PMC:7200337 / 13704-15434
Annnotations
LitCovid-PD-FMA-UBERON
| Id | Subject | Object | Predicate | Lexical cue | fma_id |
|---|---|---|---|---|---|
| T93377 | 65-99 | Body_part | denotes | peripheral blood mononuclear cells | http://purl.org/sig/ont/fma/fma86713 |
| T49574 | 94-99 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T53773 | 178-189 | Body_part | denotes | granulocyte | http://purl.org/sig/ont/fma/fma62854 |
| T29850 | 190-200 | Body_part | denotes | macrophage | http://purl.org/sig/ont/fma/fma63261 |
| T58554 | 231-234 | Body_part | denotes | CSF | http://purl.org/sig/ont/fma/fma20935 |
| T62019 | 264-269 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T46660 | 279-282 | Body_part | denotes | HLA | http://purl.org/sig/ont/fma/fma84795 |
| T69621 | 301-310 | Body_part | denotes | monocytes | http://purl.org/sig/ont/fma/fma62864 |
| T58770 | 417-421 | Body_part | denotes | cell | http://purl.org/sig/ont/fma/fma68646 |
| T63962 | 473-477 | Body_part | denotes | IL-1 | http://purl.org/sig/ont/fma/fma86583 |
| T51981 | 480-489 | Body_part | denotes | monocytic | http://purl.org/sig/ont/fma/fma62864 |
| T80984 | 567-574 | Body_part | denotes | protein | http://purl.org/sig/ont/fma/fma67257 |
| T53661 | 649-653 | Body_part | denotes | IL-1 | http://purl.org/sig/ont/fma/fma86583 |
| T33309 | 723-728 | Body_part | denotes | blood | http://purl.org/sig/ont/fma/fma9670 |
| T65535 | 779-783 | Body_part | denotes | IL-1 | http://purl.org/sig/ont/fma/fma86583 |
| T65 | 964-971 | Body_part | denotes | tissues | http://purl.org/sig/ont/fma/fma9637 |
| T66 | 1062-1070 | Body_part | denotes | monocyte | http://purl.org/sig/ont/fma/fma62864 |
| T67 | 1079-1090 | Body_part | denotes | macrophages | http://purl.org/sig/ont/fma/fma63261 |
| T68 | 1109-1115 | Body_part | denotes | tissue | http://purl.org/sig/ont/fma/fma9637 |
| T69 | 1136-1156 | Body_part | denotes | alveolar macrophages | http://purl.org/sig/ont/fma/fma83023 |
| T70 | 1255-1263 | Body_part | denotes | monocyte | http://purl.org/sig/ont/fma/fma62864 |
| T71 | 1323-1331 | Body_part | denotes | alveolar | http://purl.org/sig/ont/fma/fma264783 |
| T72 | 1427-1448 | Body_part | denotes | mononuclear phagocyte | http://purl.org/sig/ont/fma/fma273563 |
| T73 | 1450-1453 | Body_part | denotes | MNP | http://purl.org/sig/ont/fma/fma273563 |
| T74 | 1560-1565 | Body_part | denotes | organ | http://purl.org/sig/ont/fma/fma67498 |
| T75 | 1585-1590 | Body_part | denotes | ileum | http://purl.org/sig/ont/fma/fma7208 |
| T76 | 1595-1602 | Body_part | denotes | kidneys | http://purl.org/sig/ont/fma/fma7203 |
| T77 | 1644-1657 | Body_part | denotes | myeloid cells | http://purl.org/sig/ont/fma/fma70339 |
| T78 | 1652-1657 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T79 | 1661-1667 | Body_part | denotes | tissue | http://purl.org/sig/ont/fma/fma9637 |
LitCovid-PD-UBERON
| Id | Subject | Object | Predicate | Lexical cue | uberon_id |
|---|---|---|---|---|---|
| T2 | 76-81 | Body_part | denotes | blood | http://purl.obolibrary.org/obo/UBERON_0000178 |
| T3 | 723-728 | Body_part | denotes | blood | http://purl.obolibrary.org/obo/UBERON_0000178 |
| T4 | 1109-1115 | Body_part | denotes | tissue | http://purl.obolibrary.org/obo/UBERON_0000479 |
| T5 | 1560-1565 | Body_part | denotes | organ | http://purl.obolibrary.org/obo/UBERON_0000062 |
| T6 | 1585-1590 | Body_part | denotes | ileum | http://purl.obolibrary.org/obo/UBERON_0002116 |
| T7 | 1661-1667 | Body_part | denotes | tissue | http://purl.obolibrary.org/obo/UBERON_0000479 |
LitCovid-PD-MONDO
| Id | Subject | Object | Predicate | Lexical cue | mondo_id |
|---|---|---|---|---|---|
| T93 | 28-36 | Disease | denotes | COVID-19 | http://purl.obolibrary.org/obo/MONDO_0100096 |
| T94 | 125-133 | Disease | denotes | COVID-19 | http://purl.obolibrary.org/obo/MONDO_0100096 |
| T95 | 732-740 | Disease | denotes | COVID-19 | http://purl.obolibrary.org/obo/MONDO_0100096 |
| T96 | 996-1004 | Disease | denotes | COVID-19 | http://purl.obolibrary.org/obo/MONDO_0100096 |
| T97 | 1352-1356 | Disease | denotes | ARDS | http://purl.obolibrary.org/obo/MONDO_0006502 |
| T98 | 1506-1514 | Disease | denotes | COVID-19 | http://purl.obolibrary.org/obo/MONDO_0100096 |
| T99 | 1703-1711 | Disease | denotes | COVID-19 | http://purl.obolibrary.org/obo/MONDO_0100096 |
LitCovid-PD-CLO
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T9046 | 65-99 | http://purl.obolibrary.org/obo/CL_0000842 | denotes | peripheral blood mononuclear cells |
| T36496 | 65-99 | http://purl.obolibrary.org/obo/CL_2000001 | denotes | peripheral blood mononuclear cells |
| T53109 | 154-155 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T80797 | 247-256 | http://purl.obolibrary.org/obo/CLO_0001658 | denotes | activated |
| T22406 | 257-260 | http://purl.obolibrary.org/obo/PR_000001004 | denotes | CD4 |
| T68231 | 262-269 | http://purl.obolibrary.org/obo/CL_0000084 | denotes | T cells |
| T30982 | 301-310 | http://purl.obolibrary.org/obo/CL_0000576 | denotes | monocytes |
| T77719 | 417-421 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cell |
| T84486 | 480-489 | http://purl.obolibrary.org/obo/CL_0000576 | denotes | monocytic |
| T622 | 557-566 | http://purl.obolibrary.org/obo/CLO_0001658 | denotes | activated |
| T4606 | 723-728 | http://purl.obolibrary.org/obo/UBERON_0000178 | denotes | blood |
| T52480 | 723-728 | http://www.ebi.ac.uk/efo/EFO_0000296 | denotes | blood |
| T71894 | 817-820 | http://purl.obolibrary.org/obo/CLO_0002742 | denotes | Del |
| T47578 | 1062-1070 | http://purl.obolibrary.org/obo/CL_0000576 | denotes | monocyte |
| T10141 | 1241-1250 | http://purl.obolibrary.org/obo/SO_0000418 | denotes | signaling |
| T70571 | 1255-1263 | http://purl.obolibrary.org/obo/CL_0000576 | denotes | monocyte |
| T7887 | 1388-1393 | http://purl.obolibrary.org/obo/CLO_0009985 | denotes | focus |
| T231 | 1394-1397 | http://purl.obolibrary.org/obo/CLO_0051582 | denotes | has |
| T29743 | 1427-1448 | http://purl.obolibrary.org/obo/CL_0000113 | denotes | mononuclear phagocyte |
| T20551 | 1560-1565 | http://purl.obolibrary.org/obo/UBERON_0003103 | denotes | organ |
| T37126 | 1585-1590 | http://purl.obolibrary.org/obo/UBERON_0002116 | denotes | ileum |
| T95433 | 1595-1602 | http://purl.obolibrary.org/obo/UBERON_0002113 | denotes | kidneys |
| T50434 | 1595-1602 | http://www.ebi.ac.uk/efo/EFO_0000927 | denotes | kidneys |
| T760 | 1595-1602 | http://www.ebi.ac.uk/efo/EFO_0000929 | denotes | kidneys |
| T65167 | 1652-1657 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
LitCovid-PD-CHEBI
| Id | Subject | Object | Predicate | Lexical cue | chebi_id |
|---|---|---|---|---|---|
| T59 | 228-230 | Chemical | denotes | GM | http://purl.obolibrary.org/obo/CHEBI_74120 |
| T60 | 473-475 | Chemical | denotes | IL | http://purl.obolibrary.org/obo/CHEBI_63895|http://purl.obolibrary.org/obo/CHEBI_74072 |
| T62 | 501-504 | Chemical | denotes | Guo | http://purl.obolibrary.org/obo/CHEBI_16750 |
| T63 | 538-548 | Chemical | denotes | interferon | http://purl.obolibrary.org/obo/CHEBI_52999 |
| T64 | 549-556 | Chemical | denotes | mitogen | http://purl.obolibrary.org/obo/CHEBI_52290 |
| T65 | 567-574 | Chemical | denotes | protein | http://purl.obolibrary.org/obo/CHEBI_36080 |
| T66 | 649-651 | Chemical | denotes | IL | http://purl.obolibrary.org/obo/CHEBI_63895|http://purl.obolibrary.org/obo/CHEBI_74072 |
| T68 | 779-781 | Chemical | denotes | IL | http://purl.obolibrary.org/obo/CHEBI_63895|http://purl.obolibrary.org/obo/CHEBI_74072 |
| T70 | 1450-1453 | Chemical | denotes | MNP | http://purl.obolibrary.org/obo/CHEBI_139554 |
LitCovid-PD-GO-BP
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T68 | 583-587 | http://purl.obolibrary.org/obo/GO_0004707 | denotes | MAPK |
| T69 | 596-621 | http://purl.obolibrary.org/obo/GO_0002250 | denotes | adaptive immune responses |
| T70 | 1241-1250 | http://purl.obolibrary.org/obo/GO_0023052 | denotes | signaling |
LitCovid-PubTator
| Id | Subject | Object | Predicate | Lexical cue | tao:has_database_id |
|---|---|---|---|---|---|
| 451 | 28-36 | Disease | denotes | COVID-19 | MESH:C000657245 |
| 469 | 178-226 | Gene | denotes | granulocyte-macrophage colony-stimulating factor | Gene:1437 |
| 470 | 228-234 | Gene | denotes | GM-CSF | Gene:1437 |
| 471 | 257-260 | Gene | denotes | CD4 | Gene:920 |
| 472 | 473-478 | Gene | denotes | IL-1β | Gene:3552 |
| 473 | 649-654 | Gene | denotes | IL-1β | Gene:3552 |
| 474 | 779-784 | Gene | denotes | IL-1β | Gene:3552 |
| 475 | 1051-1060 | Gene | denotes | Ficolin-1 | Gene:2219 |
| 476 | 134-142 | Species | denotes | patients | Tax:9606 |
| 477 | 741-749 | Species | denotes | patients | Tax:9606 |
| 478 | 975-983 | Species | denotes | patients | Tax:9606 |
| 479 | 125-133 | Disease | denotes | COVID-19 | MESH:C000657245 |
| 480 | 732-740 | Disease | denotes | COVID-19 | MESH:C000657245 |
| 481 | 996-1004 | Disease | denotes | COVID-19 | MESH:C000657245 |
| 482 | 1352-1356 | Disease | denotes | ARDS | MESH:D012128 |
| 483 | 1406-1422 | Disease | denotes | pulmonary damage | MESH:D008171 |
| 484 | 1506-1514 | Disease | denotes | COVID-19 | MESH:C000657245 |
| 485 | 1703-1711 | Disease | denotes | COVID-19 | MESH:C000657245 |
LitCovid-sentences
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T80 | 0-36 | Sentence | denotes | Myeloid Characterization in COVID-19 |
| T81 | 37-396 | Sentence | denotes | Flow cytometric analyses of peripheral blood mononuclear cells (PBMCs) from symptomatic COVID-19 patients have shown a significant influx of granulocyte-macrophage colony-stimulating factor (GM-CSF)-producing, activated CD4+ T cells and CD14+HLA-DRlo inflammatory monocytes (IMs) (Giamarellos-Bourboulis et al., 2020, Zhang et al., 2020c, Zhou et al., 2020b). |
| T82 | 397-841 | Sentence | denotes | This matches single-cell transcriptomic (scRNA-seq) data demonstrating CD14+IL-1β+ monocytic expansion (Guo et al., 2020, Wen et al., 2020), interferon-mitogen-activated protein kinase (MAPK)-driven adaptive immune responses (Huang et al., 2020c), and IL-1β-associated inflammasome signatures (Ong et al., 2020) in peripheral blood of COVID-19 patients, although systemic levels of IL-1β detected are conspicuously low (Del Valle et al., 2020). |
| T83 | 842-1183 | Sentence | denotes | Importantly, these immune signatures track with progression of clinical disease. scRNA-seq studies performed on pulmonary tissues of patients with severe COVID-19 disease have revealed an expansion of IMs and Ficolin-1+ monocyte-derived macrophages at the expense of tissue-resident reparative alveolar macrophages (AMs) (Liao et al., 2020). |
| T84 | 1184-1357 | Sentence | denotes | The aforementioned study also observed signatures of IFN signaling and monocyte recruitment that likely contribute to the rapid decline in alveolar patency and promote ARDS. |
| T85 | 1358-1603 | Sentence | denotes | Although most of the clinical focus has been on pulmonary damage and mononuclear phagocyte (MNP) dysfunction therein, it is increasingly clear that COVID-19 likely presents systemic challenges in other organ sites, such as the ileum and kidneys. |
| T86 | 1604-1730 | Sentence | denotes | Understanding the role of non-pulmonary myeloid cells in tissue-specific pathology associated with COVID-19 will be important. |