PMC:7340597 / 25705-27127
Annnotations
LitCovid_Glycan-Motif-Structure
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T23 | 1310-1323 | https://glytoucan.org/Structures/Glycans/G93424OB | denotes | galactomannan |
LitCovid-PD-FMA-UBERON
| Id | Subject | Object | Predicate | Lexical cue | fma_id |
|---|---|---|---|---|---|
| T140 | 760-764 | Body_part | denotes | lung | http://purl.org/sig/ont/fma/fma7195 |
| T141 | 787-795 | Body_part | denotes | alveolar | http://purl.org/sig/ont/fma/fma264783 |
| T142 | 845-853 | Body_part | denotes | cytokine | http://purl.org/sig/ont/fma/fma84050 |
| T143 | 891-904 | Body_part | denotes | T-lymphocytes | http://purl.org/sig/ont/fma/fma62870 |
| T144 | 925-930 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T145 | 964-968 | Body_part | denotes | lung | http://purl.org/sig/ont/fma/fma7195 |
| T146 | 969-975 | Body_part | denotes | tissue | http://purl.org/sig/ont/fma/fma9637 |
LitCovid-PD-UBERON
| Id | Subject | Object | Predicate | Lexical cue | uberon_id |
|---|---|---|---|---|---|
| T85 | 760-764 | Body_part | denotes | lung | http://purl.obolibrary.org/obo/UBERON_0002048 |
| T86 | 964-968 | Body_part | denotes | lung | http://purl.obolibrary.org/obo/UBERON_0002048 |
| T87 | 969-975 | Body_part | denotes | tissue | http://purl.obolibrary.org/obo/UBERON_0000479 |
LitCovid-PubTator
| Id | Subject | Object | Predicate | Lexical cue | tao:has_database_id |
|---|---|---|---|---|---|
| 605 | 905-908 | Gene | denotes | CD4 | Gene:920 |
| 606 | 917-920 | Gene | denotes | CD8 | Gene:925 |
| 607 | 99-107 | Species | denotes | patients | Tax:9606 |
| 608 | 437-445 | Species | denotes | patients | Tax:9606 |
| 609 | 1162-1170 | Species | denotes | patients | Tax:9606 |
| 610 | 193-200 | Chemical | denotes | steroid | MESH:D013256 |
| 611 | 1310-1323 | Chemical | denotes | galactomannan | MESH:C012990 |
| 612 | 70-89 | Disease | denotes | secondary infection | MESH:D060085 |
| 613 | 93-98 | Disease | denotes | COVID | MESH:C000657245 |
| 614 | 113-146 | Disease | denotes | invasive aspergillus co-infection | MESH:D060085 |
| 615 | 240-272 | Disease | denotes | invasive pulmonary aspergillosis | MESH:D055744 |
| 616 | 388-397 | Disease | denotes | pneumonia | MESH:D011014 |
| 617 | 483-502 | Disease | denotes | respiratory failure | MESH:D012131 |
| 618 | 513-522 | Disease | denotes | mortality | MESH:D003643 |
| 619 | 538-546 | Disease | denotes | COVID-19 | MESH:C000657245 |
| 620 | 558-581 | Disease | denotes | pulmonary aspergillosis | MESH:D055732 |
| 621 | 760-771 | Disease | denotes | lung damage | MESH:D008171 |
| 622 | 937-956 | Disease | denotes | Secondary infection | MESH:D060085 |
| 623 | 1153-1161 | Disease | denotes | COVID-19 | MESH:C000657245 |
| 624 | 1223-1231 | Disease | denotes | COVID-19 | MESH:C000657245 |
| 625 | 1243-1266 | Disease | denotes | pulmonary aspergillosis | MESH:D055732 |
LitCovid-PD-MONDO
| Id | Subject | Object | Predicate | Lexical cue | mondo_id |
|---|---|---|---|---|---|
| T226 | 80-89 | Disease | denotes | infection | http://purl.obolibrary.org/obo/MONDO_0005550 |
| T227 | 137-146 | Disease | denotes | infection | http://purl.obolibrary.org/obo/MONDO_0005550 |
| T228 | 259-272 | Disease | denotes | aspergillosis | http://purl.obolibrary.org/obo/MONDO_0005657 |
| T229 | 378-387 | Disease | denotes | influenza | http://purl.obolibrary.org/obo/MONDO_0005812 |
| T230 | 388-397 | Disease | denotes | pneumonia | http://purl.obolibrary.org/obo/MONDO_0005249 |
| T231 | 459-468 | Disease | denotes | influenza | http://purl.obolibrary.org/obo/MONDO_0005812 |
| T232 | 477-502 | Disease | denotes | acute respiratory failure | http://purl.obolibrary.org/obo/MONDO_0001208|http://purl.obolibrary.org/obo/MONDO_0021113 |
| T234 | 538-546 | Disease | denotes | COVID-19 | http://purl.obolibrary.org/obo/MONDO_0100096 |
| T235 | 568-581 | Disease | denotes | aspergillosis | http://purl.obolibrary.org/obo/MONDO_0005657 |
| T236 | 583-587 | Disease | denotes | CAPA | http://purl.obolibrary.org/obo/MONDO_0007163 |
| T237 | 713-717 | Disease | denotes | CAPA | http://purl.obolibrary.org/obo/MONDO_0007163 |
| T238 | 743-747 | Disease | denotes | CAPA | http://purl.obolibrary.org/obo/MONDO_0007163 |
| T239 | 947-956 | Disease | denotes | infection | http://purl.obolibrary.org/obo/MONDO_0005550 |
| T240 | 1024-1028 | Disease | denotes | CAPA | http://purl.obolibrary.org/obo/MONDO_0007163 |
| T241 | 1153-1161 | Disease | denotes | COVID-19 | http://purl.obolibrary.org/obo/MONDO_0100096 |
| T242 | 1223-1231 | Disease | denotes | COVID-19 | http://purl.obolibrary.org/obo/MONDO_0100096 |
| T243 | 1253-1266 | Disease | denotes | aspergillosis | http://purl.obolibrary.org/obo/MONDO_0005657 |
| T244 | 1268-1272 | Disease | denotes | CAPA | http://purl.obolibrary.org/obo/MONDO_0007163 |
| T245 | 1417-1421 | Disease | denotes | CAPA | http://purl.obolibrary.org/obo/MONDO_0007163 |
LitCovid-PD-CLO
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T233 | 148-149 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T234 | 342-343 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T235 | 659-660 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T236 | 760-764 | http://purl.obolibrary.org/obo/UBERON_0002048 | denotes | lung |
| T237 | 760-764 | http://www.ebi.ac.uk/efo/EFO_0000934 | denotes | lung |
| T238 | 905-908 | http://purl.obolibrary.org/obo/PR_000001004 | denotes | CD4 |
| T239 | 917-920 | http://purl.obolibrary.org/obo/CLO_0053438 | denotes | CD8 |
| T240 | 923-930 | http://purl.obolibrary.org/obo/CL_0000084 | denotes | T cells |
| T241 | 932-934 | http://purl.obolibrary.org/obo/CLO_0050509 | denotes | 27 |
| T242 | 964-968 | http://purl.obolibrary.org/obo/UBERON_0002048 | denotes | lung |
| T243 | 964-968 | http://www.ebi.ac.uk/efo/EFO_0000934 | denotes | lung |
| T244 | 998-999 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T245 | 1019-1021 | http://purl.obolibrary.org/obo/CLO_0001302 | denotes | 34 |
LitCovid-PD-CHEBI
| Id | Subject | Object | Predicate | Lexical cue | chebi_id |
|---|---|---|---|---|---|
| T124 | 193-200 | Chemical | denotes | steroid | http://purl.obolibrary.org/obo/CHEBI_35341 |
| T125 | 1300-1303 | Chemical | denotes | BAL | http://purl.obolibrary.org/obo/CHEBI_64198 |
| T126 | 1310-1323 | Chemical | denotes | galactomannan | http://purl.obolibrary.org/obo/CHEBI_27680 |
LitCovid-PD-HP
| Id | Subject | Object | Predicate | Lexical cue | hp_id |
|---|---|---|---|---|---|
| T64 | 240-272 | Phenotype | denotes | invasive pulmonary aspergillosis | http://purl.obolibrary.org/obo/HP_0020103 |
| T65 | 388-397 | Phenotype | denotes | pneumonia | http://purl.obolibrary.org/obo/HP_0002090 |
| T66 | 483-502 | Phenotype | denotes | respiratory failure | http://purl.obolibrary.org/obo/HP_0002878 |
| T67 | 845-859 | Phenotype | denotes | cytokine storm | http://purl.obolibrary.org/obo/HP_0033041 |
LitCovid-PD-GO-BP
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T11 | 823-840 | http://purl.obolibrary.org/obo/GO_0019079 | denotes | viral replication |
| T12 | 823-840 | http://purl.obolibrary.org/obo/GO_0019058 | denotes | viral replication |
LitCovid-PD-GlycoEpitope
| Id | Subject | Object | Predicate | Lexical cue | glyco_epitope_db_id |
|---|---|---|---|---|---|
| T21 | 1310-1323 | GlycoEpitope | denotes | galactomannan | http://www.glycoepitope.jp/epitopes/EP0510 |
LitCovid-sentences
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T213 | 0-209 | Sentence | denotes | Recently there is increasing awareness and concern for development of secondary infection in COVID patients e.g. invasive aspergillus co-infection, a contra-indication for (long-term) systemic steroid therapy. |
| T214 | 210-323 | Sentence | denotes | Criteria and risk factors for invasive pulmonary aspergillosis are well defined in immunocompromised populations. |
| T215 | 324-534 | Sentence | denotes | Furthermore it is a well known complication of severe influenza pneumonia with reported incidences of 19% in ICU patients admitted for influenza related acute respiratory failure with high mortality rates [33]. |
| T216 | 535-723 | Sentence | denotes | In COVID-19 associated pulmonary aspergillosis (CAPA) case definition is absent, although recently an expert panel proposed a classification for IAPA, which was used to classify CAPA [14]. |
| T217 | 724-936 | Sentence | denotes | Pathophysiology of CAPA consists of lung damage with bilateral alveolar-interstitial damage due to viral replication and cytokine storm in combination with marked low T-lymphocytes CD4 + T and CD8 + T cells [27]. |
| T218 | 937-1023 | Sentence | denotes | Secondary infection due to lung tissue damage develop within a median of 17 days [34]. |
| T219 | 1024-1136 | Sentence | denotes | CAPA data are scarce but increasingly reported, although histological confirmation is still absent [9,13,35,36]. |
| T220 | 1137-1278 | Sentence | denotes | Of the first 31 COVID-19 patients admitted to our ICU, six where highly suspected for COVID-19 associated pulmonary aspergillosis (CAPA) [9]. |
| T221 | 1279-1422 | Sentence | denotes | In this case series, BAL fluid galactomannan was positive in six out of the seven cases, concluding in the clinical diagnosis of probable CAPA. |
LitCovid-PMC-OGER-BB
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T401 | 193-200 | CHEBI:35341;CHEBI:35341 | denotes | steroid |
| T402 | 249-258 | UBERON:0002048 | denotes | pulmonary |
| T403 | 483-494 | UBERON:0001004 | denotes | respiratory |
| T404 | 538-546 | SP_7 | denotes | COVID-19 |
| T405 | 558-567 | UBERON:0002048 | denotes | pulmonary |
| T406 | 760-764 | UBERON:0002048 | denotes | lung |
| T407 | 787-795 | UBERON:0003215 | denotes | alveolar |
| T408 | 796-808 | UBERON:0005169 | denotes | interstitial |
| T409 | 823-828 | NCBITaxon:10239;GO:0006260 | denotes | viral |
| T410 | 829-840 | GO:0006260 | denotes | replication |
| T411 | 891-904 | CL:0000084 | denotes | T-lymphocytes |
| T412 | 905-908 | PR:000001004 | denotes | CD4 |
| T413 | 911-912 | CL:0000084 | denotes | T |
| T414 | 923-930 | CL:0000084 | denotes | T cells |
| T415 | 964-968 | UBERON:0002048 | denotes | lung |
| T416 | 969-975 | UBERON:0000479 | denotes | tissue |
| T417 | 1153-1161 | SP_7 | denotes | COVID-19 |
| T418 | 1223-1231 | SP_7 | denotes | COVID-19 |
| T419 | 1243-1252 | UBERON:0002048 | denotes | pulmonary |
| T420 | 1304-1309 | UBERON:0006314 | denotes | fluid |
| T421 | 1310-1323 | CHEBI:27680;CHEBI:27680 | denotes | galactomannan |
| T50661 | 193-200 | CHEBI:35341;CHEBI:35341 | denotes | steroid |
| T1274 | 249-258 | UBERON:0002048 | denotes | pulmonary |
| T20843 | 483-494 | UBERON:0001004 | denotes | respiratory |
| T97014 | 538-546 | SP_7 | denotes | COVID-19 |
| T17239 | 558-567 | UBERON:0002048 | denotes | pulmonary |
| T71303 | 760-764 | UBERON:0002048 | denotes | lung |
| T6825 | 787-795 | UBERON:0003215 | denotes | alveolar |
| T25322 | 796-808 | UBERON:0005169 | denotes | interstitial |
| T67396 | 823-828 | NCBITaxon:10239;GO:0006260 | denotes | viral |
| T64030 | 829-840 | GO:0006260 | denotes | replication |
| T44953 | 891-904 | CL:0000084 | denotes | T-lymphocytes |
| T10487 | 905-908 | PR:000001004 | denotes | CD4 |
| T16256 | 911-912 | CL:0000084 | denotes | T |
| T88507 | 923-930 | CL:0000084 | denotes | T cells |
| T44754 | 964-968 | UBERON:0002048 | denotes | lung |
| T6142 | 969-975 | UBERON:0000479 | denotes | tissue |
| T56681 | 1153-1161 | SP_7 | denotes | COVID-19 |
| T69906 | 1223-1231 | SP_7 | denotes | COVID-19 |
| T31928 | 1243-1252 | UBERON:0002048 | denotes | pulmonary |
| T12557 | 1304-1309 | UBERON:0006314 | denotes | fluid |
| T71459 | 1310-1323 | CHEBI:27680;CHEBI:27680 | denotes | galactomannan |
2_test
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| 32674001-30076119-58631480 | 530-532 | 30076119 | denotes | 33 |
| 32674001-32192578-58631481 | 932-934 | 32192578 | denotes | 27 |
| 32674001-32171076-58631482 | 1019-1021 | 32171076 | denotes | 34 |
| 32674001-32339350-58631483 | 1129-1131 | 32339350 | denotes | 35 |