PMC:7377212 / 18816-19993 JSONTXT

{"project":"LitCovid-PMC-OGER-BB","denotations":[{"id":"T147","span":{"begin":340,"end":354},"obj":"UBERON:0001728"},{"id":"T148","span":{"begin":486,"end":498},"obj":"UBERON:0001852"},{"id":"T149","span":{"begin":524,"end":527},"obj":"SO:0000153"},{"id":"T150","span":{"begin":730,"end":740},"obj":"UBERON:0001004"},{"id":"T151","span":{"begin":784,"end":790},"obj":"UBERON:0007311"},{"id":"T152","span":{"begin":795,"end":803},"obj":"UBERON:0003126"},{"id":"T153","span":{"begin":947,"end":958},"obj":"NCBITaxon:1"},{"id":"T154","span":{"begin":1134,"end":1147},"obj":"CHEBI:41879;CHEBI:41879"}],"text":"Current guidelines advise against routine diagnostic bronchoscopy due to the risk of aerosol generation; recommending it only in patients in whom nasopharyngeal cultures are negative and BAL sampling will change clinical management [35]. In practice many patients with suspected CAPA undergo endotracheal sampling or non-directed BAL sampling only, and it is important that any case definition proposed for CAPA reflects this reality. To acknowledge this, we propose a screening and diagnostic algorithm for CAPA, which has clinical (respiratory) deterioration and/or positive aspergillus sputum, or tracheal aspirate culture as its entry point (figure 1). Although the host risk factors and clinical characteristics of CAPA are not yet understood, those individuals fulfilling the criteria for proven or probable aspergillosis [13, 14] should then be treated according to current guidelines [36, 37]. Importantly, now that adjunctive use of dexamethasone is likely to become widespread in the treatment of patients with severe COVID-19 [17], intensified screening for invasive aspergillosis is indicated to study the possible association between corticosteroid usage and CAPA."}

{"project":"LitCovid-PD-FMA-UBERON","denotations":[{"id":"T49","span":{"begin":589,"end":595},"obj":"Body_part"}],"attributes":[{"id":"A49","pred":"fma_id","subj":"T49","obj":"http://purl.org/sig/ont/fma/fma312401"}],"text":"Current guidelines advise against routine diagnostic bronchoscopy due to the risk of aerosol generation; recommending it only in patients in whom nasopharyngeal cultures are negative and BAL sampling will change clinical management [35]. In practice many patients with suspected CAPA undergo endotracheal sampling or non-directed BAL sampling only, and it is important that any case definition proposed for CAPA reflects this reality. To acknowledge this, we propose a screening and diagnostic algorithm for CAPA, which has clinical (respiratory) deterioration and/or positive aspergillus sputum, or tracheal aspirate culture as its entry point (figure 1). Although the host risk factors and clinical characteristics of CAPA are not yet understood, those individuals fulfilling the criteria for proven or probable aspergillosis [13, 14] should then be treated according to current guidelines [36, 37]. Importantly, now that adjunctive use of dexamethasone is likely to become widespread in the treatment of patients with severe COVID-19 [17], intensified screening for invasive aspergillosis is indicated to study the possible association between corticosteroid usage and CAPA."}

{"project":"LitCovid-PD-UBERON","denotations":[{"id":"T46","span":{"begin":589,"end":595},"obj":"Body_part"}],"attributes":[{"id":"A46","pred":"uberon_id","subj":"T46","obj":"http://purl.obolibrary.org/obo/UBERON_0007311"}],"text":"Current guidelines advise against routine diagnostic bronchoscopy due to the risk of aerosol generation; recommending it only in patients in whom nasopharyngeal cultures are negative and BAL sampling will change clinical management [35]. In practice many patients with suspected CAPA undergo endotracheal sampling or non-directed BAL sampling only, and it is important that any case definition proposed for CAPA reflects this reality. To acknowledge this, we propose a screening and diagnostic algorithm for CAPA, which has clinical (respiratory) deterioration and/or positive aspergillus sputum, or tracheal aspirate culture as its entry point (figure 1). Although the host risk factors and clinical characteristics of CAPA are not yet understood, those individuals fulfilling the criteria for proven or probable aspergillosis [13, 14] should then be treated according to current guidelines [36, 37]. Importantly, now that adjunctive use of dexamethasone is likely to become widespread in the treatment of patients with severe COVID-19 [17], intensified screening for invasive aspergillosis is indicated to study the possible association between corticosteroid usage and CAPA."}

{"project":"LitCovid-PubTator","denotations":[{"id":"569","span":{"begin":129,"end":137},"obj":"Species"},{"id":"570","span":{"begin":255,"end":263},"obj":"Species"},{"id":"571","span":{"begin":1007,"end":1015},"obj":"Species"},{"id":"572","span":{"begin":577,"end":588},"obj":"Species"},{"id":"573","span":{"begin":942,"end":955},"obj":"Chemical"},{"id":"574","span":{"begin":814,"end":827},"obj":"Disease"},{"id":"575","span":{"begin":1028,"end":1036},"obj":"Disease"}],"attributes":[{"id":"A569","pred":"tao:has_database_id","subj":"569","obj":"Tax:9606"},{"id":"A570","pred":"tao:has_database_id","subj":"570","obj":"Tax:9606"},{"id":"A571","pred":"tao:has_database_id","subj":"571","obj":"Tax:9606"},{"id":"A572","pred":"tao:has_database_id","subj":"572","obj":"Tax:746128"},{"id":"A573","pred":"tao:has_database_id","subj":"573","obj":"MESH:D003907"},{"id":"A574","pred":"tao:has_database_id","subj":"574","obj":"MESH:D001228"},{"id":"A575","pred":"tao:has_database_id","subj":"575","obj":"MESH:C000657245"}],"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":"Current guidelines advise against routine diagnostic bronchoscopy due to the risk of aerosol generation; recommending it only in patients in whom nasopharyngeal cultures are negative and BAL sampling will change clinical management [35]. In practice many patients with suspected CAPA undergo endotracheal sampling or non-directed BAL sampling only, and it is important that any case definition proposed for CAPA reflects this reality. To acknowledge this, we propose a screening and diagnostic algorithm for CAPA, which has clinical (respiratory) deterioration and/or positive aspergillus sputum, or tracheal aspirate culture as its entry point (figure 1). Although the host risk factors and clinical characteristics of CAPA are not yet understood, those individuals fulfilling the criteria for proven or probable aspergillosis [13, 14] should then be treated according to current guidelines [36, 37]. Importantly, now that adjunctive use of dexamethasone is likely to become widespread in the treatment of patients with severe COVID-19 [17], intensified screening for invasive aspergillosis is indicated to study the possible association between corticosteroid usage and CAPA."}

{"project":"LitCovid-PD-MONDO","denotations":[{"id":"T193","span":{"begin":279,"end":283},"obj":"Disease"},{"id":"T194","span":{"begin":407,"end":411},"obj":"Disease"},{"id":"T195","span":{"begin":508,"end":512},"obj":"Disease"},{"id":"T196","span":{"begin":720,"end":724},"obj":"Disease"},{"id":"T197","span":{"begin":814,"end":827},"obj":"Disease"},{"id":"T198","span":{"begin":1028,"end":1036},"obj":"Disease"},{"id":"T199","span":{"begin":1069,"end":1091},"obj":"Disease"},{"id":"T200","span":{"begin":1078,"end":1091},"obj":"Disease"},{"id":"T201","span":{"begin":1172,"end":1176},"obj":"Disease"}],"attributes":[{"id":"A193","pred":"mondo_id","subj":"T193","obj":"http://purl.obolibrary.org/obo/MONDO_0007163"},{"id":"A194","pred":"mondo_id","subj":"T194","obj":"http://purl.obolibrary.org/obo/MONDO_0007163"},{"id":"A195","pred":"mondo_id","subj":"T195","obj":"http://purl.obolibrary.org/obo/MONDO_0007163"},{"id":"A196","pred":"mondo_id","subj":"T196","obj":"http://purl.obolibrary.org/obo/MONDO_0007163"},{"id":"A197","pred":"mondo_id","subj":"T197","obj":"http://purl.obolibrary.org/obo/MONDO_0005657"},{"id":"A198","pred":"mondo_id","subj":"T198","obj":"http://purl.obolibrary.org/obo/MONDO_0100096"},{"id":"A199","pred":"mondo_id","subj":"T199","obj":"http://purl.obolibrary.org/obo/MONDO_0000240"},{"id":"A200","pred":"mondo_id","subj":"T200","obj":"http://purl.obolibrary.org/obo/MONDO_0005657"},{"id":"A201","pred":"mondo_id","subj":"T201","obj":"http://purl.obolibrary.org/obo/MONDO_0007163"}],"text":"Current guidelines advise against routine diagnostic bronchoscopy due to the risk of aerosol generation; recommending it only in patients in whom nasopharyngeal cultures are negative and BAL sampling will change clinical management [35]. In practice many patients with suspected CAPA undergo endotracheal sampling or non-directed BAL sampling only, and it is important that any case definition proposed for CAPA reflects this reality. To acknowledge this, we propose a screening and diagnostic algorithm for CAPA, which has clinical (respiratory) deterioration and/or positive aspergillus sputum, or tracheal aspirate culture as its entry point (figure 1). Although the host risk factors and clinical characteristics of CAPA are not yet understood, those individuals fulfilling the criteria for proven or probable aspergillosis [13, 14] should then be treated according to current guidelines [36, 37]. Importantly, now that adjunctive use of dexamethasone is likely to become widespread in the treatment of patients with severe COVID-19 [17], intensified screening for invasive aspergillosis is indicated to study the possible association between corticosteroid usage and CAPA."}

{"project":"LitCovid-PD-CLO","denotations":[{"id":"T172","span":{"begin":233,"end":235},"obj":"http://purl.obolibrary.org/obo/CLO_0001000"},{"id":"T173","span":{"begin":467,"end":468},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T174","span":{"begin":520,"end":523},"obj":"http://purl.obolibrary.org/obo/CLO_0051582"},{"id":"T175","span":{"begin":893,"end":895},"obj":"http://purl.obolibrary.org/obo/CLO_0001313"}],"text":"Current guidelines advise against routine diagnostic bronchoscopy due to the risk of aerosol generation; recommending it only in patients in whom nasopharyngeal cultures are negative and BAL sampling will change clinical management [35]. In practice many patients with suspected CAPA undergo endotracheal sampling or non-directed BAL sampling only, and it is important that any case definition proposed for CAPA reflects this reality. To acknowledge this, we propose a screening and diagnostic algorithm for CAPA, which has clinical (respiratory) deterioration and/or positive aspergillus sputum, or tracheal aspirate culture as its entry point (figure 1). Although the host risk factors and clinical characteristics of CAPA are not yet understood, those individuals fulfilling the criteria for proven or probable aspergillosis [13, 14] should then be treated according to current guidelines [36, 37]. Importantly, now that adjunctive use of dexamethasone is likely to become widespread in the treatment of patients with severe COVID-19 [17], intensified screening for invasive aspergillosis is indicated to study the possible association between corticosteroid usage and CAPA."}

{"project":"LitCovid-PD-CHEBI","denotations":[{"id":"T282","span":{"begin":187,"end":190},"obj":"Chemical"},{"id":"T283","span":{"begin":330,"end":333},"obj":"Chemical"},{"id":"T284","span":{"begin":942,"end":955},"obj":"Chemical"},{"id":"T285","span":{"begin":1147,"end":1161},"obj":"Chemical"}],"attributes":[{"id":"A282","pred":"chebi_id","subj":"T282","obj":"http://purl.obolibrary.org/obo/CHEBI_64198"},{"id":"A283","pred":"chebi_id","subj":"T283","obj":"http://purl.obolibrary.org/obo/CHEBI_64198"},{"id":"A284","pred":"chebi_id","subj":"T284","obj":"http://purl.obolibrary.org/obo/CHEBI_41879"},{"id":"A285","pred":"chebi_id","subj":"T285","obj":"http://purl.obolibrary.org/obo/CHEBI_50858"}],"text":"Current guidelines advise against routine diagnostic bronchoscopy due to the risk of aerosol generation; recommending it only in patients in whom nasopharyngeal cultures are negative and BAL sampling will change clinical management [35]. In practice many patients with suspected CAPA undergo endotracheal sampling or non-directed BAL sampling only, and it is important that any case definition proposed for CAPA reflects this reality. To acknowledge this, we propose a screening and diagnostic algorithm for CAPA, which has clinical (respiratory) deterioration and/or positive aspergillus sputum, or tracheal aspirate culture as its entry point (figure 1). Although the host risk factors and clinical characteristics of CAPA are not yet understood, those individuals fulfilling the criteria for proven or probable aspergillosis [13, 14] should then be treated according to current guidelines [36, 37]. Importantly, now that adjunctive use of dexamethasone is likely to become widespread in the treatment of patients with severe COVID-19 [17], intensified screening for invasive aspergillosis is indicated to study the possible association between corticosteroid usage and CAPA."}

{"project":"MyTest","denotations":[{"id":"32703771-30076119-29390921","span":{"begin":829,"end":831},"obj":"30076119"},{"id":"32703771-28387526-29390922","span":{"begin":833,"end":835},"obj":"28387526"},{"id":"32703771-27365388-29390923","span":{"begin":893,"end":895},"obj":"27365388"},{"id":"32703771-29544767-29390924","span":{"begin":897,"end":899},"obj":"29544767"}],"namespaces":[{"prefix":"_base","uri":"https://www.uniprot.org/uniprot/testbase"},{"prefix":"UniProtKB","uri":"https://www.uniprot.org/uniprot/"},{"prefix":"uniprot","uri":"https://www.uniprot.org/uniprotkb/"}],"text":"Current guidelines advise against routine diagnostic bronchoscopy due to the risk of aerosol generation; recommending it only in patients in whom nasopharyngeal cultures are negative and BAL sampling will change clinical management [35]. In practice many patients with suspected CAPA undergo endotracheal sampling or non-directed BAL sampling only, and it is important that any case definition proposed for CAPA reflects this reality. To acknowledge this, we propose a screening and diagnostic algorithm for CAPA, which has clinical (respiratory) deterioration and/or positive aspergillus sputum, or tracheal aspirate culture as its entry point (figure 1). Although the host risk factors and clinical characteristics of CAPA are not yet understood, those individuals fulfilling the criteria for proven or probable aspergillosis [13, 14] should then be treated according to current guidelines [36, 37]. Importantly, now that adjunctive use of dexamethasone is likely to become widespread in the treatment of patients with severe COVID-19 [17], intensified screening for invasive aspergillosis is indicated to study the possible association between corticosteroid usage and CAPA."}

{"project":"LitCovid-sentences","denotations":[{"id":"T96","span":{"begin":0,"end":237},"obj":"Sentence"},{"id":"T97","span":{"begin":238,"end":434},"obj":"Sentence"},{"id":"T98","span":{"begin":435,"end":656},"obj":"Sentence"},{"id":"T99","span":{"begin":657,"end":901},"obj":"Sentence"},{"id":"T100","span":{"begin":902,"end":1177},"obj":"Sentence"}],"namespaces":[{"prefix":"_base","uri":"http://pubannotation.org/ontology/tao.owl#"}],"text":"Current guidelines advise against routine diagnostic bronchoscopy due to the risk of aerosol generation; recommending it only in patients in whom nasopharyngeal cultures are negative and BAL sampling will change clinical management [35]. In practice many patients with suspected CAPA undergo endotracheal sampling or non-directed BAL sampling only, and it is important that any case definition proposed for CAPA reflects this reality. To acknowledge this, we propose a screening and diagnostic algorithm for CAPA, which has clinical (respiratory) deterioration and/or positive aspergillus sputum, or tracheal aspirate culture as its entry point (figure 1). Although the host risk factors and clinical characteristics of CAPA are not yet understood, those individuals fulfilling the criteria for proven or probable aspergillosis [13, 14] should then be treated according to current guidelines [36, 37]. Importantly, now that adjunctive use of dexamethasone is likely to become widespread in the treatment of patients with severe COVID-19 [17], intensified screening for invasive aspergillosis is indicated to study the possible association between corticosteroid usage and CAPA."}

{"project":"2_test","denotations":[{"id":"32703771-30076119-29390921","span":{"begin":829,"end":831},"obj":"30076119"},{"id":"32703771-28387526-29390922","span":{"begin":833,"end":835},"obj":"28387526"},{"id":"32703771-27365388-29390923","span":{"begin":893,"end":895},"obj":"27365388"},{"id":"32703771-29544767-29390924","span":{"begin":897,"end":899},"obj":"29544767"}],"text":"Current guidelines advise against routine diagnostic bronchoscopy due to the risk of aerosol generation; recommending it only in patients in whom nasopharyngeal cultures are negative and BAL sampling will change clinical management [35]. In practice many patients with suspected CAPA undergo endotracheal sampling or non-directed BAL sampling only, and it is important that any case definition proposed for CAPA reflects this reality. To acknowledge this, we propose a screening and diagnostic algorithm for CAPA, which has clinical (respiratory) deterioration and/or positive aspergillus sputum, or tracheal aspirate culture as its entry point (figure 1). Although the host risk factors and clinical characteristics of CAPA are not yet understood, those individuals fulfilling the criteria for proven or probable aspergillosis [13, 14] should then be treated according to current guidelines [36, 37]. Importantly, now that adjunctive use of dexamethasone is likely to become widespread in the treatment of patients with severe COVID-19 [17], intensified screening for invasive aspergillosis is indicated to study the possible association between corticosteroid usage and CAPA."}