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PMC:7102556 / 9880-11873 JSONTXT

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LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
192 1213-1214 Gene denotes S Gene:43740568
193 1147-1160 Species denotes coronaviruses Tax:11118
194 1228-1237 Species denotes 2019-nCoV Tax:2697049
195 1277-1285 Species denotes SARS-CoV Tax:694009
196 1660-1668 Species denotes SARS-CoV Tax:694009
197 1414-1424 CellLine denotes MG772934.1 CVCL:8732
213 553-554 Gene denotes S Gene:43740568
214 5-9 Species denotes CoVs Tax:11118
215 196-205 Species denotes 2019-nCoV Tax:2697049
216 233-241 Species denotes MERS-CoV Tax:1335626
217 321-329 Species denotes SARS-CoV Tax:694009
218 366-375 Species denotes 2019-nCoV Tax:2697049
219 405-413 Species denotes SARS-CoV Tax:694009
220 476-484 Species denotes SARS-CoV Tax:694009
221 582-591 Species denotes 2019-nCoV Tax:2697049
222 595-603 Species denotes SARS-CoV Tax:694009
223 637-640 Species denotes CoV Tax:11118
224 945-954 Species denotes 2019-nCoV Tax:2697049
225 51-60 Disease denotes infection MESH:D007239
226 516-535 Disease denotes 2019-nCoV infection MESH:C000657245
227 900-918 Disease denotes SARS-CoV infection MESH:C000657245

LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T59 103-111 Body_part denotes proteins http://purl.org/sig/ont/fma/fma67257
T60 555-562 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T61 974-984 Body_part denotes amino acid http://purl.org/sig/ont/fma/fma82739
T62 1126-1133 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T63 1189-1199 Body_part denotes amino acid http://purl.org/sig/ont/fma/fma82739
T64 1215-1222 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T65 1528-1538 Body_part denotes amino acid http://purl.org/sig/ont/fma/fma82739
T66 1578-1588 Body_part denotes amino acid http://purl.org/sig/ont/fma/fma82739

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T31 51-60 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T32 321-329 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T33 405-413 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T34 476-484 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T35 516-535 Disease denotes 2019-nCoV infection http://purl.obolibrary.org/obo/MONDO_0100096
T36 526-535 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T37 595-603 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T38 900-918 Disease denotes SARS-CoV infection http://purl.obolibrary.org/obo/MONDO_0005091
T39 909-918 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T40 1277-1285 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T41 1660-1668 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T112 16-17 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T113 74-75 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T114 113-115 http://purl.obolibrary.org/obo/CLO_0053794 denotes 41
T115 339-342 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T116 593-594 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T117 633-636 http://purl.obolibrary.org/obo/NCBITaxon_9397 denotes bat
T118 740-747 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes viruses
T119 800-802 http://purl.obolibrary.org/obo/CLO_0050050 denotes S1
T120 804-805 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T121 1038-1043 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T122 1053-1054 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T123 1320-1323 http://purl.obolibrary.org/obo/NCBITaxon_9397 denotes bat
T124 1375-1378 http://purl.obolibrary.org/obo/NCBITaxon_9397 denotes bat
T125 1528-1547 http://purl.obolibrary.org/obo/CHEBI_33708 denotes amino acid residues
T126 1528-1547 http://purl.obolibrary.org/obo/PR_000036907 denotes amino acid residues
T127 1578-1597 http://purl.obolibrary.org/obo/CHEBI_33708 denotes amino acid residues
T128 1578-1597 http://purl.obolibrary.org/obo/PR_000036907 denotes amino acid residues
T129 1627-1634 http://purl.obolibrary.org/obo/CLO_0007225 denotes labeled
T130 1670-1672 http://purl.obolibrary.org/obo/CLO_0053794 denotes 41

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T52 103-111 Chemical denotes proteins http://purl.obolibrary.org/obo/CHEBI_36080
T53 555-562 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T54 974-984 Chemical denotes amino acid http://purl.obolibrary.org/obo/CHEBI_33709
T55 974-979 Chemical denotes amino http://purl.obolibrary.org/obo/CHEBI_46882
T56 980-984 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527
T57 1126-1133 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T58 1189-1199 Chemical denotes amino acid http://purl.obolibrary.org/obo/CHEBI_33709
T59 1189-1194 Chemical denotes amino http://purl.obolibrary.org/obo/CHEBI_46882
T60 1195-1199 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527
T61 1215-1222 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T62 1324-1326 Chemical denotes SL http://purl.obolibrary.org/obo/CHEBI_74815
T63 1379-1381 Chemical denotes SL http://purl.obolibrary.org/obo/CHEBI_74815
T64 1528-1538 Chemical denotes amino acid http://purl.obolibrary.org/obo/CHEBI_33709
T65 1528-1533 Chemical denotes amino http://purl.obolibrary.org/obo/CHEBI_46882
T66 1534-1538 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527
T67 1578-1588 Chemical denotes amino acid http://purl.obolibrary.org/obo/CHEBI_33709
T68 1578-1583 Chemical denotes amino http://purl.obolibrary.org/obo/CHEBI_46882
T69 1584-1588 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527

LitCovid-PD-GO-BP

Id Subject Object Predicate Lexical cue
T36 1044-1051 http://purl.obolibrary.org/obo/GO_0009606 denotes tropism
T37 1933-1942 http://purl.obolibrary.org/obo/GO_0009058 denotes formation

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T61 0-206 Sentence denotes Most CoVs share a similar viral structure, similar infection pathway, and a similar structure of the S proteins [41], suggesting that similar research strategies should also be applicable for the 2019-nCoV.
T62 207-335 Sentence denotes For example, the study of MERS-CoV vaccines was accelerated by virtue of strategies that had been established for SARS-CoV [42].
T63 336-422 Sentence denotes It has been reported that the 2019-nCoV is also genetically close to SARS-CoV [43,44].
T64 423-687 Sentence denotes Therefore, to predict whether vaccines developed for SARS-CoV will also be effective against 2019-nCoV infection, the full length S protein sequences from the 2019-nCoV, a SARS-CoV, and two genetically similar bat CoV strains were selected for alignment (Fig. 1 ).
T65 688-748 Sentence denotes The results indicated more than 50% homology of the viruses.
T66 749-1102 Sentence denotes However, the most variable residues are located in S1, a critical vaccine target, implying that neutralizing antibodies that were so effective against SARS-CoV infection may fail to recognize the 2019-nCoV, and that multiple amino acid differences at the receptor binding motif may modify virus tropism, a possible reason for cross-species transmission.
T67 1103-1161 Sentence denotes Fig. 1 Comparison of S protein sequences of coronaviruses.
T68 1162-1259 Sentence denotes Multiple alignment of full amino acid sequences of S protein from 2019-nCoV (GISAID accession no.
T69 1260-1308 Sentence denotes EPI_ISL_402124), SARS-CoV (GenBank accession no.
T70 1309-1357 Sentence denotes AY278489), bat-SL-CoVZC45 (GenBank accession no.
T71 1358-1413 Sentence denotes MG772933.1), and bat-SL-CoVZXC21 (GenBank accession no.
T72 1414-1598 Sentence denotes MG772934.1) was performed and displayed with clustalx1.83 and MEGA4 respectively. ‘‘-” represents the unconfirmed amino acid residues, “.” represents the identical amino acid residues.
T73 1599-1826 Sentence denotes The functional domains were labeled based on the research on SARS-CoV [41]; light blue box was for RBD region; dark blue box for receptor binding motif (RBM); light purple box for HR1; and dark purple box for HR2, respectively.
T74 1827-1993 Sentence denotes Double underlined regions in HR1 and HR2 are fusion cores, which are critical regions responsible for the formation of stable six-helical bundles between HR1 and HR2.

2_test

Id Subject Object Predicate Lexical cue
32017984-28393837-69697753 113-115 28393837 denotes 41
32017984-28393837-69697754 1670-1672 28393837 denotes 41