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PMC:7306567 / 23800-25280 JSONTXT

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LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T34 272-278 Body_part denotes sputum http://purl.org/sig/ont/fma/fma312401
T35 504-509 Body_part denotes serum http://purl.org/sig/ont/fma/fma63083
T36 744-750 Body_part denotes sputum http://purl.org/sig/ont/fma/fma312401
T37 1402-1408 Body_part denotes sputum http://purl.org/sig/ont/fma/fma312401

LitCovid-PD-UBERON

Id Subject Object Predicate Lexical cue uberon_id
T30 272-278 Body_part denotes sputum http://purl.obolibrary.org/obo/UBERON_0007311
T31 504-509 Body_part denotes serum http://purl.obolibrary.org/obo/UBERON_0001977
T32 744-750 Body_part denotes sputum http://purl.obolibrary.org/obo/UBERON_0007311
T33 1402-1408 Body_part denotes sputum http://purl.obolibrary.org/obo/UBERON_0007311

LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
242 80-82 Chemical denotes GM MESH:C012990
243 517-519 Chemical denotes GM MESH:C012990
244 42-63 Disease denotes pulmonary infiltrates MESH:D017254
245 210-229 Disease denotes bacterial pneumonia MESH:D016920

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T101 210-229 Disease denotes bacterial pneumonia http://purl.obolibrary.org/obo/MONDO_0004652
T102 220-229 Disease denotes pneumonia http://purl.obolibrary.org/obo/MONDO_0005249

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T154 65-66 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T155 97-98 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T156 166-167 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T157 270-271 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T158 300-301 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T159 413-414 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T160 444-450 http://purl.obolibrary.org/obo/UBERON_0001005 denotes airway
T161 733-734 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T162 803-804 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T163 938-939 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T164 1170-1171 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T165 1343-1344 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T166 1358-1364 http://purl.obolibrary.org/obo/UBERON_0001005 denotes airway
T167 1412-1413 http://purl.obolibrary.org/obo/CLO_0001020 denotes a

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T164 76-79 Chemical denotes BAL http://purl.obolibrary.org/obo/CHEBI_64198
T165 80-82 Chemical denotes GM http://purl.obolibrary.org/obo/CHEBI_74120|http://purl.obolibrary.org/obo/CHEBI_27680
T167 513-516 Chemical denotes BAL http://purl.obolibrary.org/obo/CHEBI_64198
T168 517-519 Chemical denotes GM http://purl.obolibrary.org/obo/CHEBI_74120|http://purl.obolibrary.org/obo/CHEBI_27680
T170 523-526 Chemical denotes BAL http://purl.obolibrary.org/obo/CHEBI_64198

LitCovid-PD-GlycoEpitope

Id Subject Object Predicate Lexical cue glyco_epitope_db_id
T20 80-82 GlycoEpitope denotes GM http://www.glycoepitope.jp/epitopes/EP0510
T21 517-519 GlycoEpitope denotes GM http://www.glycoepitope.jp/epitopes/EP0510

LitCovid-PD-HP

Id Subject Object Predicate Lexical cue hp_id
T32 42-63 Phenotype denotes pulmonary infiltrates http://purl.obolibrary.org/obo/HP_0002113
T33 220-229 Phenotype denotes pneumonia http://purl.obolibrary.org/obo/HP_0002090

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T181 0-192 Sentence denotes In patients with endobronchial plaques or pulmonary infiltrates, a positive BAL GM or culture of a tracheal aspirate is considered mycological evidence that supports a probable IAPA diagnosis.
T182 193-348 Sentence denotes In patients with bacterial pneumonia where Aspergillus is cultured only from a sputum sample, there may be a risk of overdiagnosis and thus over-treatment.
T183 349-553 Sentence denotes For clinical practice, clinicians should take into account that a positive culture of an upper airway sample may indicate IAPA, but that confirmation with serum or BAL GM or BAL culture should be pursued.
T184 554-712 Sentence denotes However, one problem is that the background incidence varies in different regions, making it difficult to develop generalized guidelines that apply uniformly.
T185 713-819 Sentence denotes The significance of a positive sputum culture thus depends on the background incidence in a specific unit.
T186 820-1039 Sentence denotes Although any Aspergillus-positive respiratory sample is in itself insufficient to classify patients as probable IAPA, a new pulmonary cavitating infiltrate is indicative of IAPA in patients who meet the entry criterion.
T187 1040-1233 Sentence denotes Therefore, any Aspergillus-positive respiratory sample is sufficient evidence to classify patients as probable IAPA provided that a pulmonary cavitating infiltrate is present (Table 1; Fig. 1).
T188 1234-1480 Sentence denotes Fig. 1 Flowchart of probable IAPA classification. (*)If hyphae consistent with Aspergillus are documented in a biopsy of an airway lesion AND Aspergillus is grown from sputum or a tracheal aspirate, the case fulfills the definition of proven IAPA

LitCovid-PMC-OGER-BB

Id Subject Object Predicate Lexical cue
T208 17-30 UBERON:0001852 denotes endobronchial
T209 42-51 UBERON:0002048 denotes pulmonary
T210 99-107 UBERON:0003126 denotes tracheal
T211 210-219 NCBITaxon:2 denotes bacterial
T212 236-247 NCBITaxon:5052 denotes Aspergillus
T213 272-278 UBERON:0007311 denotes sputum
T214 438-443 UBERON:0004908 denotes upper
T215 444-450 UBERON:0001005 denotes airway
T216 504-509 UBERON:0001977 denotes serum
T217 744-750 UBERON:0007311 denotes sputum
T218 833-844 NCBITaxon:5052 denotes Aspergillus
T219 854-865 UBERON:0001004 denotes respiratory
T220 944-953 UBERON:0002048 denotes pulmonary
T221 1055-1066 NCBITaxon:5052 denotes Aspergillus
T222 1076-1087 UBERON:0001004 denotes respiratory
T223 1172-1181 UBERON:0002048 denotes pulmonary
T224 1358-1364 UBERON:0001005 denotes airway
T225 1391-1396 GO:0040007 denotes grown
T226 1402-1408 UBERON:0007311 denotes sputum
T227 1414-1422 UBERON:0003126 denotes tracheal
T198 1313-1324 NCBITaxon:5052 denotes Aspergillus