PMC:7340597 / 23235-24407
Annnotations
LitCovid-PD-FMA-UBERON
| Id | Subject | Object | Predicate | Lexical cue | fma_id |
|---|---|---|---|---|---|
| T125 | 97-105 | Body_part | denotes | alveolar | http://purl.org/sig/ont/fma/fma264783 |
| T126 | 182-188 | Body_part | denotes | plasma | http://purl.org/sig/ont/fma/fma62970 |
| T127 | 189-197 | Body_part | denotes | proteins | http://purl.org/sig/ont/fma/fma67257 |
| T128 | 281-291 | Body_part | denotes | fibroblast | http://purl.org/sig/ont/fma/fma63877 |
| T129 | 308-325 | Body_part | denotes | connective tissue | http://purl.org/sig/ont/fma/fma9640 |
| T130 | 330-340 | Body_part | denotes | fibroblast | http://purl.org/sig/ont/fma/fma63877 |
| T131 | 373-381 | Body_part | denotes | alveolar | http://purl.org/sig/ont/fma/fma264783 |
| T132 | 441-451 | Body_part | denotes | fibroblast | http://purl.org/sig/ont/fma/fma63877 |
| T133 | 712-734 | Body_part | denotes | alveolar type II cells | http://purl.org/sig/ont/fma/fma62501 |
| T134 | 729-734 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T135 | 928-940 | Body_part | denotes | Fibroblastic | http://purl.org/sig/ont/fma/fma63877 |
| T136 | 1083-1085 | Body_part | denotes | V2 | http://purl.org/sig/ont/fma/fma13443|http://purl.org/sig/ont/fma/fma68615 |
LitCovid-PD-UBERON
| Id | Subject | Object | Predicate | Lexical cue | uberon_id |
|---|---|---|---|---|---|
| T77 | 308-325 | Body_part | denotes | connective tissue | http://purl.obolibrary.org/obo/UBERON_0002384 |
| T78 | 319-325 | Body_part | denotes | tissue | http://purl.obolibrary.org/obo/UBERON_0000479 |
| T79 | 816-840 | Body_part | denotes | renin-angiotensin system | http://purl.obolibrary.org/obo/UBERON_0018229 |
| T80 | 842-845 | Body_part | denotes | RAS | http://purl.obolibrary.org/obo/UBERON_0018229 |
| T81 | 890-893 | Body_part | denotes | RAS | http://purl.obolibrary.org/obo/UBERON_0018229 |
| T82 | 913-916 | Body_part | denotes | RAS | http://purl.obolibrary.org/obo/UBERON_0018229 |
LitCovid-PubTator
| Id | Subject | Object | Predicate | Lexical cue | tao:has_database_id |
|---|---|---|---|---|---|
| 540 | 389-423 | Gene | denotes | Vascular endothelial growth factor | Gene:7422 |
| 541 | 425-429 | Gene | denotes | VEGF | Gene:7422 |
| 542 | 435-465 | Gene | denotes | basic fibroblast growth factor | Gene:2247 |
| 543 | 467-471 | Gene | denotes | bFGF | Gene:2247 |
| 544 | 633-637 | Gene | denotes | ACE2 | Gene:59272 |
| 545 | 757-761 | Gene | denotes | ACE2 | Gene:59272 |
| 546 | 779-784 | Gene | denotes | ACE 2 | Gene:59272 |
| 547 | 869-873 | Gene | denotes | ACE2 | Gene:59272 |
| 548 | 956-960 | Gene | denotes | ACE2 | Gene:59272 |
| 549 | 1007-1011 | Gene | denotes | VEGF | Gene:7422 |
| 550 | 1042-1046 | Gene | denotes | ACE2 | Gene:59272 |
| 551 | 1089-1093 | Gene | denotes | ACE2 | Gene:59272 |
| 552 | 692-702 | Species | denotes | SARS-CoV-2 | Tax:2697049 |
| 553 | 1075-1085 | Species | denotes | SARS-CO-V2 | Tax:2697049 |
| 554 | 97-123 | Disease | denotes | alveolar epithelial injury | MESH:D002277 |
| 555 | 138-155 | Disease | denotes | epithelial injury | MESH:D002277 |
| 556 | 507-516 | Disease | denotes | pneumonia | MESH:D011014 |
| 557 | 591-600 | Disease | denotes | pneumonia | MESH:D011014 |
| 558 | 1135-1142 | Disease | denotes | COVID19 | MESH:C000657245 |
| 559 | 1162-1171 | Disease | denotes | pneumonia | MESH:D011014 |
LitCovid-PD-MONDO
| Id | Subject | Object | Predicate | Lexical cue | mondo_id |
|---|---|---|---|---|---|
| T194 | 35-37 | Disease | denotes | OP | http://purl.obolibrary.org/obo/MONDO_0015265 |
| T195 | 74-76 | Disease | denotes | OP | http://purl.obolibrary.org/obo/MONDO_0015265 |
| T196 | 117-123 | Disease | denotes | injury | http://purl.obolibrary.org/obo/MONDO_0021178 |
| T197 | 149-155 | Disease | denotes | injury | http://purl.obolibrary.org/obo/MONDO_0021178 |
| T198 | 496-516 | Disease | denotes | organizing pneumonia | http://purl.obolibrary.org/obo/MONDO_0015265|http://purl.obolibrary.org/obo/MONDO_0056821 |
| T200 | 507-516 | Disease | denotes | pneumonia | http://purl.obolibrary.org/obo/MONDO_0005249 |
| T201 | 580-600 | Disease | denotes | organizing pneumonia | http://purl.obolibrary.org/obo/MONDO_0015265|http://purl.obolibrary.org/obo/MONDO_0056821 |
| T203 | 591-600 | Disease | denotes | pneumonia | http://purl.obolibrary.org/obo/MONDO_0005249 |
| T204 | 692-700 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
| T205 | 1075-1079 | Disease | denotes | SARS | http://purl.obolibrary.org/obo/MONDO_0005091 |
| T206 | 1135-1142 | Disease | denotes | COVID19 | http://purl.obolibrary.org/obo/MONDO_0100096 |
| T207 | 1151-1171 | Disease | denotes | organizing pneumonia | http://purl.obolibrary.org/obo/MONDO_0015265|http://purl.obolibrary.org/obo/MONDO_0056821 |
| T209 | 1162-1171 | Disease | denotes | pneumonia | http://purl.obolibrary.org/obo/MONDO_0005249 |
LitCovid-PD-CLO
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T203 | 80-81 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T204 | 106-116 | http://purl.obolibrary.org/obo/CL_0000066 | denotes | epithelial |
| T205 | 138-148 | http://purl.obolibrary.org/obo/CL_0000066 | denotes | epithelial |
| T206 | 182-188 | http://purl.obolibrary.org/obo/UBERON_0001969 | denotes | plasma |
| T207 | 210-211 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T208 | 281-291 | http://purl.obolibrary.org/obo/CL_0000057 | denotes | fibroblast |
| T209 | 308-325 | http://purl.obolibrary.org/obo/UBERON_0002384 | denotes | connective tissue |
| T210 | 308-325 | http://www.ebi.ac.uk/efo/EFO_0000952 | denotes | connective tissue |
| T211 | 330-340 | http://purl.obolibrary.org/obo/CL_0000057 | denotes | fibroblast |
| T212 | 341-353 | http://purl.obolibrary.org/obo/OBI_0000245 | denotes | organisation |
| T213 | 441-451 | http://purl.obolibrary.org/obo/CL_0000057 | denotes | fibroblast |
| T214 | 478-479 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T215 | 496-506 | http://purl.obolibrary.org/obo/OBI_0000245 | denotes | organizing |
| T216 | 580-590 | http://purl.obolibrary.org/obo/OBI_0000245 | denotes | organizing |
| T217 | 664-665 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T218 | 729-734 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T219 | 769-777 | http://purl.obolibrary.org/obo/UBERON_0000158 | denotes | membrane |
| T220 | 788-789 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T221 | 903-912 | http://purl.obolibrary.org/obo/CLO_0001658 | denotes | activated |
| T222 | 928-940 | http://purl.obolibrary.org/obo/CL_0000057 | denotes | Fibroblastic |
| T223 | 972-973 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T224 | 1105-1106 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T225 | 1151-1161 | http://purl.obolibrary.org/obo/OBI_0000245 | denotes | organizing |
LitCovid-PD-CHEBI
| Id | Subject | Object | Predicate | Lexical cue | chebi_id |
|---|---|---|---|---|---|
| T112 | 189-197 | Chemical | denotes | proteins | http://purl.obolibrary.org/obo/CHEBI_36080 |
| T113 | 726-728 | Chemical | denotes | II | http://purl.obolibrary.org/obo/CHEBI_74067 |
| T114 | 822-833 | Chemical | denotes | angiotensin | http://purl.obolibrary.org/obo/CHEBI_48433 |
| T115 | 842-845 | Chemical | denotes | RAS | http://purl.obolibrary.org/obo/CHEBI_63620 |
| T116 | 890-893 | Chemical | denotes | RAS | http://purl.obolibrary.org/obo/CHEBI_63620 |
| T117 | 913-916 | Chemical | denotes | RAS | http://purl.obolibrary.org/obo/CHEBI_63620 |
| T118 | 1080-1082 | Chemical | denotes | CO | http://purl.obolibrary.org/obo/CHEBI_17245 |
LitCovid-PD-HP
| Id | Subject | Object | Predicate | Lexical cue | hp_id |
|---|---|---|---|---|---|
| T57 | 507-516 | Phenotype | denotes | pneumonia | http://purl.obolibrary.org/obo/HP_0002090 |
| T58 | 591-600 | Phenotype | denotes | pneumonia | http://purl.obolibrary.org/obo/HP_0002090 |
| T59 | 1162-1171 | Phenotype | denotes | pneumonia | http://purl.obolibrary.org/obo/HP_0002090 |
LitCovid-PD-GO-BP
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T6 | 19-31 | http://purl.obolibrary.org/obo/GO_0009405 | denotes | pathogenesis |
| T7 | 410-416 | http://purl.obolibrary.org/obo/GO_0040007 | denotes | growth |
| T8 | 452-458 | http://purl.obolibrary.org/obo/GO_0040007 | denotes | growth |
| T9 | 941-947 | http://purl.obolibrary.org/obo/GO_0040007 | denotes | Growth |
| T10 | 1119-1131 | http://purl.obolibrary.org/obo/GO_0009405 | denotes | pathogenesis |
LitCovid-sentences
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T196 | 0-124 | Sentence | denotes | Although the exact pathogenesis of OP remains unknown, it is thought that OP is a consequence of alveolar epithelial injury. |
| T197 | 125-269 | Sentence | denotes | This initial epithelial injury is followed by leakage of plasma proteins, leading to a cascade of host responses with hyperinflammation [27,28]. |
| T198 | 270-388 | Sentence | denotes | Subsequent fibroblast recruitment and connective tissue and fibroblast organisation is seen within the alveolar space. |
| T199 | 389-606 | Sentence | denotes | Vascular endothelial growth factor (VEGF) and basic fibroblast growth factor (bFGF) play a central role in organizing pneumonia and are highly expressed in intraluminal fibromyxoid lesion in organizing pneumonia [29]. |
| T200 | 607-778 | Sentence | denotes | Interestingly, binding to ACE2 receptor is recognized as a critical initial step for SARS-CoV-2 to entry alveolar type II cells, resulting in loss of ACE2 at the membrane. |
| T201 | 779-899 | Sentence | denotes | ACE 2 is a negative regulator of the renin-angiotensin system (RAS) and this depletion of ACE2 upregulates the RAS [30]. |
| T202 | 900-955 | Sentence | denotes | An activated RAS can induce Fibroblastic Growth Factor. |
| T203 | 956-1017 | Sentence | denotes | ACE2 also plays a role in regulating the effect of VEGF [31]. |
| T204 | 1018-1172 | Sentence | denotes | Therefore, depletion of ACE2 due to the high affinity of SARS-CO-V2 to ACE2 might play a role in the pathogenesis of COVID19 related organizing pneumonia. |
LitCovid-PMC-OGER-BB
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T359 | 97-105 | UBERON:0003215 | denotes | alveolar |
| T360 | 106-116 | UBERON:0000483 | denotes | epithelial |
| T361 | 138-148 | UBERON:0000483 | denotes | epithelial |
| T362 | 182-188 | UBERON:0001969 | denotes | plasma |
| T363 | 281-291 | CL:0000057 | denotes | fibroblast |
| T364 | 308-325 | UBERON:0002384 | denotes | connective tissue |
| T365 | 330-340 | CL:0000057 | denotes | fibroblast |
| T366 | 373-381 | UBERON:0003215 | denotes | alveolar |
| T367 | 398-409 | UBERON:0001986 | denotes | endothelial |
| T368 | 425-429 | PR:000017284 | denotes | VEGF |
| T369 | 435-440 | PR:000007489 | denotes | basic |
| T370 | 441-451 | PR:000007489;CL:0000057 | denotes | fibroblast |
| T371 | 452-465 | PR:000007489 | denotes | growth factor |
| T372 | 467-471 | PR:000007489 | denotes | bFGF |
| T373 | 532-541 | GO:0010467 | denotes | expressed |
| T374 | 633-637 | G_3;PG_10;PR:000003622 | denotes | ACE2 |
| T375 | 692-702 | SP_7 | denotes | SARS-CoV-2 |
| T376 | 712-720 | UBERON:0003215;CL:0002063 | denotes | alveolar |
| T377 | 721-734 | CL:0002063 | denotes | type II cells |
| T378 | 757-761 | G_3;PG_10;PR:000003622 | denotes | ACE2 |
| T379 | 769-777 | GO:0016020 | denotes | membrane |
| T380 | 779-784 | G_3;PG_10;PR:000003622 | denotes | ACE 2 |
| T381 | 816-821 | PR:000013883 | denotes | renin |
| T382 | 869-873 | G_3;PG_10;PR:000003622 | denotes | ACE2 |
| T383 | 928-940 | CL:0000057 | denotes | Fibroblastic |
| T384 | 956-960 | G_3;PG_10;PR:000003622 | denotes | ACE2 |
| T385 | 982-992 | GO:0065007 | denotes | regulating |
| T386 | 1042-1046 | G_3;PG_10;PR:000003622 | denotes | ACE2 |
| T387 | 1075-1079 | PR:000014459;SP_10 | denotes | SARS |
| T388 | 1089-1093 | G_3;PG_10;PR:000003622 | denotes | ACE2 |
| T389 | 1135-1142 | SP_7 | denotes | COVID19 |
| T28202 | 97-105 | UBERON:0003215 | denotes | alveolar |
| T67241 | 106-116 | UBERON:0000483 | denotes | epithelial |
| T46717 | 138-148 | UBERON:0000483 | denotes | epithelial |
| T39595 | 182-188 | UBERON:0001969 | denotes | plasma |
| T44394 | 281-291 | CL:0000057 | denotes | fibroblast |
| T2531 | 308-325 | UBERON:0002384 | denotes | connective tissue |
| T32839 | 330-340 | CL:0000057 | denotes | fibroblast |
| T79081 | 373-381 | UBERON:0003215 | denotes | alveolar |
| T12939 | 398-409 | UBERON:0001986 | denotes | endothelial |
| T13532 | 425-429 | PR:000017284 | denotes | VEGF |
| T23839 | 435-440 | PR:000007489 | denotes | basic |
| T30589 | 441-451 | PR:000007489;CL:0000057 | denotes | fibroblast |
| T89725 | 452-465 | PR:000007489 | denotes | growth factor |
| T29099 | 467-471 | PR:000007489 | denotes | bFGF |
| T15310 | 532-541 | GO:0010467 | denotes | expressed |
| T77776 | 633-637 | G_3;PG_10;PR:000003622 | denotes | ACE2 |
| T89521 | 692-702 | SP_7 | denotes | SARS-CoV-2 |
| T94964 | 712-720 | UBERON:0003215;CL:0002063 | denotes | alveolar |
| T33665 | 721-734 | CL:0002063 | denotes | type II cells |
| T65073 | 757-761 | G_3;PG_10;PR:000003622 | denotes | ACE2 |
| T27805 | 769-777 | GO:0016020 | denotes | membrane |
| T1917 | 779-784 | G_3;PG_10;PR:000003622 | denotes | ACE 2 |
| T72517 | 816-821 | PR:000013883 | denotes | renin |
| T33758 | 869-873 | G_3;PG_10;PR:000003622 | denotes | ACE2 |
| T15813 | 928-940 | CL:0000057 | denotes | Fibroblastic |
| T57972 | 956-960 | G_3;PG_10;PR:000003622 | denotes | ACE2 |
| T76591 | 982-992 | GO:0065007 | denotes | regulating |
| T13299 | 1042-1046 | G_3;PG_10;PR:000003622 | denotes | ACE2 |
| T40299 | 1075-1079 | PR:000014459;SP_10 | denotes | SARS |
| T99881 | 1089-1093 | G_3;PG_10;PR:000003622 | denotes | ACE2 |
| T48386 | 1135-1142 | SP_7 | denotes | COVID19 |
2_test
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| 32674001-32192578-58631475 | 262-264 | 32192578 | denotes | 27 |
| 32674001-32283152-58631476 | 265-267 | 32283152 | denotes | 28 |
| 32674001-11793374-58631477 | 602-604 | 11793374 | denotes | 29 |
| 32674001-32264791-58631478 | 895-897 | 32264791 | denotes | 30 |
| 32674001-26938051-58631479 | 1013-1015 | 26938051 | denotes | 31 |