PMC:7306567 / 23800-25280
Annnotations
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 |