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PMC:7605337 / 3064-4736 JSONTXT

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LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T9 43-55 Body_part denotes glycoprotein http://purl.org/sig/ont/fma/fma62925
T10 118-123 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T11 233-240 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T12 335-339 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T13 413-427 Body_part denotes cell membranes http://purl.org/sig/ont/fma/fma63841
T14 413-417 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T15 442-449 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T16 610-623 Body_part denotes cell membrane http://purl.org/sig/ont/fma/fma63841
T17 610-614 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T18 733-740 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T19 741-745 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402
T20 866-873 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T21 953-958 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T22 1114-1122 Body_part denotes proteins http://purl.org/sig/ont/fma/fma67257
T23 1294-1301 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T24 1630-1635 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T25 1659-1663 Body_part denotes body http://purl.org/sig/ont/fma/fma256135

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T16 453-462 Disease denotes nCOV-2019 http://purl.obolibrary.org/obo/MONDO_0100096
T17 628-637 Disease denotes nCOV-2019 http://purl.obolibrary.org/obo/MONDO_0100096
T18 774-783 Disease denotes nCOV-2019 http://purl.obolibrary.org/obo/MONDO_0100096
T19 788-792 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T20 980-989 Disease denotes nCOV-2019 http://purl.obolibrary.org/obo/MONDO_0100096
T21 1024-1028 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T22 1278-1287 Disease denotes nCOV-2019 http://purl.obolibrary.org/obo/MONDO_0100096
T23 1403-1407 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T24 1478-1487 Disease denotes nCOV-2019 http://purl.obolibrary.org/obo/MONDO_0100096
T25 1492-1496 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T26 1547-1556 Disease denotes nCOV-2019 http://purl.obolibrary.org/obo/MONDO_0100096
T27 1592-1601 Disease denotes nCOV-2019 http://purl.obolibrary.org/obo/MONDO_0100096

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T24 22-23 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T25 118-123 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T26 132-133 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T27 201-210 http://purl.obolibrary.org/obo/UBERON_0000158 denotes membranes
T28 274-276 http://purl.obolibrary.org/obo/CLO_0050050 denotes S1
T29 281-283 http://purl.obolibrary.org/obo/CLO_0008922 denotes S2
T30 281-283 http://purl.obolibrary.org/obo/CLO_0050052 denotes S2
T31 289-291 http://purl.obolibrary.org/obo/CLO_0050050 denotes S1
T32 335-339 http://purl.obolibrary.org/obo/GO_0005623 denotes cell
T33 358-360 http://purl.obolibrary.org/obo/CLO_0008922 denotes S2
T34 358-360 http://purl.obolibrary.org/obo/CLO_0050052 denotes S2
T35 413-417 http://purl.obolibrary.org/obo/GO_0005623 denotes cell
T36 418-427 http://purl.obolibrary.org/obo/UBERON_0000158 denotes membranes
T37 473-474 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T38 526-527 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T39 587-595 http://purl.obolibrary.org/obo/UBERON_0000158 denotes membrane
T40 610-614 http://purl.obolibrary.org/obo/GO_0005623 denotes cell
T41 615-623 http://purl.obolibrary.org/obo/UBERON_0000158 denotes membrane
T42 660-663 http://purl.obolibrary.org/obo/NCBITaxon_9397 denotes bat
T43 741-745 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene
T44 842-844 http://purl.obolibrary.org/obo/CLO_0050050 denotes S1
T45 883-884 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T46 953-958 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T47 1321-1326 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T48 1624-1635 http://purl.obolibrary.org/obo/CLO_0053065 denotes human cells

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T13 43-55 Chemical denotes glycoprotein http://purl.obolibrary.org/obo/CHEBI_17089
T14 233-240 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T15 281-283 Chemical denotes S2 http://purl.obolibrary.org/obo/CHEBI_29387
T16 358-360 Chemical denotes S2 http://purl.obolibrary.org/obo/CHEBI_29387
T17 442-449 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T18 733-740 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T19 866-873 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T20 1114-1122 Chemical denotes proteins http://purl.obolibrary.org/obo/CHEBI_36080
T21 1294-1301 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T22 1327-1338 Chemical denotes angiotensin http://purl.obolibrary.org/obo/CHEBI_48433

LitCovid-PD-GO-BP

Id Subject Object Predicate Lexical cue
T2 102-117 http://purl.obolibrary.org/obo/GO_0044409 denotes entry into host

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T18 0-284 Sentence denotes In all coronaviruses, a homotrimeric spike glycoprotein on the virion’s envelope mediates coronavirus entry into host cells through a mechanism of receptor binding followed by fusion of viral and host membranes.3,6 Coronavirus spike protein contains two functional subunits S1 and S2.
T19 285-746 Sentence denotes The S1 subunit is responsible for binding to host cell receptor, and the S2 subunit is responsible for fusion of viral and host cell membranes.3,7 The spike protein in nCOV-2019 exists in a meta-stable pre-fusion conformation that undergoes a substantial conformational rearrangement to fuse the viral membrane with the host cell membrane.7,8 nCOV-2019 is closely related to bat coronavirus RaTG13 with about 93.1% sequence similarity in the spike protein gene.
T20 747-968 Sentence denotes The sequence similarity of nCOV-2019 and SARS-COV is less than 80% in the spike sequence.2 The S1 subunit in the spike protein includes a receptor binding domain (RBD) that recognizes and binds to the host cells receptor.
T21 969-1672 Sentence denotes The RBD of nCOV-2019 shares 72.8% sequence identity to SARS-COV RBD and the root mean squared deviation (RMSD) for the structure between the two proteins is 1.2Å, which shows the high structural similarity.4,8,9 Experimental binding affinity measurements using surface plasmon resonance (SPR) have shown that nCOV-2019 spike protein binds its receptor human angiotensin converter enzyme (ACE2) with 10 to 20 fold higher affinity than SARS-COV binding to ACE2.7 Based on the sequence similarity between RBD of nCOV-2019 and SARS-COV and also the tight binding between the RBD of nCOV-2019 and ACE2, it is most probable that nCOV-2019 uses this receptor on human cells to gain entry into the body.3,6,7,10

LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
103 227-232 Gene denotes spike Gene:43740568
104 436-441 Gene denotes spike Gene:43740568
105 727-732 Gene denotes spike Gene:43740568
106 860-865 Gene denotes spike Gene:43740568
107 1288-1293 Gene denotes spike Gene:43740568
108 1357-1361 Gene denotes ACE2 Gene:59272
109 1423-1427 Gene denotes ACE2 Gene:59272
110 1561-1565 Gene denotes ACE2 Gene:59272
111 821-826 Gene denotes spike Gene:43740568
112 7-20 Species denotes coronaviruses Tax:11118
113 90-101 Species denotes coronavirus Tax:11118
114 215-226 Species denotes Coronavirus Tax:11118
115 453-457 Species denotes nCOV Tax:2697049
116 628-632 Species denotes nCOV Tax:2697049
117 660-682 Species denotes bat coronavirus RaTG13 Tax:2709072
118 774-778 Species denotes nCOV Tax:2697049
119 788-796 Species denotes SARS-COV Tax:694009
120 980-984 Species denotes nCOV Tax:2697049
121 1024-1032 Species denotes SARS-COV Tax:694009
122 1278-1282 Species denotes nCOV Tax:2697049
123 1321-1326 Species denotes human Tax:9606
124 1403-1411 Species denotes SARS-COV Tax:694009
125 1478-1482 Species denotes nCOV Tax:2697049
126 1492-1500 Species denotes SARS-COV Tax:694009
127 1547-1551 Species denotes nCOV Tax:2697049
128 1592-1596 Species denotes nCOV Tax:2697049
129 1624-1629 Species denotes human Tax:9606