PMC:7646269 / 5463-7045 JSONTXT

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    LitCovid_Glycan-Motif-Structure

    {"project":"LitCovid_Glycan-Motif-Structure","denotations":[{"id":"T3","span":{"begin":1101,"end":1114},"obj":"https://glytoucan.org/Structures/Glycans/G93424OB"}],"text":"Patient 1 Patient 2 Patient 3 Patient 4\nAge (y) 82 79 77 77\nGender Male Male Male Male\nComorbid conditions\nHypertension No Yes No No\nDiabetes No No No Yes\nCoronary artery disease No Yes No No\nChronic obstructive pulmonary disease Yes No No No\nHistory of cerebrovascular accident No Yes No No\nHistory of cancer Yes Yes No No\nDementia No No No No\nTiming of positive culture for Aspergillus fumigatus (hospital day) Day 15 and 20 Day 7, 10, and 16 Day 10 and 14 Day 10\nClinical features at Aspergillus isolation\nFever No No Yes No\nRespiratory status at Aspergillus isolation IMV IMV IMV IMV\nNew radiographic abnormalities on chest CT or X‐ray Worsening infiltrates Opacities with dense consolidations Cavitary pneumonia Diffuse interstitial and patchy hazy opacities\nWhite blood cell count (103/μL) 32.9 21.1 20.1 20.2\nPlatelet count (103/μL) 376 146 420 123\nProcalcitonin (ng/mL) 0.16 0.30 3.30 9.34\nLactic acid (mmol/L) 1.0 3.6 1.6 3.7\nTotal bilirubin (mg/dL) 2.4 1.1 1.4 2.9\nSerum creatinine (mg/dL) 2.6 3.1 1.5 4.1\nSerum galactomannan NA 0.71 Negative Negative\nVasopressor support Yes Yes Yes Yes\nInpatient medications\nGlucocorticoids\nCumulative dose in prednisone equivalent (mg) 932 1000 870 87\nStarting date (hospital day) Day 8 Day 2 Day 2 Day 10\nDuration (d) 10 10 12 3\nTocilizumab No Yes No No\nAntibiotics Cefepime + Vancomycin Cefepime + Vancomycin Meropenem + Vancomycin Cefepime + Vancomycin\nAntifungal therapy Voriconazole Voriconazole Voriconazole Caspofungin"}

    LitCovid-PD-FMA-UBERON

    {"project":"LitCovid-PD-FMA-UBERON","denotations":[{"id":"T5","span":{"begin":174,"end":189},"obj":"Body_part"},{"id":"T6","span":{"begin":673,"end":678},"obj":"Body_part"},{"id":"T7","span":{"begin":819,"end":835},"obj":"Body_part"},{"id":"T8","span":{"begin":831,"end":835},"obj":"Body_part"},{"id":"T9","span":{"begin":875,"end":883},"obj":"Body_part"},{"id":"T10","span":{"begin":1050,"end":1055},"obj":"Body_part"},{"id":"T11","span":{"begin":1095,"end":1100},"obj":"Body_part"}],"attributes":[{"id":"A5","pred":"fma_id","subj":"T5","obj":"http://purl.org/sig/ont/fma/fma49893"},{"id":"A6","pred":"fma_id","subj":"T6","obj":"http://purl.org/sig/ont/fma/fma9576"},{"id":"A7","pred":"fma_id","subj":"T7","obj":"http://purl.org/sig/ont/fma/fma62852"},{"id":"A8","pred":"fma_id","subj":"T8","obj":"http://purl.org/sig/ont/fma/fma68646"},{"id":"A9","pred":"fma_id","subj":"T9","obj":"http://purl.org/sig/ont/fma/fma62851"},{"id":"A10","pred":"fma_id","subj":"T10","obj":"http://purl.org/sig/ont/fma/fma63083"},{"id":"A11","pred":"fma_id","subj":"T11","obj":"http://purl.org/sig/ont/fma/fma63083"}],"text":"Patient 1 Patient 2 Patient 3 Patient 4\nAge (y) 82 79 77 77\nGender Male Male Male Male\nComorbid conditions\nHypertension No Yes No No\nDiabetes No No No Yes\nCoronary artery disease No Yes No No\nChronic obstructive pulmonary disease Yes No No No\nHistory of cerebrovascular accident No Yes No No\nHistory of cancer Yes Yes No No\nDementia No No No No\nTiming of positive culture for Aspergillus fumigatus (hospital day) Day 15 and 20 Day 7, 10, and 16 Day 10 and 14 Day 10\nClinical features at Aspergillus isolation\nFever No No Yes No\nRespiratory status at Aspergillus isolation IMV IMV IMV IMV\nNew radiographic abnormalities on chest CT or X‐ray Worsening infiltrates Opacities with dense consolidations Cavitary pneumonia Diffuse interstitial and patchy hazy opacities\nWhite blood cell count (103/μL) 32.9 21.1 20.1 20.2\nPlatelet count (103/μL) 376 146 420 123\nProcalcitonin (ng/mL) 0.16 0.30 3.30 9.34\nLactic acid (mmol/L) 1.0 3.6 1.6 3.7\nTotal bilirubin (mg/dL) 2.4 1.1 1.4 2.9\nSerum creatinine (mg/dL) 2.6 3.1 1.5 4.1\nSerum galactomannan NA 0.71 Negative Negative\nVasopressor support Yes Yes Yes Yes\nInpatient medications\nGlucocorticoids\nCumulative dose in prednisone equivalent (mg) 932 1000 870 87\nStarting date (hospital day) Day 8 Day 2 Day 2 Day 10\nDuration (d) 10 10 12 3\nTocilizumab No Yes No No\nAntibiotics Cefepime + Vancomycin Cefepime + Vancomycin Meropenem + Vancomycin Cefepime + Vancomycin\nAntifungal therapy Voriconazole Voriconazole Voriconazole Caspofungin"}

    LitCovid-PD-UBERON

    {"project":"LitCovid-PD-UBERON","denotations":[{"id":"T5","span":{"begin":174,"end":189},"obj":"Body_part"},{"id":"T6","span":{"begin":183,"end":189},"obj":"Body_part"},{"id":"T7","span":{"begin":673,"end":678},"obj":"Body_part"},{"id":"T8","span":{"begin":825,"end":830},"obj":"Body_part"},{"id":"T9","span":{"begin":1050,"end":1055},"obj":"Body_part"},{"id":"T10","span":{"begin":1095,"end":1100},"obj":"Body_part"}],"attributes":[{"id":"A5","pred":"uberon_id","subj":"T5","obj":"http://purl.obolibrary.org/obo/UBERON_0001621"},{"id":"A6","pred":"uberon_id","subj":"T6","obj":"http://purl.obolibrary.org/obo/UBERON_0001637"},{"id":"A7","pred":"uberon_id","subj":"T7","obj":"http://purl.obolibrary.org/obo/UBERON_0001443"},{"id":"A8","pred":"uberon_id","subj":"T8","obj":"http://purl.obolibrary.org/obo/UBERON_0000178"},{"id":"A9","pred":"uberon_id","subj":"T9","obj":"http://purl.obolibrary.org/obo/UBERON_0001977"},{"id":"A10","pred":"uberon_id","subj":"T10","obj":"http://purl.obolibrary.org/obo/UBERON_0001977"}],"text":"Patient 1 Patient 2 Patient 3 Patient 4\nAge (y) 82 79 77 77\nGender Male Male Male Male\nComorbid conditions\nHypertension No Yes No No\nDiabetes No No No Yes\nCoronary artery disease No Yes No No\nChronic obstructive pulmonary disease Yes No No No\nHistory of cerebrovascular accident No Yes No No\nHistory of cancer Yes Yes No No\nDementia No No No No\nTiming of positive culture for Aspergillus fumigatus (hospital day) Day 15 and 20 Day 7, 10, and 16 Day 10 and 14 Day 10\nClinical features at Aspergillus isolation\nFever No No Yes No\nRespiratory status at Aspergillus isolation IMV IMV IMV IMV\nNew radiographic abnormalities on chest CT or X‐ray Worsening infiltrates Opacities with dense consolidations Cavitary pneumonia Diffuse interstitial and patchy hazy opacities\nWhite blood cell count (103/μL) 32.9 21.1 20.1 20.2\nPlatelet count (103/μL) 376 146 420 123\nProcalcitonin (ng/mL) 0.16 0.30 3.30 9.34\nLactic acid (mmol/L) 1.0 3.6 1.6 3.7\nTotal bilirubin (mg/dL) 2.4 1.1 1.4 2.9\nSerum creatinine (mg/dL) 2.6 3.1 1.5 4.1\nSerum galactomannan NA 0.71 Negative Negative\nVasopressor support Yes Yes Yes Yes\nInpatient medications\nGlucocorticoids\nCumulative dose in prednisone equivalent (mg) 932 1000 870 87\nStarting date (hospital day) Day 8 Day 2 Day 2 Day 10\nDuration (d) 10 10 12 3\nTocilizumab No Yes No No\nAntibiotics Cefepime + Vancomycin Cefepime + Vancomycin Meropenem + Vancomycin Cefepime + Vancomycin\nAntifungal therapy Voriconazole Voriconazole Voriconazole Caspofungin"}

    LitCovid-PD-MONDO

    {"project":"LitCovid-PD-MONDO","denotations":[{"id":"T37","span":{"begin":118,"end":130},"obj":"Disease"},{"id":"T38","span":{"begin":148,"end":156},"obj":"Disease"},{"id":"T39","span":{"begin":174,"end":197},"obj":"Disease"},{"id":"T40","span":{"begin":183,"end":197},"obj":"Disease"},{"id":"T41","span":{"begin":215,"end":252},"obj":"Disease"},{"id":"T42","span":{"begin":235,"end":252},"obj":"Disease"},{"id":"T43","span":{"begin":281,"end":305},"obj":"Disease"},{"id":"T46","span":{"begin":334,"end":340},"obj":"Disease"},{"id":"T47","span":{"begin":359,"end":367},"obj":"Disease"},{"id":"T48","span":{"begin":761,"end":770},"obj":"Disease"}],"attributes":[{"id":"A37","pred":"mondo_id","subj":"T37","obj":"http://purl.obolibrary.org/obo/MONDO_0005044"},{"id":"A38","pred":"mondo_id","subj":"T38","obj":"http://purl.obolibrary.org/obo/MONDO_0005015"},{"id":"A39","pred":"mondo_id","subj":"T39","obj":"http://purl.obolibrary.org/obo/MONDO_0005010"},{"id":"A40","pred":"mondo_id","subj":"T40","obj":"http://purl.obolibrary.org/obo/MONDO_0000473"},{"id":"A41","pred":"mondo_id","subj":"T41","obj":"http://purl.obolibrary.org/obo/MONDO_0005002"},{"id":"A42","pred":"mondo_id","subj":"T42","obj":"http://purl.obolibrary.org/obo/MONDO_0005275"},{"id":"A43","pred":"mondo_id","subj":"T43","obj":"http://purl.obolibrary.org/obo/MONDO_0005098"},{"id":"A44","pred":"mondo_id","subj":"T43","obj":"http://purl.obolibrary.org/obo/MONDO_0011057"},{"id":"A45","pred":"mondo_id","subj":"T43","obj":"http://purl.obolibrary.org/obo/MONDO_0020671"},{"id":"A46","pred":"mondo_id","subj":"T46","obj":"http://purl.obolibrary.org/obo/MONDO_0004992"},{"id":"A47","pred":"mondo_id","subj":"T47","obj":"http://purl.obolibrary.org/obo/MONDO_0001627"},{"id":"A48","pred":"mondo_id","subj":"T48","obj":"http://purl.obolibrary.org/obo/MONDO_0005249"}],"text":"Patient 1 Patient 2 Patient 3 Patient 4\nAge (y) 82 79 77 77\nGender Male Male Male Male\nComorbid conditions\nHypertension No Yes No No\nDiabetes No No No Yes\nCoronary artery disease No Yes No No\nChronic obstructive pulmonary disease Yes No No No\nHistory of cerebrovascular accident No Yes No No\nHistory of cancer Yes Yes No No\nDementia No No No No\nTiming of positive culture for Aspergillus fumigatus (hospital day) Day 15 and 20 Day 7, 10, and 16 Day 10 and 14 Day 10\nClinical features at Aspergillus isolation\nFever No No Yes No\nRespiratory status at Aspergillus isolation IMV IMV IMV IMV\nNew radiographic abnormalities on chest CT or X‐ray Worsening infiltrates Opacities with dense consolidations Cavitary pneumonia Diffuse interstitial and patchy hazy opacities\nWhite blood cell count (103/μL) 32.9 21.1 20.1 20.2\nPlatelet count (103/μL) 376 146 420 123\nProcalcitonin (ng/mL) 0.16 0.30 3.30 9.34\nLactic acid (mmol/L) 1.0 3.6 1.6 3.7\nTotal bilirubin (mg/dL) 2.4 1.1 1.4 2.9\nSerum creatinine (mg/dL) 2.6 3.1 1.5 4.1\nSerum galactomannan NA 0.71 Negative Negative\nVasopressor support Yes Yes Yes Yes\nInpatient medications\nGlucocorticoids\nCumulative dose in prednisone equivalent (mg) 932 1000 870 87\nStarting date (hospital day) Day 8 Day 2 Day 2 Day 10\nDuration (d) 10 10 12 3\nTocilizumab No Yes No No\nAntibiotics Cefepime + Vancomycin Cefepime + Vancomycin Meropenem + Vancomycin Cefepime + Vancomycin\nAntifungal therapy Voriconazole Voriconazole Voriconazole Caspofungin"}

    LitCovid-PD-CLO

    {"project":"LitCovid-PD-CLO","denotations":[{"id":"T25","span":{"begin":75,"end":79},"obj":"http://purl.obolibrary.org/obo/UBERON_0003101"},{"id":"T26","span":{"begin":75,"end":79},"obj":"http://www.ebi.ac.uk/efo/EFO_0000970"},{"id":"T27","span":{"begin":81,"end":85},"obj":"http://purl.obolibrary.org/obo/UBERON_0003101"},{"id":"T28","span":{"begin":81,"end":85},"obj":"http://www.ebi.ac.uk/efo/EFO_0000970"},{"id":"T29","span":{"begin":87,"end":91},"obj":"http://purl.obolibrary.org/obo/UBERON_0003101"},{"id":"T30","span":{"begin":87,"end":91},"obj":"http://www.ebi.ac.uk/efo/EFO_0000970"},{"id":"T31","span":{"begin":93,"end":97},"obj":"http://purl.obolibrary.org/obo/UBERON_0003101"},{"id":"T32","span":{"begin":93,"end":97},"obj":"http://www.ebi.ac.uk/efo/EFO_0000970"},{"id":"T33","span":{"begin":183,"end":189},"obj":"http://purl.obolibrary.org/obo/UBERON_0001637"},{"id":"T34","span":{"begin":183,"end":189},"obj":"http://www.ebi.ac.uk/efo/EFO_0000814"},{"id":"T35","span":{"begin":673,"end":678},"obj":"http://www.ebi.ac.uk/efo/EFO_0000965"},{"id":"T36","span":{"begin":825,"end":830},"obj":"http://www.ebi.ac.uk/efo/EFO_0000296"},{"id":"T37","span":{"begin":831,"end":835},"obj":"http://purl.obolibrary.org/obo/GO_0005623"}],"text":"Patient 1 Patient 2 Patient 3 Patient 4\nAge (y) 82 79 77 77\nGender Male Male Male Male\nComorbid conditions\nHypertension No Yes No No\nDiabetes No No No Yes\nCoronary artery disease No Yes No No\nChronic obstructive pulmonary disease Yes No No No\nHistory of cerebrovascular accident No Yes No No\nHistory of cancer Yes Yes No No\nDementia No No No No\nTiming of positive culture for Aspergillus fumigatus (hospital day) Day 15 and 20 Day 7, 10, and 16 Day 10 and 14 Day 10\nClinical features at Aspergillus isolation\nFever No No Yes No\nRespiratory status at Aspergillus isolation IMV IMV IMV IMV\nNew radiographic abnormalities on chest CT or X‐ray Worsening infiltrates Opacities with dense consolidations Cavitary pneumonia Diffuse interstitial and patchy hazy opacities\nWhite blood cell count (103/μL) 32.9 21.1 20.1 20.2\nPlatelet count (103/μL) 376 146 420 123\nProcalcitonin (ng/mL) 0.16 0.30 3.30 9.34\nLactic acid (mmol/L) 1.0 3.6 1.6 3.7\nTotal bilirubin (mg/dL) 2.4 1.1 1.4 2.9\nSerum creatinine (mg/dL) 2.6 3.1 1.5 4.1\nSerum galactomannan NA 0.71 Negative Negative\nVasopressor support Yes Yes Yes Yes\nInpatient medications\nGlucocorticoids\nCumulative dose in prednisone equivalent (mg) 932 1000 870 87\nStarting date (hospital day) Day 8 Day 2 Day 2 Day 10\nDuration (d) 10 10 12 3\nTocilizumab No Yes No No\nAntibiotics Cefepime + Vancomycin Cefepime + Vancomycin Meropenem + Vancomycin Cefepime + Vancomycin\nAntifungal therapy Voriconazole Voriconazole Voriconazole Caspofungin"}

    LitCovid-PD-CHEBI

    {"project":"LitCovid-PD-CHEBI","denotations":[{"id":"T31","span":{"begin":965,"end":976},"obj":"Chemical"},{"id":"T33","span":{"begin":972,"end":976},"obj":"Chemical"},{"id":"T34","span":{"begin":1012,"end":1021},"obj":"Chemical"},{"id":"T35","span":{"begin":1056,"end":1066},"obj":"Chemical"},{"id":"T36","span":{"begin":1101,"end":1114},"obj":"Chemical"},{"id":"T37","span":{"begin":1116,"end":1118},"obj":"Chemical"},{"id":"T38","span":{"begin":1242,"end":1252},"obj":"Chemical"},{"id":"T39","span":{"begin":1417,"end":1425},"obj":"Chemical"},{"id":"T40","span":{"begin":1428,"end":1438},"obj":"Chemical"},{"id":"T41","span":{"begin":1440,"end":1448},"obj":"Chemical"},{"id":"T42","span":{"begin":1451,"end":1461},"obj":"Chemical"},{"id":"T43","span":{"begin":1463,"end":1472},"obj":"Chemical"},{"id":"T44","span":{"begin":1475,"end":1485},"obj":"Chemical"},{"id":"T45","span":{"begin":1487,"end":1495},"obj":"Chemical"},{"id":"T46","span":{"begin":1498,"end":1508},"obj":"Chemical"},{"id":"T47","span":{"begin":1571,"end":1582},"obj":"Chemical"}],"attributes":[{"id":"A31","pred":"chebi_id","subj":"T31","obj":"http://purl.obolibrary.org/obo/CHEBI_28358"},{"id":"A32","pred":"chebi_id","subj":"T31","obj":"http://purl.obolibrary.org/obo/CHEBI_78320"},{"id":"A33","pred":"chebi_id","subj":"T33","obj":"http://purl.obolibrary.org/obo/CHEBI_37527"},{"id":"A34","pred":"chebi_id","subj":"T34","obj":"http://purl.obolibrary.org/obo/CHEBI_16990"},{"id":"A35","pred":"chebi_id","subj":"T35","obj":"http://purl.obolibrary.org/obo/CHEBI_16737"},{"id":"A36","pred":"chebi_id","subj":"T36","obj":"http://purl.obolibrary.org/obo/CHEBI_27680"},{"id":"A37","pred":"chebi_id","subj":"T37","obj":"http://purl.obolibrary.org/obo/CHEBI_33696"},{"id":"A38","pred":"chebi_id","subj":"T38","obj":"http://purl.obolibrary.org/obo/CHEBI_8382"},{"id":"A39","pred":"chebi_id","subj":"T39","obj":"http://purl.obolibrary.org/obo/CHEBI_478164"},{"id":"A40","pred":"chebi_id","subj":"T40","obj":"http://purl.obolibrary.org/obo/CHEBI_28001"},{"id":"A41","pred":"chebi_id","subj":"T41","obj":"http://purl.obolibrary.org/obo/CHEBI_478164"},{"id":"A42","pred":"chebi_id","subj":"T42","obj":"http://purl.obolibrary.org/obo/CHEBI_28001"},{"id":"A43","pred":"chebi_id","subj":"T43","obj":"http://purl.obolibrary.org/obo/CHEBI_43968"},{"id":"A44","pred":"chebi_id","subj":"T44","obj":"http://purl.obolibrary.org/obo/CHEBI_28001"},{"id":"A45","pred":"chebi_id","subj":"T45","obj":"http://purl.obolibrary.org/obo/CHEBI_478164"},{"id":"A46","pred":"chebi_id","subj":"T46","obj":"http://purl.obolibrary.org/obo/CHEBI_28001"},{"id":"A47","pred":"chebi_id","subj":"T47","obj":"http://purl.obolibrary.org/obo/CHEBI_474180"}],"text":"Patient 1 Patient 2 Patient 3 Patient 4\nAge (y) 82 79 77 77\nGender Male Male Male Male\nComorbid conditions\nHypertension No Yes No No\nDiabetes No No No Yes\nCoronary artery disease No Yes No No\nChronic obstructive pulmonary disease Yes No No No\nHistory of cerebrovascular accident No Yes No No\nHistory of cancer Yes Yes No No\nDementia No No No No\nTiming of positive culture for Aspergillus fumigatus (hospital day) Day 15 and 20 Day 7, 10, and 16 Day 10 and 14 Day 10\nClinical features at Aspergillus isolation\nFever No No Yes No\nRespiratory status at Aspergillus isolation IMV IMV IMV IMV\nNew radiographic abnormalities on chest CT or X‐ray Worsening infiltrates Opacities with dense consolidations Cavitary pneumonia Diffuse interstitial and patchy hazy opacities\nWhite blood cell count (103/μL) 32.9 21.1 20.1 20.2\nPlatelet count (103/μL) 376 146 420 123\nProcalcitonin (ng/mL) 0.16 0.30 3.30 9.34\nLactic acid (mmol/L) 1.0 3.6 1.6 3.7\nTotal bilirubin (mg/dL) 2.4 1.1 1.4 2.9\nSerum creatinine (mg/dL) 2.6 3.1 1.5 4.1\nSerum galactomannan NA 0.71 Negative Negative\nVasopressor support Yes Yes Yes Yes\nInpatient medications\nGlucocorticoids\nCumulative dose in prednisone equivalent (mg) 932 1000 870 87\nStarting date (hospital day) Day 8 Day 2 Day 2 Day 10\nDuration (d) 10 10 12 3\nTocilizumab No Yes No No\nAntibiotics Cefepime + Vancomycin Cefepime + Vancomycin Meropenem + Vancomycin Cefepime + Vancomycin\nAntifungal therapy Voriconazole Voriconazole Voriconazole Caspofungin"}

    LitCovid-PD-GlycoEpitope

    {"project":"LitCovid-PD-GlycoEpitope","denotations":[{"id":"T3","span":{"begin":1101,"end":1114},"obj":"GlycoEpitope"}],"attributes":[{"id":"A3","pred":"glyco_epitope_db_id","subj":"T3","obj":"http://www.glycoepitope.jp/epitopes/EP0510"}],"text":"Patient 1 Patient 2 Patient 3 Patient 4\nAge (y) 82 79 77 77\nGender Male Male Male Male\nComorbid conditions\nHypertension No Yes No No\nDiabetes No No No Yes\nCoronary artery disease No Yes No No\nChronic obstructive pulmonary disease Yes No No No\nHistory of cerebrovascular accident No Yes No No\nHistory of cancer Yes Yes No No\nDementia No No No No\nTiming of positive culture for Aspergillus fumigatus (hospital day) Day 15 and 20 Day 7, 10, and 16 Day 10 and 14 Day 10\nClinical features at Aspergillus isolation\nFever No No Yes No\nRespiratory status at Aspergillus isolation IMV IMV IMV IMV\nNew radiographic abnormalities on chest CT or X‐ray Worsening infiltrates Opacities with dense consolidations Cavitary pneumonia Diffuse interstitial and patchy hazy opacities\nWhite blood cell count (103/μL) 32.9 21.1 20.1 20.2\nPlatelet count (103/μL) 376 146 420 123\nProcalcitonin (ng/mL) 0.16 0.30 3.30 9.34\nLactic acid (mmol/L) 1.0 3.6 1.6 3.7\nTotal bilirubin (mg/dL) 2.4 1.1 1.4 2.9\nSerum creatinine (mg/dL) 2.6 3.1 1.5 4.1\nSerum galactomannan NA 0.71 Negative Negative\nVasopressor support Yes Yes Yes Yes\nInpatient medications\nGlucocorticoids\nCumulative dose in prednisone equivalent (mg) 932 1000 870 87\nStarting date (hospital day) Day 8 Day 2 Day 2 Day 10\nDuration (d) 10 10 12 3\nTocilizumab No Yes No No\nAntibiotics Cefepime + Vancomycin Cefepime + Vancomycin Meropenem + Vancomycin Cefepime + Vancomycin\nAntifungal therapy Voriconazole Voriconazole Voriconazole Caspofungin"}

    LitCovid-PD-HP

    {"project":"LitCovid-PD-HP","denotations":[{"id":"T29","span":{"begin":118,"end":130},"obj":"Phenotype"},{"id":"T30","span":{"begin":215,"end":252},"obj":"Phenotype"},{"id":"T31","span":{"begin":281,"end":305},"obj":"Phenotype"},{"id":"T32","span":{"begin":334,"end":340},"obj":"Phenotype"},{"id":"T33","span":{"begin":359,"end":367},"obj":"Phenotype"},{"id":"T34","span":{"begin":552,"end":557},"obj":"Phenotype"},{"id":"T35","span":{"begin":761,"end":770},"obj":"Phenotype"}],"attributes":[{"id":"A29","pred":"hp_id","subj":"T29","obj":"http://purl.obolibrary.org/obo/HP_0000822"},{"id":"A30","pred":"hp_id","subj":"T30","obj":"http://purl.obolibrary.org/obo/HP_0006510"},{"id":"A31","pred":"hp_id","subj":"T31","obj":"http://purl.obolibrary.org/obo/HP_0001297"},{"id":"A32","pred":"hp_id","subj":"T32","obj":"http://purl.obolibrary.org/obo/HP_0002664"},{"id":"A33","pred":"hp_id","subj":"T33","obj":"http://purl.obolibrary.org/obo/HP_0000726"},{"id":"A34","pred":"hp_id","subj":"T34","obj":"http://purl.obolibrary.org/obo/HP_0001945"},{"id":"A35","pred":"hp_id","subj":"T35","obj":"http://purl.obolibrary.org/obo/HP_0002090"}],"text":"Patient 1 Patient 2 Patient 3 Patient 4\nAge (y) 82 79 77 77\nGender Male Male Male Male\nComorbid conditions\nHypertension No Yes No No\nDiabetes No No No Yes\nCoronary artery disease No Yes No No\nChronic obstructive pulmonary disease Yes No No No\nHistory of cerebrovascular accident No Yes No No\nHistory of cancer Yes Yes No No\nDementia No No No No\nTiming of positive culture for Aspergillus fumigatus (hospital day) Day 15 and 20 Day 7, 10, and 16 Day 10 and 14 Day 10\nClinical features at Aspergillus isolation\nFever No No Yes No\nRespiratory status at Aspergillus isolation IMV IMV IMV IMV\nNew radiographic abnormalities on chest CT or X‐ray Worsening infiltrates Opacities with dense consolidations Cavitary pneumonia Diffuse interstitial and patchy hazy opacities\nWhite blood cell count (103/μL) 32.9 21.1 20.1 20.2\nPlatelet count (103/μL) 376 146 420 123\nProcalcitonin (ng/mL) 0.16 0.30 3.30 9.34\nLactic acid (mmol/L) 1.0 3.6 1.6 3.7\nTotal bilirubin (mg/dL) 2.4 1.1 1.4 2.9\nSerum creatinine (mg/dL) 2.6 3.1 1.5 4.1\nSerum galactomannan NA 0.71 Negative Negative\nVasopressor support Yes Yes Yes Yes\nInpatient medications\nGlucocorticoids\nCumulative dose in prednisone equivalent (mg) 932 1000 870 87\nStarting date (hospital day) Day 8 Day 2 Day 2 Day 10\nDuration (d) 10 10 12 3\nTocilizumab No Yes No No\nAntibiotics Cefepime + Vancomycin Cefepime + Vancomycin Meropenem + Vancomycin Cefepime + Vancomycin\nAntifungal therapy Voriconazole Voriconazole Voriconazole Caspofungin"}

    LitCovid-sentences

    {"project":"LitCovid-sentences","denotations":[{"id":"T57","span":{"begin":0,"end":42},"obj":"Sentence"},{"id":"T58","span":{"begin":43,"end":66},"obj":"Sentence"},{"id":"T59","span":{"begin":67,"end":97},"obj":"Sentence"},{"id":"T60","span":{"begin":98,"end":117},"obj":"Sentence"},{"id":"T61","span":{"begin":118,"end":147},"obj":"Sentence"},{"id":"T62","span":{"begin":148,"end":173},"obj":"Sentence"},{"id":"T63","span":{"begin":174,"end":214},"obj":"Sentence"},{"id":"T64","span":{"begin":215,"end":269},"obj":"Sentence"},{"id":"T65","span":{"begin":270,"end":322},"obj":"Sentence"},{"id":"T66","span":{"begin":323,"end":358},"obj":"Sentence"},{"id":"T67","span":{"begin":359,"end":383},"obj":"Sentence"},{"id":"T68","span":{"begin":384,"end":508},"obj":"Sentence"},{"id":"T69","span":{"begin":509,"end":551},"obj":"Sentence"},{"id":"T70","span":{"begin":552,"end":574},"obj":"Sentence"},{"id":"T71","span":{"begin":575,"end":638},"obj":"Sentence"},{"id":"T72","span":{"begin":639,"end":818},"obj":"Sentence"},{"id":"T73","span":{"begin":819,"end":874},"obj":"Sentence"},{"id":"T74","span":{"begin":875,"end":918},"obj":"Sentence"},{"id":"T75","span":{"begin":919,"end":964},"obj":"Sentence"},{"id":"T76","span":{"begin":965,"end":1005},"obj":"Sentence"},{"id":"T77","span":{"begin":1006,"end":1049},"obj":"Sentence"},{"id":"T78","span":{"begin":1050,"end":1094},"obj":"Sentence"},{"id":"T79","span":{"begin":1095,"end":1144},"obj":"Sentence"},{"id":"T80","span":{"begin":1145,"end":1184},"obj":"Sentence"},{"id":"T81","span":{"begin":1185,"end":1206},"obj":"Sentence"},{"id":"T82","span":{"begin":1207,"end":1222},"obj":"Sentence"},{"id":"T83","span":{"begin":1223,"end":1288},"obj":"Sentence"},{"id":"T84","span":{"begin":1289,"end":1346},"obj":"Sentence"},{"id":"T85","span":{"begin":1347,"end":1374},"obj":"Sentence"},{"id":"T86","span":{"begin":1375,"end":1403},"obj":"Sentence"},{"id":"T87","span":{"begin":1404,"end":1508},"obj":"Sentence"},{"id":"T88","span":{"begin":1509,"end":1582},"obj":"Sentence"}],"namespaces":[{"prefix":"_base","uri":"http://pubannotation.org/ontology/tao.owl#"}],"text":"Patient 1 Patient 2 Patient 3 Patient 4\nAge (y) 82 79 77 77\nGender Male Male Male Male\nComorbid conditions\nHypertension No Yes No No\nDiabetes No No No Yes\nCoronary artery disease No Yes No No\nChronic obstructive pulmonary disease Yes No No No\nHistory of cerebrovascular accident No Yes No No\nHistory of cancer Yes Yes No No\nDementia No No No No\nTiming of positive culture for Aspergillus fumigatus (hospital day) Day 15 and 20 Day 7, 10, and 16 Day 10 and 14 Day 10\nClinical features at Aspergillus isolation\nFever No No Yes No\nRespiratory status at Aspergillus isolation IMV IMV IMV IMV\nNew radiographic abnormalities on chest CT or X‐ray Worsening infiltrates Opacities with dense consolidations Cavitary pneumonia Diffuse interstitial and patchy hazy opacities\nWhite blood cell count (103/μL) 32.9 21.1 20.1 20.2\nPlatelet count (103/μL) 376 146 420 123\nProcalcitonin (ng/mL) 0.16 0.30 3.30 9.34\nLactic acid (mmol/L) 1.0 3.6 1.6 3.7\nTotal bilirubin (mg/dL) 2.4 1.1 1.4 2.9\nSerum creatinine (mg/dL) 2.6 3.1 1.5 4.1\nSerum galactomannan NA 0.71 Negative Negative\nVasopressor support Yes Yes Yes Yes\nInpatient medications\nGlucocorticoids\nCumulative dose in prednisone equivalent (mg) 932 1000 870 87\nStarting date (hospital day) Day 8 Day 2 Day 2 Day 10\nDuration (d) 10 10 12 3\nTocilizumab No Yes No No\nAntibiotics Cefepime + Vancomycin Cefepime + Vancomycin Meropenem + Vancomycin Cefepime + Vancomycin\nAntifungal therapy Voriconazole Voriconazole Voriconazole Caspofungin"}

    LitCovid-PubTator

    {"project":"LitCovid-PubTator","denotations":[{"id":"215","span":{"begin":415,"end":436},"obj":"Species"},{"id":"216","span":{"begin":530,"end":541},"obj":"Species"},{"id":"217","span":{"begin":597,"end":608},"obj":"Species"},{"id":"218","span":{"begin":1056,"end":1066},"obj":"Chemical"},{"id":"219","span":{"begin":1242,"end":1252},"obj":"Chemical"},{"id":"220","span":{"begin":1375,"end":1386},"obj":"Chemical"},{"id":"221","span":{"begin":1417,"end":1425},"obj":"Chemical"},{"id":"222","span":{"begin":1428,"end":1438},"obj":"Chemical"},{"id":"223","span":{"begin":1440,"end":1448},"obj":"Chemical"},{"id":"224","span":{"begin":1451,"end":1461},"obj":"Chemical"},{"id":"225","span":{"begin":1463,"end":1472},"obj":"Chemical"},{"id":"226","span":{"begin":1475,"end":1485},"obj":"Chemical"},{"id":"227","span":{"begin":1487,"end":1495},"obj":"Chemical"},{"id":"228","span":{"begin":1498,"end":1508},"obj":"Chemical"},{"id":"229","span":{"begin":1529,"end":1541},"obj":"Chemical"},{"id":"230","span":{"begin":1543,"end":1555},"obj":"Chemical"},{"id":"231","span":{"begin":1557,"end":1569},"obj":"Chemical"},{"id":"232","span":{"begin":118,"end":130},"obj":"Disease"},{"id":"233","span":{"begin":148,"end":156},"obj":"Disease"},{"id":"234","span":{"begin":174,"end":197},"obj":"Disease"},{"id":"235","span":{"begin":215,"end":252},"obj":"Disease"},{"id":"236","span":{"begin":281,"end":305},"obj":"Disease"},{"id":"237","span":{"begin":334,"end":340},"obj":"Disease"},{"id":"238","span":{"begin":552,"end":557},"obj":"Disease"},{"id":"239","span":{"begin":761,"end":770},"obj":"Disease"}],"attributes":[{"id":"A215","pred":"tao:has_database_id","subj":"215","obj":"Tax:746128"},{"id":"A216","pred":"tao:has_database_id","subj":"216","obj":"Tax:746128"},{"id":"A217","pred":"tao:has_database_id","subj":"217","obj":"Tax:746128"},{"id":"A218","pred":"tao:has_database_id","subj":"218","obj":"MESH:D003404"},{"id":"A219","pred":"tao:has_database_id","subj":"219","obj":"MESH:D011241"},{"id":"A220","pred":"tao:has_database_id","subj":"220","obj":"MESH:C502936"},{"id":"A221","pred":"tao:has_database_id","subj":"221","obj":"MESH:D000077723"},{"id":"A222","pred":"tao:has_database_id","subj":"222","obj":"MESH:D014640"},{"id":"A223","pred":"tao:has_database_id","subj":"223","obj":"MESH:D000077723"},{"id":"A224","pred":"tao:has_database_id","subj":"224","obj":"MESH:D014640"},{"id":"A225","pred":"tao:has_database_id","subj":"225","obj":"MESH:D000077731"},{"id":"A226","pred":"tao:has_database_id","subj":"226","obj":"MESH:D014640"},{"id":"A227","pred":"tao:has_database_id","subj":"227","obj":"MESH:D000077723"},{"id":"A228","pred":"tao:has_database_id","subj":"228","obj":"MESH:D014640"},{"id":"A229","pred":"tao:has_database_id","subj":"229","obj":"MESH:D065819"},{"id":"A230","pred":"tao:has_database_id","subj":"230","obj":"MESH:D065819"},{"id":"A231","pred":"tao:has_database_id","subj":"231","obj":"MESH:D065819"},{"id":"A232","pred":"tao:has_database_id","subj":"232","obj":"MESH:D006973"},{"id":"A233","pred":"tao:has_database_id","subj":"233","obj":"MESH:D003920"},{"id":"A234","pred":"tao:has_database_id","subj":"234","obj":"MESH:D003324"},{"id":"A235","pred":"tao:has_database_id","subj":"235","obj":"MESH:D029424"},{"id":"A236","pred":"tao:has_database_id","subj":"236","obj":"MESH:D020521"},{"id":"A237","pred":"tao:has_database_id","subj":"237","obj":"MESH:D009369"},{"id":"A238","pred":"tao:has_database_id","subj":"238","obj":"MESH:D005334"},{"id":"A239","pred":"tao:has_database_id","subj":"239","obj":"MESH:D011014"}],"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":"Patient 1 Patient 2 Patient 3 Patient 4\nAge (y) 82 79 77 77\nGender Male Male Male Male\nComorbid conditions\nHypertension No Yes No No\nDiabetes No No No Yes\nCoronary artery disease No Yes No No\nChronic obstructive pulmonary disease Yes No No No\nHistory of cerebrovascular accident No Yes No No\nHistory of cancer Yes Yes No No\nDementia No No No No\nTiming of positive culture for Aspergillus fumigatus (hospital day) Day 15 and 20 Day 7, 10, and 16 Day 10 and 14 Day 10\nClinical features at Aspergillus isolation\nFever No No Yes No\nRespiratory status at Aspergillus isolation IMV IMV IMV IMV\nNew radiographic abnormalities on chest CT or X‐ray Worsening infiltrates Opacities with dense consolidations Cavitary pneumonia Diffuse interstitial and patchy hazy opacities\nWhite blood cell count (103/μL) 32.9 21.1 20.1 20.2\nPlatelet count (103/μL) 376 146 420 123\nProcalcitonin (ng/mL) 0.16 0.30 3.30 9.34\nLactic acid (mmol/L) 1.0 3.6 1.6 3.7\nTotal bilirubin (mg/dL) 2.4 1.1 1.4 2.9\nSerum creatinine (mg/dL) 2.6 3.1 1.5 4.1\nSerum galactomannan NA 0.71 Negative Negative\nVasopressor support Yes Yes Yes Yes\nInpatient medications\nGlucocorticoids\nCumulative dose in prednisone equivalent (mg) 932 1000 870 87\nStarting date (hospital day) Day 8 Day 2 Day 2 Day 10\nDuration (d) 10 10 12 3\nTocilizumab No Yes No No\nAntibiotics Cefepime + Vancomycin Cefepime + Vancomycin Meropenem + Vancomycin Cefepime + Vancomycin\nAntifungal therapy Voriconazole Voriconazole Voriconazole Caspofungin"}