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PMC:7068984 / 10719-14020 JSONTXT

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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