PMC:7068984 / 10719-14020
Annnotations
LitCovid-PubTator
Id | Subject | Object | Predicate | Lexical cue | tao:has_database_id |
---|---|---|---|---|---|
349 | 0-11 | Species | denotes | Coronavirus | Tax:11118 |
367 | 41-45 | Gene | denotes | ACE2 | Gene:59272 |
368 | 381-385 | Gene | denotes | ACE2 | Gene:59272 |
369 | 484-488 | Gene | denotes | ACE2 | Gene:59272 |
370 | 907-911 | Gene | denotes | pp1a | Gene:5499 |
371 | 1218-1220 | Gene | denotes | ER | Gene:2069 |
372 | 1264-1276 | Gene | denotes | nucleocapsid | Gene:43740575 |
373 | 87-93 | Species | denotes | humans | Tax:9606 |
374 | 125-133 | Species | denotes | SARS-CoV | Tax:694009 |
375 | 180-185 | Species | denotes | human | Tax:9606 |
376 | 189-194 | Species | denotes | human | Tax:9606 |
377 | 282-289 | Species | denotes | patient | Tax:9606 |
378 | 331-341 | Species | denotes | SARS-CoV-2 | Tax:2697049 |
379 | 390-398 | Species | denotes | SARS-CoV | Tax:694009 |
380 | 444-455 | Species | denotes | coronavirus | Tax:11118 |
381 | 507-512 | Species | denotes | human | Tax:9606 |
382 | 1290-1298 | Gene | denotes | envelope | Gene:43740570 |
383 | 273-281 | Disease | denotes | COVID-19 | MESH:C000657245 |
422 | 1477-1482 | Gene | denotes | Spike | Gene:43740568 |
423 | 1504-1508 | Gene | denotes | ACE2 | Gene:59272 |
424 | 1716-1720 | Gene | denotes | ACE2 | Gene:59272 |
425 | 1736-1758 | Gene | denotes | Dipeptidyl peptidase-4 | Gene:1803 |
426 | 1760-1764 | Gene | denotes | DPP4 | Gene:1803 |
427 | 1769-1772 | Gene | denotes | APN | Gene:290 |
428 | 1774-1790 | Gene | denotes | Aminopeptidase N | Gene:290 |
429 | 1880-1884 | Gene | denotes | ACE2 | Gene:59272 |
430 | 2135-2166 | Gene | denotes | transmembrane protease serine 2 | Gene:7113 |
431 | 2168-2175 | Gene | denotes | TMPRSS2 | Gene:7113 |
432 | 1484-1485 | Gene | denotes | S | Gene:43740568 |
433 | 2002-2007 | Gene | denotes | Spike | Gene:43740568 |
434 | 1466-1476 | Species | denotes | SARS-CoV-2 | Tax:2697049 |
435 | 1665-1670 | Species | denotes | β-CoV | Tax:694002 |
436 | 1693-1698 | Species | denotes | human | Tax:9606 |
437 | 1730-1735 | Species | denotes | human | Tax:9606 |
438 | 1816-1826 | Species | denotes | SARS-CoV-2 | Tax:2697049 |
439 | 1943-1951 | Species | denotes | SARS-CoV | Tax:694009 |
440 | 1991-2001 | Species | denotes | SARS-CoV-2 | Tax:2697049 |
441 | 2048-2056 | Species | denotes | SARS-CoV | Tax:694009 |
442 | 2269-2279 | Species | denotes | SARS-CoV-2 | Tax:2697049 |
443 | 2382-2392 | Species | denotes | SARS-CoV-2 | Tax:2697049 |
444 | 2440-2445 | Species | denotes | human | Tax:9606 |
445 | 2468-2473 | Species | denotes | human | Tax:9606 |
446 | 2474-2482 | Species | denotes | SARS-CoV | Tax:694009 |
447 | 2539-2545 | Species | denotes | people | Tax:9606 |
448 | 2962-2972 | Species | denotes | SARS-CoV-2 | Tax:2697049 |
449 | 3003-3011 | Species | denotes | SARS-CoV | Tax:694009 |
450 | 3016-3024 | Species | denotes | MERS-CoV | Tax:1335626 |
451 | 3199-3204 | Species | denotes | human | Tax:9606 |
452 | 3208-3213 | Species | denotes | human | Tax:9606 |
453 | 3260-3270 | Species | denotes | SARS-CoV-2 | Tax:2697049 |
454 | 2446-2455 | Disease | denotes | infection | MESH:D007239 |
455 | 2530-2538 | Disease | denotes | infected | MESH:D007239 |
456 | 2670-2679 | Disease | denotes | pneumonia | MESH:D011014 |
457 | 3054-3063 | Disease | denotes | mortality | MESH:D003643 |
458 | 3067-3075 | Disease | denotes | COVID-19 | MESH:C000657245 |
459 | 3096-3101 | Disease | denotes | death | MESH:D003643 |
LitCovid-PD-FMA-UBERON
Id | Subject | Object | Predicate | Lexical cue | fma_id |
---|---|---|---|---|---|
T52 | 60-83 | Body_part | denotes | lower respiratory tract | http://purl.org/sig/ont/fma/fma45662 |
T53 | 107-111 | Body_part | denotes | cell | http://purl.org/sig/ont/fma/fma68646 |
T54 | 413-425 | Body_part | denotes | glycoprotein | http://purl.org/sig/ont/fma/fma62925 |
T55 | 513-518 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
T56 | 527-539 | Body_part | denotes | glycoprotein | http://purl.org/sig/ont/fma/fma62925 |
T57 | 695-708 | Body_part | denotes | cell membrane | http://purl.org/sig/ont/fma/fma63841 |
T58 | 695-699 | Body_part | denotes | cell | http://purl.org/sig/ont/fma/fma68646 |
T59 | 814-820 | Body_part | denotes | genome | http://purl.org/sig/ont/fma/fma84116 |
T60 | 821-824 | Body_part | denotes | RNA | http://purl.org/sig/ont/fma/fma67095 |
T61 | 846-855 | Body_part | denotes | cytoplasm | http://purl.org/sig/ont/fma/fma66835 |
T62 | 874-877 | Body_part | denotes | RNA | http://purl.org/sig/ont/fma/fma67095 |
T63 | 956-964 | Body_part | denotes | proteins | http://purl.org/sig/ont/fma/fma67257 |
T64 | 1151-1159 | Body_part | denotes | proteins | http://purl.org/sig/ont/fma/fma67257 |
T65 | 1175-1183 | Body_part | denotes | proteins | http://purl.org/sig/ont/fma/fma67257 |
T66 | 1195-1216 | Body_part | denotes | endoplasmic reticulum | http://purl.org/sig/ont/fma/fma63842 |
T67 | 1218-1220 | Body_part | denotes | ER | http://purl.org/sig/ont/fma/fma63842 |
T68 | 1259-1262 | Body_part | denotes | RNA | http://purl.org/sig/ont/fma/fma67095 |
T69 | 1277-1285 | Body_part | denotes | proteins | http://purl.org/sig/ont/fma/fma67257 |
T70 | 1299-1312 | Body_part | denotes | glycoproteins | http://purl.org/sig/ont/fma/fma62925 |
T71 | 1405-1420 | Body_part | denotes | plasma membrane | http://purl.org/sig/ont/fma/fma63841 |
T72 | 1487-1499 | Body_part | denotes | glycoprotein | http://purl.org/sig/ont/fma/fma62925 |
T73 | 1699-1704 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
T74 | 1868-1875 | Body_part | denotes | protein | http://purl.org/sig/ont/fma/fma67257 |
T75 | 2083-2090 | Body_part | denotes | protein | http://purl.org/sig/ont/fma/fma67257 |
T76 | 2111-2123 | Body_part | denotes | cell surface | http://purl.org/sig/ont/fma/fma67653 |
T77 | 2111-2115 | Body_part | denotes | cell | http://purl.org/sig/ont/fma/fma68646 |
T78 | 2158-2164 | Body_part | denotes | serine | http://purl.org/sig/ont/fma/fma82764 |
LitCovid-PD-UBERON
Id | Subject | Object | Predicate | Lexical cue | uberon_id |
---|---|---|---|---|---|
T5 | 60-83 | Body_part | denotes | lower respiratory tract | http://purl.obolibrary.org/obo/UBERON_0001558 |
T6 | 66-83 | Body_part | denotes | respiratory tract | http://purl.obolibrary.org/obo/UBERON_0000065 |
LitCovid_AGAC
Id | Subject | Object | Predicate | Lexical cue |
---|---|---|---|---|
p13914s6 | 1866-1875 | Protein | denotes | S-protein |
p13914s10 | 1880-1884 | Protein | denotes | ACE2 |
p13914s11 | 1885-1892 | Interaction | denotes | binding |
LitCovid-PD-MONDO
Id | Subject | Object | Predicate | Lexical cue | mondo_id |
---|---|---|---|---|---|
T85 | 125-133 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
T86 | 273-281 | Disease | denotes | COVID-19 | http://purl.obolibrary.org/obo/MONDO_0100096 |
T87 | 331-339 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
T88 | 390-398 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
T89 | 1466-1474 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
T90 | 1816-1824 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
T91 | 1943-1951 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
T92 | 1991-1999 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
T93 | 2048-2056 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
T94 | 2269-2277 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
T95 | 2382-2390 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
T96 | 2446-2455 | Disease | denotes | infection | http://purl.obolibrary.org/obo/MONDO_0005550 |
T97 | 2474-2482 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
T98 | 2670-2679 | Disease | denotes | pneumonia | http://purl.obolibrary.org/obo/MONDO_0005249 |
T99 | 2962-2970 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
T100 | 3003-3011 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
T101 | 3067-3075 | Disease | denotes | COVID-19 | http://purl.obolibrary.org/obo/MONDO_0100096 |
T102 | 3110-3114 | Disease | denotes | SARS | http://purl.obolibrary.org/obo/MONDO_0005091 |
T103 | 3260-3268 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
LitCovid-PD-CLO
Id | Subject | Object | Predicate | Lexical cue |
---|---|---|---|---|
T85 | 60-83 | http://purl.obolibrary.org/obo/UBERON_0001558 | denotes | lower respiratory tract |
T86 | 87-93 | http://purl.obolibrary.org/obo/NCBITaxon_9606 | denotes | humans |
T87 | 107-111 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cell |
T88 | 135-137 | http://purl.obolibrary.org/obo/CLO_0050509 | denotes | 27 |
T89 | 180-185 | http://purl.obolibrary.org/obo/NCBITaxon_9606 | denotes | human |
T90 | 189-194 | http://purl.obolibrary.org/obo/NCBITaxon_9606 | denotes | human |
T91 | 271-272 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
T92 | 507-518 | http://purl.obolibrary.org/obo/CLO_0053065 | denotes | human cells |
T93 | 563-565 | http://purl.obolibrary.org/obo/CLO_0050050 | denotes | S1 |
T94 | 570-572 | http://purl.obolibrary.org/obo/CLO_0008922 | denotes | S2 |
T95 | 570-572 | http://purl.obolibrary.org/obo/CLO_0050052 | denotes | S2 |
T96 | 579-581 | http://purl.obolibrary.org/obo/CLO_0050050 | denotes | S1 |
T97 | 597-602 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | virus |
T98 | 677-679 | http://purl.obolibrary.org/obo/CLO_0008922 | denotes | S2 |
T99 | 677-679 | http://purl.obolibrary.org/obo/CLO_0050052 | denotes | S2 |
T100 | 689-694 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | virus |
T101 | 695-699 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cell |
T102 | 700-708 | http://purl.obolibrary.org/obo/UBERON_0000158 | denotes | membrane |
T103 | 787-795 | http://purl.obolibrary.org/obo/UBERON_0000158 | denotes | membrane |
T104 | 1025-1033 | http://purl.obolibrary.org/obo/UBERON_0000158 | denotes | membrane |
T105 | 1043-1045 | http://purl.obolibrary.org/obo/CLO_0001302 | denotes | 34 |
T106 | 1090-1091 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
T107 | 1123-1125 | http://purl.obolibrary.org/obo/CLO_0001000 | denotes | 35 |
T108 | 1233-1235 | http://purl.obolibrary.org/obo/CLO_0001313 | denotes | 36 |
T109 | 1405-1411 | http://purl.obolibrary.org/obo/UBERON_0001969 | denotes | plasma |
T110 | 1412-1420 | http://purl.obolibrary.org/obo/UBERON_0000158 | denotes | membrane |
T111 | 1436-1441 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | virus |
T112 | 1521-1522 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
T113 | 1541-1546 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | virus |
T114 | 1554-1559 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | virus |
T115 | 1693-1704 | http://purl.obolibrary.org/obo/CLO_0053065 | denotes | human cells |
T116 | 1730-1735 | http://purl.obolibrary.org/obo/NCBITaxon_9606 | denotes | human |
T117 | 2111-2115 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cell |
T118 | 2243-2251 | http://purl.obolibrary.org/obo/UBERON_0000158 | denotes | membrane |
T119 | 2440-2445 | http://purl.obolibrary.org/obo/NCBITaxon_9606 | denotes | human |
T120 | 2468-2473 | http://purl.obolibrary.org/obo/NCBITaxon_9606 | denotes | human |
T121 | 3139-3141 | http://purl.obolibrary.org/obo/CLO_0001000 | denotes | 35 |
T122 | 3199-3204 | http://purl.obolibrary.org/obo/NCBITaxon_9606 | denotes | human |
T123 | 3208-3213 | http://purl.obolibrary.org/obo/NCBITaxon_9606 | denotes | human |
LitCovid-PD-CHEBI
Id | Subject | Object | Predicate | Lexical cue | chebi_id |
---|---|---|---|---|---|
T35 | 413-425 | Chemical | denotes | glycoprotein | http://purl.obolibrary.org/obo/CHEBI_17089 |
T36 | 527-539 | Chemical | denotes | glycoprotein | http://purl.obolibrary.org/obo/CHEBI_17089 |
T37 | 570-572 | Chemical | denotes | S2 | http://purl.obolibrary.org/obo/CHEBI_29387 |
T38 | 677-679 | Chemical | denotes | S2 | http://purl.obolibrary.org/obo/CHEBI_29387 |
T39 | 956-964 | Chemical | denotes | proteins | http://purl.obolibrary.org/obo/CHEBI_36080 |
T40 | 1151-1159 | Chemical | denotes | proteins | http://purl.obolibrary.org/obo/CHEBI_36080 |
T41 | 1175-1183 | Chemical | denotes | proteins | http://purl.obolibrary.org/obo/CHEBI_36080 |
T42 | 1277-1285 | Chemical | denotes | proteins | http://purl.obolibrary.org/obo/CHEBI_36080 |
T43 | 1299-1312 | Chemical | denotes | glycoproteins | http://purl.obolibrary.org/obo/CHEBI_17089 |
T44 | 1487-1499 | Chemical | denotes | glycoprotein | http://purl.obolibrary.org/obo/CHEBI_17089 |
T45 | 1868-1875 | Chemical | denotes | protein | http://purl.obolibrary.org/obo/CHEBI_36080 |
T46 | 1971-1973 | Chemical | denotes | EM | http://purl.obolibrary.org/obo/CHEBI_73507 |
T47 | 2083-2090 | Chemical | denotes | protein | http://purl.obolibrary.org/obo/CHEBI_36080 |
T48 | 2158-2164 | Chemical | denotes | serine | http://purl.obolibrary.org/obo/CHEBI_17822 |
T49 | 2221-2230 | Chemical | denotes | molecules | http://purl.obolibrary.org/obo/CHEBI_25367 |
LitCovid-PD-GO-BP
Id | Subject | Object | Predicate | Lexical cue |
---|---|---|---|---|
T13 | 28-40 | http://purl.obolibrary.org/obo/GO_0009405 | denotes | pathogenesis |
T14 | 627-634 | http://purl.obolibrary.org/obo/GO_0009606 | denotes | tropism |
T15 | 700-715 | http://purl.obolibrary.org/obo/GO_0061025 | denotes | membrane fusion |
T16 | 787-802 | http://purl.obolibrary.org/obo/GO_0061025 | denotes | membrane fusion |
T17 | 987-1000 | http://purl.obolibrary.org/obo/GO_0006351 | denotes | transcription |
T18 | 2243-2264 | http://purl.obolibrary.org/obo/GO_0010324 | denotes | membrane invagination |
T19 | 2280-2291 | http://purl.obolibrary.org/obo/GO_0006897 | denotes | endocytosis |
LitCovid-sentences
Id | Subject | Object | Predicate | Lexical cue |
---|---|---|---|---|
T76 | 0-40 | Sentence | denotes | Coronavirus replication and pathogenesis |
T77 | 41-213 | Sentence | denotes | ACE2, found in the lower respiratory tract of humans, is known as cell receptor for SARS-CoV [27] and regulates both the cross-species and human-to-human transmission [28]. |
T78 | 214-399 | Sentence | denotes | Isolated from the bronchoalveolar lavage fluid (BALF) of a COVID-19 patient, Zhou et al. [8] have confirmed that the SARS-CoV-2 uses the same cellular entry receptor, ACE2, as SARS-CoV. |
T79 | 400-524 | Sentence | denotes | The virion S-glycoprotein on the surface of coronavirus can attach to the receptor, ACE2 on the surface of human cells [29]. |
T80 | 525-578 | Sentence | denotes | S glycoprotein includes two subunits, S1 and S2 [30]. |
T81 | 579-780 | Sentence | denotes | S1 determines the virus-host range and cellular tropism with the key function domain − RBD, while S2 mediates virus-cell membrane fusion by two tandem domains, heptad repeats 1 (HR1) [31] and HR2 [32]. |
T82 | 781-1047 | Sentence | denotes | After membrane fusion, the viral genome RNA is released into the cytoplasm, and the uncoated RNA translates two polyproteins, pp1a and pp1ab [33], which encode non-structural proteins, and form replication-transcription complex (RTC) in double-membrane vesicle [34]. |
T83 | 1048-1184 | Sentence | denotes | Continuously RTC replicate and synthesize a nested set of subgenomic RNAs [35], which encode accessory proteins and structural proteins. |
T84 | 1185-1351 | Sentence | denotes | Mediating endoplasmic reticulum (ER) and Golgi [36], newly formed genomic RNA, nucleocapsid proteins and envelope glycoproteins assemble and form viral particle buds. |
T85 | 1352-1442 | Sentence | denotes | Lastly, the virion-containing vesicles fuse with the plasma membrane to release the virus. |
T86 | 1443-1640 | Sentence | denotes | Because the binding of SARS-CoV-2 Spike (S) glycoprotein and ACE2 receptor is a critical step for virus entry, virus-receptor binding affinity is under intensive study through different approaches. |
T87 | 1641-1832 | Sentence | denotes | Systematic detection of β-CoV receptors showed that human cells expressing ACE2, but not human Dipeptidyl peptidase-4 (DPP4) or APN (Aminopeptidase N), were enhanced entry of SARS-CoV-2 [37]. |
T88 | 1833-2043 | Sentence | denotes | While, another study showed that S-protein and ACE2 binding efficiency is 10- to 20- fold higher than that of SARS-CoV, evidenced by Cryo-EM Structure of the SARS-CoV-2 Spike in the prefusion conformation [38]. |
T89 | 2044-2310 | Sentence | denotes | For SARS-CoV, the cleavage of trimer S protein is triggered by the cell surface-associated transmembrane protease serine 2 (TMPRSS2) [39] and cathepsin [40], while the possible molecules facilitated membrane invagination for SARS-CoV-2 endocytosis are still unclear. |
T90 | 2311-2483 | Sentence | denotes | Up to the date this review paper was prepared, reports showed that the SARS-CoV-2 may readily transmit, while cause less serious human infection rather than human SARS-CoV. |
T91 | 2484-2594 | Sentence | denotes | Based on the latest WHO report, the number of infected people (over 80,000 globally, updated on 1 March 2020). |
T92 | 2595-2760 | Sentence | denotes | The global outbreak may due to the following factors: firstly, the unknown pneumonia outbroke at the time of China Spring Festival, when the mass population flowing. |
T93 | 2761-2918 | Sentence | denotes | Secondly, more detailed molecular mechanisms of viral binding and entry manners await to be elucidated, which may hamper the development of targeted therapy. |
T94 | 2919-3163 | Sentence | denotes | Thirdly, available data suggested that the SARS-CoV-2 may be less virulent than the SARS-CoV and MERS-CoV, with the currently analyzed mortality of COVID-19 is 3.4%, lower than death rate of SARS (9.6%) and MERS (around 35%), respectively [19]. |
T95 | 3164-3301 | Sentence | denotes | Thus, the potential mechanisms for human-to-human transmission and pathogenic mechanisms of the SARS-CoV-2 are under extensively studied. |
LitCovid-PD-HP
Id | Subject | Object | Predicate | Lexical cue | hp_id |
---|---|---|---|---|---|
T14 | 2670-2679 | Phenotype | denotes | pneumonia | http://purl.obolibrary.org/obo/HP_0002090 |
2_test
Id | Subject | Object | Predicate | Lexical cue |
---|---|---|---|---|
32169119-16282461-70132203 | 135-137 | 16282461 | denotes | 27 |
32169119-32015507-70132204 | 304-305 | 32015507 | denotes | 8 |
32169119-31522710-70132205 | 520-522 | 31522710 | denotes | 29 |
32169119-24766432-70132206 | 574-576 | 24766432 | denotes | 30 |
32169119-28643204-70132207 | 923-925 | 28643204 | denotes | 33 |
32169119-15609508-70132208 | 1043-1045 | 15609508 | denotes | 34 |
32169119-15827143-70132209 | 1123-1125 | 15827143 | denotes | 35 |
32169119-31399512-70132210 | 1233-1235 | 31399512 | denotes | 36 |
32169119-30102747-70132211 | 2039-2041 | 30102747 | denotes | 38 |
32169119-25445340-70132212 | 2178-2180 | 25445340 | denotes | 39 |
32169119-27344959-70132213 | 3159-3161 | 27344959 | denotes | 19 |