PMC:7646269 / 5463-7045
Annnotations
LitCovid_Glycan-Motif-Structure
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T3 | 1101-1114 | https://glytoucan.org/Structures/Glycans/G93424OB | denotes | galactomannan |
LitCovid-PD-FMA-UBERON
| Id | Subject | Object | Predicate | Lexical cue | fma_id |
|---|---|---|---|---|---|
| T5 | 174-189 | Body_part | denotes | Coronary artery | http://purl.org/sig/ont/fma/fma49893 |
| T6 | 673-678 | Body_part | denotes | chest | http://purl.org/sig/ont/fma/fma9576 |
| T7 | 819-835 | Body_part | denotes | White blood cell | http://purl.org/sig/ont/fma/fma62852 |
| T8 | 831-835 | Body_part | denotes | cell | http://purl.org/sig/ont/fma/fma68646 |
| T9 | 875-883 | Body_part | denotes | Platelet | http://purl.org/sig/ont/fma/fma62851 |
| T10 | 1050-1055 | Body_part | denotes | Serum | http://purl.org/sig/ont/fma/fma63083 |
| T11 | 1095-1100 | Body_part | denotes | Serum | http://purl.org/sig/ont/fma/fma63083 |
LitCovid-PD-UBERON
| Id | Subject | Object | Predicate | Lexical cue | uberon_id |
|---|---|---|---|---|---|
| T5 | 174-189 | Body_part | denotes | Coronary artery | http://purl.obolibrary.org/obo/UBERON_0001621 |
| T6 | 183-189 | Body_part | denotes | artery | http://purl.obolibrary.org/obo/UBERON_0001637 |
| T7 | 673-678 | Body_part | denotes | chest | http://purl.obolibrary.org/obo/UBERON_0001443 |
| T8 | 825-830 | Body_part | denotes | blood | http://purl.obolibrary.org/obo/UBERON_0000178 |
| T9 | 1050-1055 | Body_part | denotes | Serum | http://purl.obolibrary.org/obo/UBERON_0001977 |
| T10 | 1095-1100 | Body_part | denotes | Serum | http://purl.obolibrary.org/obo/UBERON_0001977 |
LitCovid-PD-MONDO
| Id | Subject | Object | Predicate | Lexical cue | mondo_id |
|---|---|---|---|---|---|
| T37 | 118-130 | Disease | denotes | Hypertension | http://purl.obolibrary.org/obo/MONDO_0005044 |
| T38 | 148-156 | Disease | denotes | Diabetes | http://purl.obolibrary.org/obo/MONDO_0005015 |
| T39 | 174-197 | Disease | denotes | Coronary artery disease | http://purl.obolibrary.org/obo/MONDO_0005010 |
| T40 | 183-197 | Disease | denotes | artery disease | http://purl.obolibrary.org/obo/MONDO_0000473 |
| T41 | 215-252 | Disease | denotes | Chronic obstructive pulmonary disease | http://purl.obolibrary.org/obo/MONDO_0005002 |
| T42 | 235-252 | Disease | denotes | pulmonary disease | http://purl.obolibrary.org/obo/MONDO_0005275 |
| T43 | 281-305 | Disease | denotes | cerebrovascular accident | http://purl.obolibrary.org/obo/MONDO_0005098|http://purl.obolibrary.org/obo/MONDO_0011057|http://purl.obolibrary.org/obo/MONDO_0020671 |
| T46 | 334-340 | Disease | denotes | cancer | http://purl.obolibrary.org/obo/MONDO_0004992 |
| T47 | 359-367 | Disease | denotes | Dementia | http://purl.obolibrary.org/obo/MONDO_0001627 |
| T48 | 761-770 | Disease | denotes | pneumonia | http://purl.obolibrary.org/obo/MONDO_0005249 |
LitCovid-PD-CLO
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T25 | 75-79 | http://purl.obolibrary.org/obo/UBERON_0003101 | denotes | Male |
| T26 | 75-79 | http://www.ebi.ac.uk/efo/EFO_0000970 | denotes | Male |
| T27 | 81-85 | http://purl.obolibrary.org/obo/UBERON_0003101 | denotes | Male |
| T28 | 81-85 | http://www.ebi.ac.uk/efo/EFO_0000970 | denotes | Male |
| T29 | 87-91 | http://purl.obolibrary.org/obo/UBERON_0003101 | denotes | Male |
| T30 | 87-91 | http://www.ebi.ac.uk/efo/EFO_0000970 | denotes | Male |
| T31 | 93-97 | http://purl.obolibrary.org/obo/UBERON_0003101 | denotes | Male |
| T32 | 93-97 | http://www.ebi.ac.uk/efo/EFO_0000970 | denotes | Male |
| T33 | 183-189 | http://purl.obolibrary.org/obo/UBERON_0001637 | denotes | artery |
| T34 | 183-189 | http://www.ebi.ac.uk/efo/EFO_0000814 | denotes | artery |
| T35 | 673-678 | http://www.ebi.ac.uk/efo/EFO_0000965 | denotes | chest |
| T36 | 825-830 | http://www.ebi.ac.uk/efo/EFO_0000296 | denotes | blood |
| T37 | 831-835 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cell |
LitCovid-PD-CHEBI
| Id | Subject | Object | Predicate | Lexical cue | chebi_id |
|---|---|---|---|---|---|
| T31 | 965-976 | Chemical | denotes | Lactic acid | http://purl.obolibrary.org/obo/CHEBI_28358|http://purl.obolibrary.org/obo/CHEBI_78320 |
| T33 | 972-976 | Chemical | denotes | acid | http://purl.obolibrary.org/obo/CHEBI_37527 |
| T34 | 1012-1021 | Chemical | denotes | bilirubin | http://purl.obolibrary.org/obo/CHEBI_16990 |
| T35 | 1056-1066 | Chemical | denotes | creatinine | http://purl.obolibrary.org/obo/CHEBI_16737 |
| T36 | 1101-1114 | Chemical | denotes | galactomannan | http://purl.obolibrary.org/obo/CHEBI_27680 |
| T37 | 1116-1118 | Chemical | denotes | NA | http://purl.obolibrary.org/obo/CHEBI_33696 |
| T38 | 1242-1252 | Chemical | denotes | prednisone | http://purl.obolibrary.org/obo/CHEBI_8382 |
| T39 | 1417-1425 | Chemical | denotes | Cefepime | http://purl.obolibrary.org/obo/CHEBI_478164 |
| T40 | 1428-1438 | Chemical | denotes | Vancomycin | http://purl.obolibrary.org/obo/CHEBI_28001 |
| T41 | 1440-1448 | Chemical | denotes | Cefepime | http://purl.obolibrary.org/obo/CHEBI_478164 |
| T42 | 1451-1461 | Chemical | denotes | Vancomycin | http://purl.obolibrary.org/obo/CHEBI_28001 |
| T43 | 1463-1472 | Chemical | denotes | Meropenem | http://purl.obolibrary.org/obo/CHEBI_43968 |
| T44 | 1475-1485 | Chemical | denotes | Vancomycin | http://purl.obolibrary.org/obo/CHEBI_28001 |
| T45 | 1487-1495 | Chemical | denotes | Cefepime | http://purl.obolibrary.org/obo/CHEBI_478164 |
| T46 | 1498-1508 | Chemical | denotes | Vancomycin | http://purl.obolibrary.org/obo/CHEBI_28001 |
| T47 | 1571-1582 | Chemical | denotes | Caspofungin | http://purl.obolibrary.org/obo/CHEBI_474180 |
LitCovid-PD-GlycoEpitope
| Id | Subject | Object | Predicate | Lexical cue | glyco_epitope_db_id |
|---|---|---|---|---|---|
| T3 | 1101-1114 | GlycoEpitope | denotes | galactomannan | http://www.glycoepitope.jp/epitopes/EP0510 |
LitCovid-PD-HP
| Id | Subject | Object | Predicate | Lexical cue | hp_id |
|---|---|---|---|---|---|
| T29 | 118-130 | Phenotype | denotes | Hypertension | http://purl.obolibrary.org/obo/HP_0000822 |
| T30 | 215-252 | Phenotype | denotes | Chronic obstructive pulmonary disease | http://purl.obolibrary.org/obo/HP_0006510 |
| T31 | 281-305 | Phenotype | denotes | cerebrovascular accident | http://purl.obolibrary.org/obo/HP_0001297 |
| T32 | 334-340 | Phenotype | denotes | cancer | http://purl.obolibrary.org/obo/HP_0002664 |
| T33 | 359-367 | Phenotype | denotes | Dementia | http://purl.obolibrary.org/obo/HP_0000726 |
| T34 | 552-557 | Phenotype | denotes | Fever | http://purl.obolibrary.org/obo/HP_0001945 |
| T35 | 761-770 | Phenotype | denotes | pneumonia | http://purl.obolibrary.org/obo/HP_0002090 |
LitCovid-sentences
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T57 | 0-42 | Sentence | denotes | Patient 1 Patient 2 Patient 3 Patient 4 |
| T58 | 43-66 | Sentence | denotes | Age (y) 82 79 77 77 |
| T59 | 67-97 | Sentence | denotes | Gender Male Male Male Male |
| T60 | 98-117 | Sentence | denotes | Comorbid conditions |
| T61 | 118-147 | Sentence | denotes | Hypertension No Yes No No |
| T62 | 148-173 | Sentence | denotes | Diabetes No No No Yes |
| T63 | 174-214 | Sentence | denotes | Coronary artery disease No Yes No No |
| T64 | 215-269 | Sentence | denotes | Chronic obstructive pulmonary disease Yes No No No |
| T65 | 270-322 | Sentence | denotes | History of cerebrovascular accident No Yes No No |
| T66 | 323-358 | Sentence | denotes | History of cancer Yes Yes No No |
| T67 | 359-383 | Sentence | denotes | Dementia No No No No |
| T68 | 384-508 | Sentence | denotes | Timing of positive culture for Aspergillus fumigatus (hospital day) Day 15 and 20 Day 7, 10, and 16 Day 10 and 14 Day 10 |
| T69 | 509-551 | Sentence | denotes | Clinical features at Aspergillus isolation |
| T70 | 552-574 | Sentence | denotes | Fever No No Yes No |
| T71 | 575-638 | Sentence | denotes | Respiratory status at Aspergillus isolation IMV IMV IMV IMV |
| T72 | 639-818 | Sentence | denotes | New radiographic abnormalities on chest CT or X‐ray Worsening infiltrates Opacities with dense consolidations Cavitary pneumonia Diffuse interstitial and patchy hazy opacities |
| T73 | 819-874 | Sentence | denotes | White blood cell count (103/μL) 32.9 21.1 20.1 20.2 |
| T74 | 875-918 | Sentence | denotes | Platelet count (103/μL) 376 146 420 123 |
| T75 | 919-964 | Sentence | denotes | Procalcitonin (ng/mL) 0.16 0.30 3.30 9.34 |
| T76 | 965-1005 | Sentence | denotes | Lactic acid (mmol/L) 1.0 3.6 1.6 3.7 |
| T77 | 1006-1049 | Sentence | denotes | Total bilirubin (mg/dL) 2.4 1.1 1.4 2.9 |
| T78 | 1050-1094 | Sentence | denotes | Serum creatinine (mg/dL) 2.6 3.1 1.5 4.1 |
| T79 | 1095-1144 | Sentence | denotes | Serum galactomannan NA 0.71 Negative Negative |
| T80 | 1145-1184 | Sentence | denotes | Vasopressor support Yes Yes Yes Yes |
| T81 | 1185-1206 | Sentence | denotes | Inpatient medications |
| T82 | 1207-1222 | Sentence | denotes | Glucocorticoids |
| T83 | 1223-1288 | Sentence | denotes | Cumulative dose in prednisone equivalent (mg) 932 1000 870 87 |
| T84 | 1289-1346 | Sentence | denotes | Starting date (hospital day) Day 8 Day 2 Day 2 Day 10 |
| T85 | 1347-1374 | Sentence | denotes | Duration (d) 10 10 12 3 |
| T86 | 1375-1403 | Sentence | denotes | Tocilizumab No Yes No No |
| T87 | 1404-1508 | Sentence | denotes | Antibiotics Cefepime + Vancomycin Cefepime + Vancomycin Meropenem + Vancomycin Cefepime + Vancomycin |
| T88 | 1509-1582 | Sentence | denotes | Antifungal therapy Voriconazole Voriconazole Voriconazole Caspofungin |
LitCovid-PubTator
| Id | Subject | Object | Predicate | Lexical cue | tao:has_database_id |
|---|---|---|---|---|---|
| 215 | 415-436 | Species | denotes | Aspergillus fumigatus | Tax:746128 |
| 216 | 530-541 | Species | denotes | Aspergillus | Tax:746128 |
| 217 | 597-608 | Species | denotes | Aspergillus | Tax:746128 |
| 218 | 1056-1066 | Chemical | denotes | creatinine | MESH:D003404 |
| 219 | 1242-1252 | Chemical | denotes | prednisone | MESH:D011241 |
| 220 | 1375-1386 | Chemical | denotes | Tocilizumab | MESH:C502936 |
| 221 | 1417-1425 | Chemical | denotes | Cefepime | MESH:D000077723 |
| 222 | 1428-1438 | Chemical | denotes | Vancomycin | MESH:D014640 |
| 223 | 1440-1448 | Chemical | denotes | Cefepime | MESH:D000077723 |
| 224 | 1451-1461 | Chemical | denotes | Vancomycin | MESH:D014640 |
| 225 | 1463-1472 | Chemical | denotes | Meropenem | MESH:D000077731 |
| 226 | 1475-1485 | Chemical | denotes | Vancomycin | MESH:D014640 |
| 227 | 1487-1495 | Chemical | denotes | Cefepime | MESH:D000077723 |
| 228 | 1498-1508 | Chemical | denotes | Vancomycin | MESH:D014640 |
| 229 | 1529-1541 | Chemical | denotes | Voriconazole | MESH:D065819 |
| 230 | 1543-1555 | Chemical | denotes | Voriconazole | MESH:D065819 |
| 231 | 1557-1569 | Chemical | denotes | Voriconazole | MESH:D065819 |
| 232 | 118-130 | Disease | denotes | Hypertension | MESH:D006973 |
| 233 | 148-156 | Disease | denotes | Diabetes | MESH:D003920 |
| 234 | 174-197 | Disease | denotes | Coronary artery disease | MESH:D003324 |
| 235 | 215-252 | Disease | denotes | Chronic obstructive pulmonary disease | MESH:D029424 |
| 236 | 281-305 | Disease | denotes | cerebrovascular accident | MESH:D020521 |
| 237 | 334-340 | Disease | denotes | cancer | MESH:D009369 |
| 238 | 552-557 | Disease | denotes | Fever | MESH:D005334 |
| 239 | 761-770 | Disease | denotes | pneumonia | MESH:D011014 |