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PMC:7033720 / 16656-18444 JSONTXT

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LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
287 1097-1102 Gene denotes ORF1b Gene:43740578
288 986-990 Species denotes CoVs Tax:11118
289 1011-1020 Species denotes 2019-nCoV Tax:2697049
290 1053-1057 Species denotes CoVs Tax:11118
291 1161-1166 Species denotes human Tax:9606
292 1268-1272 Species denotes CoVs Tax:11118
293 1390-1398 Species denotes SARS-CoV Tax:694009
294 1574-1578 Species denotes CoVs Tax:11118
295 1752-1761 Species denotes SARS CoVs Tax:694009
315 613-618 Gene denotes ORF1b Gene:43740578
316 19-28 Species denotes 2019-nCoV Tax:2697049
317 140-149 Species denotes 2019-nCoV Tax:2697049
318 162-166 Species denotes CoVs Tax:11118
319 195-209 Species denotes Horseshoe bats Tax:49442
320 264-279 Species denotes bat coronavirus Tax:1508220
321 389-392 Species denotes CoV Tax:11118
322 500-505 Species denotes human Tax:9606
323 506-509 Species denotes CoV Tax:11118
324 521-529 Species denotes SARS-CoV Tax:694009
325 546-555 Species denotes 2019-nCoV Tax:2697049
326 580-593 Species denotes Coronaviridae Tax:11118
327 657-661 Species denotes CoVs Tax:11118
328 732-741 Species denotes 2019-nCoV Tax:2697049
329 765-778 Species denotes β-coronavirus Tax:694002
330 849-853 Species denotes CoVs Tax:11118
331 907-921 Species denotes horseshoe bats Tax:49442
332 182-193 Species denotes Rhinolophus Tax:89399
333 890-901 Species denotes Rhinolophus Tax:89399

LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T73 4-11 Body_part denotes genomes http://purl.org/sig/ont/fma/fma84116
T74 106-112 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T75 241-251 Body_part denotes nucleotide http://purl.org/sig/ont/fma/fma82740
T76 346-350 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402
T77 362-372 Body_part denotes nucleotide http://purl.org/sig/ont/fma/fma82740
T78 619-626 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T79 1103-1110 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T80 1290-1296 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T81 1444-1450 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T82 1620-1630 Body_part denotes nucleotide http://purl.org/sig/ont/fma/fma82740
T83 1708-1712 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402
T84 1767-1771 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T30 521-529 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T31 1390-1398 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T32 1564-1568 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T33 1752-1756 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T169 205-209 http://purl.obolibrary.org/obo/NCBITaxon_9397 denotes bats
T170 264-267 http://purl.obolibrary.org/obo/NCBITaxon_9397 denotes bat
T171 346-350 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene
T172 385-388 http://purl.obolibrary.org/obo/NCBITaxon_9397 denotes bat
T173 400-403 http://purl.obolibrary.org/obo/NCBITaxon_9397 denotes bat
T174 419-422 http://purl.obolibrary.org/obo/NCBITaxon_9397 denotes bat
T175 500-505 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T176 807-808 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T177 842-845 http://purl.obolibrary.org/obo/NCBITaxon_9397 denotes bat
T178 917-921 http://purl.obolibrary.org/obo/NCBITaxon_9397 denotes bats
T179 992-993 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T180 1161-1166 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T181 1178-1185 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes viruses
T182 1287-1288 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T183 1327-1334 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes viruses
T184 1371-1374 http://purl.obolibrary.org/obo/NCBITaxon_9397 denotes bat
T185 1402-1403 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T186 1541-1548 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes viruses
T187 1648-1653 http://purl.obolibrary.org/obo/OGG_0000000002 denotes genes
T188 1708-1712 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene
T189 1767-1771 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T43 241-251 Chemical denotes nucleotide http://purl.obolibrary.org/obo/CHEBI_36976
T44 362-372 Chemical denotes nucleotide http://purl.obolibrary.org/obo/CHEBI_36976
T45 404-406 Chemical denotes SL http://purl.obolibrary.org/obo/CHEBI_74815
T46 423-425 Chemical denotes SL http://purl.obolibrary.org/obo/CHEBI_74815
T47 619-626 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T48 846-848 Chemical denotes SL http://purl.obolibrary.org/obo/CHEBI_74815
T49 1103-1110 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T50 1252-1257 Chemical denotes alpha http://purl.obolibrary.org/obo/CHEBI_30216
T51 1263-1267 Chemical denotes beta http://purl.obolibrary.org/obo/CHEBI_10545
T52 1375-1377 Chemical denotes SL http://purl.obolibrary.org/obo/CHEBI_74815
T53 1620-1630 Chemical denotes nucleotide http://purl.obolibrary.org/obo/CHEBI_36976

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T163 0-100 Sentence denotes The genomes of the 2019-nCoV were further analysed to determine its origin and evolutionary history.
T164 101-211 Sentence denotes Full genome comparisons indicated that 2019-nCoV is close to CoVs circulating in Rhinolophus (Horseshoe bats).
T165 212-538 Sentence denotes For example, it shared 98.7% nucleotide identity to bat coronavirus strain BtCoV/4991 (GenBank KP876546, only 370 nt sequence of RdRp gene) and 87.9% nucleotide identity to bat CoV strain bat-SL-CoVZC45 and bat-SL-CoVZXC21, indicating that it was quite divergent from the currently known human CoV, including SARS-CoV (79.7%).
T166 539-710 Sentence denotes To put 2019-nCoV in the context of whole Coronaviridae family, we aligned ORF1b protein sequences from representative CoVs diversity for phylogenetic analyses (Figure 3A).
T167 711-923 Sentence denotes It revealed that the 2019-nCoV is grouped under genus β-coronavirus, subgenus Sarbecovirus, and a cluster that is known to harbour bat-SL-CoVs, many of which were associated with Rhinolophus sp. (horseshoe bats).
T168 924-933 Sentence denotes Figure 3.
T169 934-991 Sentence denotes Origin and evolutionary history of newly identified CoVs.
T170 992-1058 Sentence denotes A. the position of 2019-nCoV in the context of all reference CoVs.
T171 1059-1121 Sentence denotes The phylogeny is constructed based on ORF1b protein alignment.
T172 1122-1186 Sentence denotes For clarity, names were only shown for human-associated viruses.
T173 1187-1286 Sentence denotes Bat associated diversity is shaded with blue and green boxes for alpha- and beta-CoVs respectively.
T174 1287-1451 Sentence denotes B. genome structure of newly identified viruses and its sequence similarity against bat-SL-CoVZC45 and SARS-CoV in a 1000bp sliding window across the entire genome.
T175 1452-1513 Sentence denotes Recombination breakpoints are shown as dashed vertical lines.
T176 1514-1579 Sentence denotes C. the relationship of WHU viruses with the other SARS-like CoVs.
T177 1580-1679 Sentence denotes Phylogeny is reconstructed based on the nucleotide sequence of four genes: namely 1a, 1b, S, and N.
T178 1680-1788 Sentence denotes Those grouped with WHU at S gene are marked red, and those grouped with SARS CoVs at S gene are marked blue.