","span":{"begin":1045,"end":1050},"obj":"Body_part"}],"attributes":[{"id":"A14","pred":"uberon_id","subj":"T14","obj":"http://purl.obolibrary.org/obo/UBERON_0001977"},{"id":"A15","pred":"uberon_id","subj":"T15","obj":"http://purl.obolibrary.org/obo/UBERON_0007311"},{"id":"A16","pred":"uberon_id","subj":"T16","obj":"http://purl.obolibrary.org/obo/UBERON_0001977"},{"subj":"T14","pred":"source","obj":"LitCovid-PD-UBERON"},{"subj":"T15","pred":"source","obj":"LitCovid-PD-UBERON"},{"subj":"T16","pred":"source","obj":"LitCovid-PD-UBERON"}]},{"project":"LitCovid-PubTator","denotations":[{"id":"131","span":{"begin":295,"end":297},"obj":"Chemical"},{"id":"132","span":{"begin":442,"end":444},"obj":"Chemical"},{"id":"133","span":{"begin":117,"end":138},"obj":"Disease"},{"id":"134","span":{"begin":674,"end":691},"obj":"Disease"},{"id":"135","span":{"begin":913,"end":921},"obj":"Disease"},{"id":"140","span":{"begin":1051,"end":1053},"obj":"Chemical"},{"id":"141","span":{"begin":1086,"end":1088},"obj":"Chemical"},{"id":"142","span":{"begin":1219,"end":1235},"obj":"Disease"},{"id":"143","span":{"begin":1286,"end":1302},"obj":"Disease"}],"attributes":[{"id":"A131","pred":"tao:has_database_id","subj":"131","obj":"MESH:C012990"},{"id":"A132","pred":"tao:has_database_id","subj":"132","obj":"MESH:C012990"},{"id":"A133","pred":"tao:has_database_id","subj":"133","obj":"MESH:D017254"},{"id":"A135","pred":"tao:has_database_id","subj":"135","obj":"MESH:D006470"},{"id":"A140","pred":"tao:has_database_id","subj":"140","obj":"MESH:C012990"},{"id":"A141","pred":"tao:has_database_id","subj":"141","obj":"MESH:C012990"},{"id":"A142","pred":"tao:has_database_id","subj":"142","obj":"MESH:D009361"},{"id":"A143","pred":"tao:has_database_id","subj":"143","obj":"MESH:D009361"},{"subj":"131","pred":"source","obj":"LitCovid-PubTator"},{"subj":"132","pred":"source","obj":"LitCovid-PubTator"},{"subj":"133","pred":"source","obj":"LitCovid-PubTator"},{"subj":"134","pred":"source","obj":"LitCovid-PubTator"},{"subj":"135","pred":"source","obj":"LitCovid-PubTator"},{"subj":"140","pred":"source","obj":"LitCovid-PubTator"},{"subj":"141","pred":"source","obj":"LitCovid-PubTator"},{"subj":"142","pred":"source","obj":"LitCovid-PubTator"},{"subj":"143","pred":"source","obj":"LitCovid-PubTator"}],"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_"}]},{"project":"LitCovid-PD-MONDO","denotations":[{"id":"T67","span":{"begin":102,"end":111},"obj":"Disease"},{"id":"T68","span":{"begin":674,"end":691},"obj":"Disease"},{"id":"T69","span":{"begin":721,"end":731},"obj":"Disease"},{"id":"T70","span":{"begin":1078,"end":1080},"obj":"Disease"}],"attributes":[{"id":"A67","pred":"mondo_id","subj":"T67","obj":"http://purl.obolibrary.org/obo/MONDO_0005812"},{"id":"A68","pred":"mondo_id","subj":"T68","obj":"http://purl.obolibrary.org/obo/MONDO_0021925"},{"id":"A69","pred":"mondo_id","subj":"T69","obj":"http://purl.obolibrary.org/obo/MONDO_0043839"},{"id":"A70","pred":"mondo_id","subj":"T70","obj":"http://purl.obolibrary.org/obo/MONDO_0000240"},{"subj":"T67","pred":"source","obj":"LitCovid-PD-MONDO"},{"subj":"T68","pred":"source","obj":"LitCovid-PD-MONDO"},{"subj":"T69","pred":"source","obj":"LitCovid-PD-MONDO"},{"subj":"T70","pred":"source","obj":"LitCovid-PD-MONDO"}]},{"project":"LitCovid-PD-CLO","denotations":[{"id":"T81","span":{"begin":61,"end":62},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T82","span":{"begin":98,"end":101},"obj":"http://purl.obolibrary.org/obo/CLO_0051582"},{"id":"T83","span":{"begin":298,"end":305},"obj":"http://purl.obolibrary.org/obo/UBERON_0000473"},{"id":"T84","span":{"begin":409,"end":416},"obj":"http://purl.obolibrary.org/obo/UBERON_0001005"},{"id":"T85","span":{"begin":445,"end":452},"obj":"http://purl.obolibrary.org/obo/UBERON_0000473"},{"id":"T86","span":{"begin":488,"end":498},"obj":"http://purl.obolibrary.org/obo/UBERON_0000473"},{"id":"T87","span":{"begin":792,"end":794},"obj":"http://purl.obolibrary.org/obo/CLO_0001000"},{"id":"T88","span":{"begin":962,"end":963},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T89","span":{"begin":1034,"end":1035},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T90","span":{"begin":1134,"end":1146},"obj":"http://purl.obolibrary.org/obo/UBERON_0001155"},{"id":"T91","span":{"begin":1202,"end":1214},"obj":"http://purl.obolibrary.org/obo/UBERON_0001155"},{"id":"T92","span":{"begin":1315,"end":1317},"obj":"http://purl.obolibrary.org/obo/CLO_0001313"}],"attributes":[{"subj":"T81","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T82","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T83","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T84","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T85","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T86","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T87","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T88","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T89","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T90","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T91","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T92","pred":"source","obj":"LitCovid-PD-CLO"}]},{"project":"LitCovid-PD-CHEBI","denotations":[{"id":"T74","span":{"begin":295,"end":297},"obj":"Chemical"},{"id":"T76","span":{"begin":428,"end":431},"obj":"Chemical"},{"id":"T77","span":{"begin":442,"end":444},"obj":"Chemical"},{"id":"T79","span":{"begin":787,"end":790},"obj":"Chemical"},{"id":"T81","span":{"begin":1051,"end":1053},"obj":"Chemical"},{"id":"T83","span":{"begin":1078,"end":1080},"obj":"Chemical"},{"id":"T84","span":{"begin":1082,"end":1085},"obj":"Chemical"},{"id":"T85","span":{"begin":1086,"end":1088},"obj":"Chemical"}],"attributes":[{"id":"A74","pred":"chebi_id","subj":"T74","obj":"http://purl.obolibrary.org/obo/CHEBI_74120"},{"id":"A75","pred":"chebi_id","subj":"T74","obj":"http://purl.obolibrary.org/obo/CHEBI_27680"},{"id":"A76","pred":"chebi_id","subj":"T76","obj":"http://purl.obolibrary.org/obo/CHEBI_64198"},{"id":"A77","pred":"chebi_id","subj":"T77","obj":"http://purl.obolibrary.org/obo/CHEBI_74120"},{"id":"A78","pred":"chebi_id","subj":"T77","obj":"http://purl.obolibrary.org/obo/CHEBI_27680"},{"id":"A79","pred":"chebi_id","subj":"T79","obj":"http://purl.obolibrary.org/obo/CHEBI_17824"},{"id":"A80","pred":"chebi_id","subj":"T79","obj":"http://purl.obolibrary.org/obo/CHEBI_30802"},{"id":"A81","pred":"chebi_id","subj":"T81","obj":"http://purl.obolibrary.org/obo/CHEBI_74120"},{"id":"A82","pred":"chebi_id","subj":"T81","obj":"http://purl.obolibrary.org/obo/CHEBI_27680"},{"id":"A83","pred":"chebi_id","subj":"T83","obj":"http://purl.obolibrary.org/obo/CHEBI_74062"},{"id":"A84","pred":"chebi_id","subj":"T84","obj":"http://purl.obolibrary.org/obo/CHEBI_64198"},{"id":"A85","pred":"chebi_id","subj":"T85","obj":"http://purl.obolibrary.org/obo/CHEBI_74120"},{"id":"A86","pred":"chebi_id","subj":"T85","obj":"http://purl.obolibrary.org/obo/CHEBI_27680"},{"subj":"T74","pred":"source","obj":"LitCovid-PD-CHEBI"},{"subj":"T76","pred":"source","obj":"LitCovid-PD-CHEBI"},{"subj":"T77","pred":"source","obj":"LitCovid-PD-CHEBI"},{"subj":"T79","pred":"source","obj":"LitCovid-PD-CHEBI"},{"subj":"T81","pred":"source","obj":"LitCovid-PD-CHEBI"},{"subj":"T83","pred":"source","obj":"LitCovid-PD-CHEBI"},{"subj":"T84","pred":"source","obj":"LitCovid-PD-CHEBI"},{"subj":"T85","pred":"source","obj":"LitCovid-PD-CHEBI"}]},{"project":"LitCovid-PD-GlycoEpitope","denotations":[{"id":"T9","span":{"begin":295,"end":297},"obj":"GlycoEpitope"},{"id":"T10","span":{"begin":442,"end":444},"obj":"GlycoEpitope"},{"id":"T11","span":{"begin":1051,"end":1053},"obj":"GlycoEpitope"},{"id":"T12","span":{"begin":1086,"end":1088},"obj":"GlycoEpitope"}],"attributes":[{"id":"A9","pred":"glyco_epitope_db_id","subj":"T9","obj":"http://www.glycoepitope.jp/epitopes/EP0510"},{"id":"A10","pred":"glyco_epitope_db_id","subj":"T10","obj":"http://www.glycoepitope.jp/epitopes/EP0510"},{"id":"A11","pred":"glyco_epitope_db_id","subj":"T11","obj":"http://www.glycoepitope.jp/epitopes/EP0510"},{"id":"A12","pred":"glyco_epitope_db_id","subj":"T12","obj":"http://www.glycoepitope.jp/epitopes/EP0510"},{"subj":"T9","pred":"source","obj":"LitCovid-PD-GlycoEpitope"},{"subj":"T10","pred":"source","obj":"LitCovid-PD-GlycoEpitope"},{"subj":"T11","pred":"source","obj":"LitCovid-PD-GlycoEpitope"},{"subj":"T12","pred":"source","obj":"LitCovid-PD-GlycoEpitope"}]},{"project":"LitCovid-PD-HP","denotations":[{"id":"T21","span":{"begin":117,"end":138},"obj":"Phenotype"},{"id":"T22","span":{"begin":787,"end":790},"obj":"Phenotype"}],"attributes":[{"id":"A21","pred":"hp_id","subj":"T21","obj":"http://purl.obolibrary.org/obo/HP_0002113"},{"id":"A22","pred":"hp_id","subj":"T22","obj":"http://purl.obolibrary.org/obo/HP_0020103"},{"subj":"T21","pred":"source","obj":"LitCovid-PD-HP"},{"subj":"T22","pred":"source","obj":"LitCovid-PD-HP"}]},{"project":"LitCovid-sentences","denotations":[{"id":"T84","span":{"begin":0,"end":57},"obj":"Sentence"},{"id":"T85","span":{"begin":58,"end":234},"obj":"Sentence"},{"id":"T86","span":{"begin":235,"end":487},"obj":"Sentence"},{"id":"T87","span":{"begin":488,"end":631},"obj":"Sentence"},{"id":"T88","span":{"begin":632,"end":796},"obj":"Sentence"},{"id":"T89","span":{"begin":797,"end":950},"obj":"Sentence"},{"id":"T90","span":{"begin":951,"end":1024},"obj":"Sentence"},{"id":"T91","span":{"begin":1025,"end":1147},"obj":"Sentence"},{"id":"T92","span":{"begin":1148,"end":1236},"obj":"Sentence"},{"id":"T93","span":{"begin":1237,"end":1319},"obj":"Sentence"}],"namespaces":[{"prefix":"_base","uri":"http://pubannotation.org/ontology/tao.owl#"}],"attributes":[{"subj":"T84","pred":"source","obj":"LitCovid-sentences"},{"subj":"T85","pred":"source","obj":"LitCovid-sentences"},{"subj":"T86","pred":"source","obj":"LitCovid-sentences"},{"subj":"T87","pred":"source","obj":"LitCovid-sentences"},{"subj":"T88","pred":"source","obj":"LitCovid-sentences"},{"subj":"T89","pred":"source","obj":"LitCovid-sentences"},{"subj":"T90","pred":"source","obj":"LitCovid-sentences"},{"subj":"T91","pred":"source","obj":"LitCovid-sentences"},{"subj":"T92","pred":"source","obj":"LitCovid-sentences"},{"subj":"T93","pred":"source","obj":"LitCovid-sentences"}]},{"project":"LitCovid-PMC-OGER-BB","denotations":[{"id":"T96","span":{"begin":117,"end":126},"obj":"UBERON:0002048"},{"id":"T97","span":{"begin":289,"end":294},"obj":"UBERON:0001977"},{"id":"T98","span":{"begin":307,"end":313},"obj":"NCBITaxon:4751"},{"id":"T99","span":{"begin":326,"end":332},"obj":"UBERON:0007311"},{"id":"T100","span":{"begin":340,"end":348},"obj":"UBERON:0003126"},{"id":"T101","span":{"begin":359,"end":368},"obj":"UBERON:0002048"},{"id":"T102","span":{"begin":409,"end":416},"obj":"UBERON:0001005"},{"id":"T103","span":{"begin":432,"end":437},"obj":"UBERON:0006314"},{"id":"T104","span":{"begin":457,"end":463},"obj":"NCBITaxon:4751"},{"id":"T105","span":{"begin":468,"end":477},"obj":"NCBITaxon:2"},{"id":"T106","span":{"begin":674,"end":691},"obj":"UBERON:0007196"},{"id":"T107","span":{"begin":1045,"end":1050},"obj":"UBERON:0001977"},{"id":"T108","span":{"begin":1122,"end":1133},"obj":"NCBITaxon:5052"},{"id":"T56564","span":{"begin":117,"end":126},"obj":"UBERON:0002048"},{"id":"T93733","span":{"begin":289,"end":294},"obj":"UBERON:0001977"},{"id":"T7027","span":{"begin":307,"end":313},"obj":"NCBITaxon:4751"},{"id":"T1997","span":{"begin":326,"end":332},"obj":"UBERON:0007311"},{"id":"T25508","span":{"begin":340,"end":348},"obj":"UBERON:0003126"},{"id":"T27731","span":{"begin":359,"end":368},"obj":"UBERON:0002048"},{"id":"T66249","span":{"begin":409,"end":416},"obj":"UBERON:0001005"},{"id":"T68615","span":{"begin":432,"end":437},"obj":"UBERON:0006314"},{"id":"T43239","span":{"begin":457,"end":463},"obj":"NCBITaxon:4751"},{"id":"T51425","span":{"begin":468,"end":477},"obj":"NCBITaxon:2"},{"id":"T29952","span":{"begin":674,"end":691},"obj":"UBERON:0007196"},{"id":"T93605","span":{"begin":1045,"end":1050},"obj":"UBERON:0001977"},{"id":"T4489","span":{"begin":1122,"end":1133},"obj":"NCBITaxon:5052"}],"attributes":[{"subj":"T96","pred":"source","obj":"LitCovid-PMC-OGER-BB"},{"subj":"T97","pred":"source","obj":"LitCovid-PMC-OGER-BB"},{"subj":"T98","pred":"source","obj":"LitCovid-PMC-OGER-BB"},{"subj":"T99","pred":"source","obj":"LitCovid-PMC-OGER-BB"},{"subj":"T100","pred":"source","obj":"LitCovid-PMC-OGER-BB"},{"subj":"T101","pred":"source","obj":"LitCovid-PMC-OGER-BB"},{"subj":"T102","pred":"source","obj":"LitCovid-PMC-OGER-BB"},{"subj":"T103","pred":"source","obj":"LitCovid-PMC-OGER-BB"},{"subj":"T104","pred":"source","obj":"LitCovid-PMC-OGER-BB"},{"subj":"T105","pred":"source","obj":"LitCovid-PMC-OGER-BB"},{"subj":"T106","pred":"source","obj":"LitCovid-PMC-OGER-BB"},{"subj":"T107","pred":"source","obj":"LitCovid-PMC-OGER-BB"},{"subj":"T108","pred":"source","obj":"LitCovid-PMC-OGER-BB"},{"subj":"T56564","pred":"source","obj":"LitCovid-PMC-OGER-BB"},{"subj":"T93733","pred":"source","obj":"LitCovid-PMC-OGER-BB"},{"subj":"T7027","pred":"source","obj":"LitCovid-PMC-OGER-BB"},{"subj":"T1997","pred":"source","obj":"LitCovid-PMC-OGER-BB"},{"subj":"T25508","pred":"source","obj":"LitCovid-PMC-OGER-BB"},{"subj":"T27731","pred":"source","obj":"LitCovid-PMC-OGER-BB"},{"subj":"T66249","pred":"source","obj":"LitCovid-PMC-OGER-BB"},{"subj":"T68615","pred":"source","obj":"LitCovid-PMC-OGER-BB"},{"subj":"T43239","pred":"source","obj":"LitCovid-PMC-OGER-BB"},{"subj":"T51425","pred":"source","obj":"LitCovid-PMC-OGER-BB"},{"subj":"T29952","pred":"source","obj":"LitCovid-PMC-OGER-BB"},{"subj":"T93605","pred":"source","obj":"LitCovid-PMC-OGER-BB"},{"subj":"T4489","pred":"source","obj":"LitCovid-PMC-OGER-BB"}]},{"project":"2_test","denotations":[{"id":"32572532-27365388-47963428","span":{"begin":792,"end":794},"obj":"27365388"},{"id":"T9256","span":{"begin":792,"end":794},"obj":"27365388"}],"attributes":[{"subj":"32572532-27365388-47963428","pred":"source","obj":"2_test"},{"subj":"T9256","pred":"source","obj":"2_test"}]}],"config":{"attribute types":[{"pred":"source","value type":"selection","values":[{"id":"LitCovid-PD-FMA-UBERON","color":"#b1ec93","default":true},{"id":"LitCovid-PD-UBERON","color":"#ec93cb"},{"id":"LitCovid-PubTator","color":"#93e5ec"},{"id":"LitCovid-PD-MONDO","color":"#ecd893"},{"id":"LitCovid-PD-CLO","color":"#be93ec"},{"id":"LitCovid-PD-CHEBI","color":"#93eca4"},{"id":"LitCovid-PD-GlycoEpitope","color":"#ec939b"},{"id":"LitCovid-PD-HP","color":"#93b5ec"},{"id":"LitCovid-sentences","color":"#cfec93"},{"id":"LitCovid-PMC-OGER-BB","color":"#ec93e9"},{"id":"2_test","color":"#93ecd5"}]}]}}