PMC:7558333 / 12151-13436 JSONTXT

{"project":"LitCovid-PD-FMA-UBERON","denotations":[{"id":"T30","span":{"begin":428,"end":433},"obj":"Body_part"},{"id":"T31","span":{"begin":676,"end":681},"obj":"Body_part"},{"id":"T32","span":{"begin":860,"end":877},"obj":"Body_part"},{"id":"T33","span":{"begin":1006,"end":1014},"obj":"Body_part"},{"id":"T34","span":{"begin":1221,"end":1226},"obj":"Body_part"}],"attributes":[{"id":"A30","pred":"fma_id","subj":"T30","obj":"http://purl.org/sig/ont/fma/fma9576"},{"id":"A31","pred":"fma_id","subj":"T31","obj":"http://purl.org/sig/ont/fma/fma63083"},{"id":"A32","pred":"fma_id","subj":"T32","obj":"http://purl.org/sig/ont/fma/fma265130"},{"id":"A33","pred":"fma_id","subj":"T33","obj":"http://purl.org/sig/ont/fma/fma62871"},{"id":"A34","pred":"fma_id","subj":"T34","obj":"http://purl.org/sig/ont/fma/fma63083"}],"text":"Table 6 presents the classification of the 45 patients using original or modified AspICU algorithms. It appears that using an AspICU algorithm, nine patients were considered as having a putative IA (22% of the cohort). When including PCR, the number of patients with putative IA would increase from 9 to 15 (33%) patients, while most patients might be only colonized because all presented compatible clinical signs and abnormal chest CT scan (Table 5). Regarding Aspergillus detection, eight patients had a single detection of fungi using culture and/or PCR in respiratory samples and thus were classified as colonized. One of these patients had a concomitant GM detection in serum (index = 0.551), was not treated and is still alive, thus was considered as a false positive result. Finally, seven (16%) patients presented a heavy burden of Aspergillus in the respiratory tract with repeated positive cultures and/or PCR. In order to rule out a chronic colonization before the episode, an anti-Aspergillus antibody testing was performed and showed negative results. These patients were classified as putative IA, and three of them could even be considered as probable IA because of a positive biomarker of angioinvasion (serum PCR and/or GM) in agreement with EORTC/MSG classification."}

{"project":"LitCovid-PD-UBERON","denotations":[{"id":"T20","span":{"begin":428,"end":433},"obj":"Body_part"},{"id":"T21","span":{"begin":676,"end":681},"obj":"Body_part"},{"id":"T22","span":{"begin":860,"end":877},"obj":"Body_part"},{"id":"T23","span":{"begin":1221,"end":1226},"obj":"Body_part"}],"attributes":[{"id":"A20","pred":"uberon_id","subj":"T20","obj":"http://purl.obolibrary.org/obo/UBERON_0001443"},{"id":"A21","pred":"uberon_id","subj":"T21","obj":"http://purl.obolibrary.org/obo/UBERON_0001977"},{"id":"A22","pred":"uberon_id","subj":"T22","obj":"http://purl.obolibrary.org/obo/UBERON_0000065"},{"id":"A23","pred":"uberon_id","subj":"T23","obj":"http://purl.obolibrary.org/obo/UBERON_0001977"}],"text":"Table 6 presents the classification of the 45 patients using original or modified AspICU algorithms. It appears that using an AspICU algorithm, nine patients were considered as having a putative IA (22% of the cohort). When including PCR, the number of patients with putative IA would increase from 9 to 15 (33%) patients, while most patients might be only colonized because all presented compatible clinical signs and abnormal chest CT scan (Table 5). Regarding Aspergillus detection, eight patients had a single detection of fungi using culture and/or PCR in respiratory samples and thus were classified as colonized. One of these patients had a concomitant GM detection in serum (index = 0.551), was not treated and is still alive, thus was considered as a false positive result. Finally, seven (16%) patients presented a heavy burden of Aspergillus in the respiratory tract with repeated positive cultures and/or PCR. In order to rule out a chronic colonization before the episode, an anti-Aspergillus antibody testing was performed and showed negative results. These patients were classified as putative IA, and three of them could even be considered as probable IA because of a positive biomarker of angioinvasion (serum PCR and/or GM) in agreement with EORTC/MSG classification."}

{"project":"LitCovid-PD-MONDO","denotations":[{"id":"T58","span":{"begin":195,"end":197},"obj":"Disease"},{"id":"T59","span":{"begin":276,"end":278},"obj":"Disease"},{"id":"T60","span":{"begin":1109,"end":1111},"obj":"Disease"},{"id":"T61","span":{"begin":1168,"end":1170},"obj":"Disease"}],"attributes":[{"id":"A58","pred":"mondo_id","subj":"T58","obj":"http://purl.obolibrary.org/obo/MONDO_0000240"},{"id":"A59","pred":"mondo_id","subj":"T59","obj":"http://purl.obolibrary.org/obo/MONDO_0000240"},{"id":"A60","pred":"mondo_id","subj":"T60","obj":"http://purl.obolibrary.org/obo/MONDO_0000240"},{"id":"A61","pred":"mondo_id","subj":"T61","obj":"http://purl.obolibrary.org/obo/MONDO_0000240"}],"text":"Table 6 presents the classification of the 45 patients using original or modified AspICU algorithms. It appears that using an AspICU algorithm, nine patients were considered as having a putative IA (22% of the cohort). When including PCR, the number of patients with putative IA would increase from 9 to 15 (33%) patients, while most patients might be only colonized because all presented compatible clinical signs and abnormal chest CT scan (Table 5). Regarding Aspergillus detection, eight patients had a single detection of fungi using culture and/or PCR in respiratory samples and thus were classified as colonized. One of these patients had a concomitant GM detection in serum (index = 0.551), was not treated and is still alive, thus was considered as a false positive result. Finally, seven (16%) patients presented a heavy burden of Aspergillus in the respiratory tract with repeated positive cultures and/or PCR. In order to rule out a chronic colonization before the episode, an anti-Aspergillus antibody testing was performed and showed negative results. These patients were classified as putative IA, and three of them could even be considered as probable IA because of a positive biomarker of angioinvasion (serum PCR and/or GM) in agreement with EORTC/MSG classification."}

{"project":"LitCovid-PD-CLO","denotations":[{"id":"T86","span":{"begin":43,"end":45},"obj":"http://purl.obolibrary.org/obo/CLO_0053799"},{"id":"T87","span":{"begin":184,"end":185},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T88","span":{"begin":199,"end":201},"obj":"http://purl.obolibrary.org/obo/CLO_0050507"},{"id":"T89","span":{"begin":357,"end":366},"obj":"http://purl.obolibrary.org/obo/UBERON_0001155"},{"id":"T90","span":{"begin":428,"end":433},"obj":"http://www.ebi.ac.uk/efo/EFO_0000965"},{"id":"T91","span":{"begin":505,"end":506},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T92","span":{"begin":609,"end":618},"obj":"http://purl.obolibrary.org/obo/UBERON_0001155"},{"id":"T93","span":{"begin":646,"end":647},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T94","span":{"begin":758,"end":759},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T95","span":{"begin":823,"end":824},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T96","span":{"begin":943,"end":944},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T97","span":{"begin":953,"end":965},"obj":"http://purl.obolibrary.org/obo/UBERON_0001155"},{"id":"T98","span":{"begin":1015,"end":1026},"obj":"http://purl.obolibrary.org/obo/UBERON_0000473"},{"id":"T99","span":{"begin":1182,"end":1183},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"}],"text":"Table 6 presents the classification of the 45 patients using original or modified AspICU algorithms. It appears that using an AspICU algorithm, nine patients were considered as having a putative IA (22% of the cohort). When including PCR, the number of patients with putative IA would increase from 9 to 15 (33%) patients, while most patients might be only colonized because all presented compatible clinical signs and abnormal chest CT scan (Table 5). Regarding Aspergillus detection, eight patients had a single detection of fungi using culture and/or PCR in respiratory samples and thus were classified as colonized. One of these patients had a concomitant GM detection in serum (index = 0.551), was not treated and is still alive, thus was considered as a false positive result. Finally, seven (16%) patients presented a heavy burden of Aspergillus in the respiratory tract with repeated positive cultures and/or PCR. In order to rule out a chronic colonization before the episode, an anti-Aspergillus antibody testing was performed and showed negative results. These patients were classified as putative IA, and three of them could even be considered as probable IA because of a positive biomarker of angioinvasion (serum PCR and/or GM) in agreement with EORTC/MSG classification."}

{"project":"LitCovid-PD-GO-BP","denotations":[{"id":"T5","span":{"begin":514,"end":532},"obj":"http://purl.obolibrary.org/obo/GO_0016046"}],"text":"Table 6 presents the classification of the 45 patients using original or modified AspICU algorithms. It appears that using an AspICU algorithm, nine patients were considered as having a putative IA (22% of the cohort). When including PCR, the number of patients with putative IA would increase from 9 to 15 (33%) patients, while most patients might be only colonized because all presented compatible clinical signs and abnormal chest CT scan (Table 5). Regarding Aspergillus detection, eight patients had a single detection of fungi using culture and/or PCR in respiratory samples and thus were classified as colonized. One of these patients had a concomitant GM detection in serum (index = 0.551), was not treated and is still alive, thus was considered as a false positive result. Finally, seven (16%) patients presented a heavy burden of Aspergillus in the respiratory tract with repeated positive cultures and/or PCR. In order to rule out a chronic colonization before the episode, an anti-Aspergillus antibody testing was performed and showed negative results. These patients were classified as putative IA, and three of them could even be considered as probable IA because of a positive biomarker of angioinvasion (serum PCR and/or GM) in agreement with EORTC/MSG classification."}

{"project":"LitCovid-PD-GlycoEpitope","denotations":[{"id":"T13","span":{"begin":660,"end":662},"obj":"GlycoEpitope"},{"id":"T14","span":{"begin":1238,"end":1240},"obj":"GlycoEpitope"}],"attributes":[{"id":"A13","pred":"glyco_epitope_db_id","subj":"T13","obj":"http://www.glycoepitope.jp/epitopes/EP0510"},{"id":"A14","pred":"glyco_epitope_db_id","subj":"T14","obj":"http://www.glycoepitope.jp/epitopes/EP0510"}],"text":"Table 6 presents the classification of the 45 patients using original or modified AspICU algorithms. It appears that using an AspICU algorithm, nine patients were considered as having a putative IA (22% of the cohort). When including PCR, the number of patients with putative IA would increase from 9 to 15 (33%) patients, while most patients might be only colonized because all presented compatible clinical signs and abnormal chest CT scan (Table 5). Regarding Aspergillus detection, eight patients had a single detection of fungi using culture and/or PCR in respiratory samples and thus were classified as colonized. One of these patients had a concomitant GM detection in serum (index = 0.551), was not treated and is still alive, thus was considered as a false positive result. Finally, seven (16%) patients presented a heavy burden of Aspergillus in the respiratory tract with repeated positive cultures and/or PCR. In order to rule out a chronic colonization before the episode, an anti-Aspergillus antibody testing was performed and showed negative results. These patients were classified as putative IA, and three of them could even be considered as probable IA because of a positive biomarker of angioinvasion (serum PCR and/or GM) in agreement with EORTC/MSG classification."}

{"project":"LitCovid-sentences","denotations":[{"id":"T98","span":{"begin":0,"end":100},"obj":"Sentence"},{"id":"T99","span":{"begin":101,"end":218},"obj":"Sentence"},{"id":"T100","span":{"begin":219,"end":452},"obj":"Sentence"},{"id":"T101","span":{"begin":453,"end":619},"obj":"Sentence"},{"id":"T102","span":{"begin":620,"end":782},"obj":"Sentence"},{"id":"T103","span":{"begin":783,"end":921},"obj":"Sentence"},{"id":"T104","span":{"begin":922,"end":1065},"obj":"Sentence"},{"id":"T105","span":{"begin":1066,"end":1285},"obj":"Sentence"}],"namespaces":[{"prefix":"_base","uri":"http://pubannotation.org/ontology/tao.owl#"}],"text":"Table 6 presents the classification of the 45 patients using original or modified AspICU algorithms. It appears that using an AspICU algorithm, nine patients were considered as having a putative IA (22% of the cohort). When including PCR, the number of patients with putative IA would increase from 9 to 15 (33%) patients, while most patients might be only colonized because all presented compatible clinical signs and abnormal chest CT scan (Table 5). Regarding Aspergillus detection, eight patients had a single detection of fungi using culture and/or PCR in respiratory samples and thus were classified as colonized. One of these patients had a concomitant GM detection in serum (index = 0.551), was not treated and is still alive, thus was considered as a false positive result. Finally, seven (16%) patients presented a heavy burden of Aspergillus in the respiratory tract with repeated positive cultures and/or PCR. In order to rule out a chronic colonization before the episode, an anti-Aspergillus antibody testing was performed and showed negative results. These patients were classified as putative IA, and three of them could even be considered as probable IA because of a positive biomarker of angioinvasion (serum PCR and/or GM) in agreement with EORTC/MSG classification."}

{"project":"LitCovid-PubTator","denotations":[{"id":"259","span":{"begin":46,"end":54},"obj":"Species"},{"id":"260","span":{"begin":149,"end":157},"obj":"Species"},{"id":"261","span":{"begin":253,"end":261},"obj":"Species"},{"id":"262","span":{"begin":313,"end":321},"obj":"Species"},{"id":"263","span":{"begin":334,"end":342},"obj":"Species"},{"id":"264","span":{"begin":492,"end":500},"obj":"Species"},{"id":"265","span":{"begin":633,"end":641},"obj":"Species"},{"id":"266","span":{"begin":804,"end":812},"obj":"Species"},{"id":"267","span":{"begin":1072,"end":1080},"obj":"Species"},{"id":"268","span":{"begin":463,"end":474},"obj":"Species"},{"id":"269","span":{"begin":841,"end":852},"obj":"Species"},{"id":"270","span":{"begin":994,"end":1005},"obj":"Species"},{"id":"271","span":{"begin":660,"end":662},"obj":"Chemical"}],"attributes":[{"id":"A259","pred":"tao:has_database_id","subj":"259","obj":"Tax:9606"},{"id":"A260","pred":"tao:has_database_id","subj":"260","obj":"Tax:9606"},{"id":"A261","pred":"tao:has_database_id","subj":"261","obj":"Tax:9606"},{"id":"A262","pred":"tao:has_database_id","subj":"262","obj":"Tax:9606"},{"id":"A263","pred":"tao:has_database_id","subj":"263","obj":"Tax:9606"},{"id":"A264","pred":"tao:has_database_id","subj":"264","obj":"Tax:9606"},{"id":"A265","pred":"tao:has_database_id","subj":"265","obj":"Tax:9606"},{"id":"A266","pred":"tao:has_database_id","subj":"266","obj":"Tax:9606"},{"id":"A267","pred":"tao:has_database_id","subj":"267","obj":"Tax:9606"},{"id":"A268","pred":"tao:has_database_id","subj":"268","obj":"Tax:746128"},{"id":"A269","pred":"tao:has_database_id","subj":"269","obj":"Tax:746128"},{"id":"A270","pred":"tao:has_database_id","subj":"270","obj":"Tax:746128"},{"id":"A271","pred":"tao:has_database_id","subj":"271","obj":"MESH:C012990"}],"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":"Table 6 presents the classification of the 45 patients using original or modified AspICU algorithms. It appears that using an AspICU algorithm, nine patients were considered as having a putative IA (22% of the cohort). When including PCR, the number of patients with putative IA would increase from 9 to 15 (33%) patients, while most patients might be only colonized because all presented compatible clinical signs and abnormal chest CT scan (Table 5). Regarding Aspergillus detection, eight patients had a single detection of fungi using culture and/or PCR in respiratory samples and thus were classified as colonized. One of these patients had a concomitant GM detection in serum (index = 0.551), was not treated and is still alive, thus was considered as a false positive result. Finally, seven (16%) patients presented a heavy burden of Aspergillus in the respiratory tract with repeated positive cultures and/or PCR. In order to rule out a chronic colonization before the episode, an anti-Aspergillus antibody testing was performed and showed negative results. These patients were classified as putative IA, and three of them could even be considered as probable IA because of a positive biomarker of angioinvasion (serum PCR and/or GM) in agreement with EORTC/MSG classification."}