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PMC:7519301 / 25853-26991 JSONTXT

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LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T94 222-234 Body_part denotes glycoprotein http://purl.org/sig/ont/fma/fma62925
T95 236-243 Body_part denotes Protein http://purl.org/sig/ont/fma/fma67257
T96 684-694 Body_part denotes Amino acid http://purl.org/sig/ont/fma/fma82739

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T121 26-34 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T122 26-30 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T123 37-48 Disease denotes S sequences http://purl.obolibrary.org/obo/MONDO_0007821
T124 67-75 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T125 67-71 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T126 103-111 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T127 103-107 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T128 209-217 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T129 209-213 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T130 860-868 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T131 860-864 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T132 952-960 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T133 952-956 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T207 51-52 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T208 170-171 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T209 352-353 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T210 528-529 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T211 651-656 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T212 673-676 http://purl.obolibrary.org/obo/NCBITaxon_9397 denotes bat
T213 711-714 http://purl.obolibrary.org/obo/CLO_0001375 denotes 455
T214 803-805 http://purl.obolibrary.org/obo/CLO_0008922 denotes S2
T215 803-805 http://purl.obolibrary.org/obo/CLO_0050052 denotes S2

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T79 222-234 Chemical denotes glycoprotein http://purl.obolibrary.org/obo/CHEBI_17089
T80 236-243 Chemical denotes Protein http://purl.obolibrary.org/obo/CHEBI_16541
T81 254-256 Chemical denotes ID http://purl.obolibrary.org/obo/CHEBI_141439
T82 684-694 Chemical denotes Amino acid http://purl.obolibrary.org/obo/CHEBI_33704
T83 690-694 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527
T84 803-805 Chemical denotes S2 http://purl.obolibrary.org/obo/CHEBI_29387

LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id tao:has_standard_notation
362 220-221 Gene denotes S Gene:43740568
363 37-38 Gene denotes S Gene:43740568
364 26-36 Species denotes SARS-CoV-2 Tax:2697049
365 67-75 Species denotes SARS-CoV Tax:694009
366 103-113 Species denotes SARS-CoV-2 Tax:2697049
367 209-219 Species denotes SARS-CoV-2 Tax:2697049
368 651-656 Species denotes human Tax:9606
369 860-870 Species denotes SARS-CoV-2 Tax:2697049
370 952-962 Species denotes SARS-CoV-2 Tax:2697049
371 540-545 Mutation denotes D614G p.D614G

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T157 0-7 Sentence denotes Fig. 5.
T158 9-307 Sentence denotes Mutations across SARS-CoV-2 S sequences. (A) Structure of SARS-CoV (5 × 58) (shown instead of SARS-CoV-2 for completeness of the Receptor Binding Motif [RBM]). (B–D) The three protomers in the closed SARS-CoV-2 S glycoprotein (Protein Data Bank ID code 6VXX) are colored in yellow, cyan, and white.
T159 308-401 Sentence denotes Sites with mutations are shown as spheres. (B) Near-identity of potential vaccine candidates.
T160 402-547 Sentence denotes The MRCA and Wuhan-Hu-1 reference sequences were identical, while the consensus derived from all circulating sequences showed a mutation (D614G).
T161 548-683 Sentence denotes Site 614 is located at the interface between two subunits. (C) Sequence segments that differed between human and pangolin or bat hosts.
T162 684-893 Sentence denotes Amino acid segments 439 to 455 and 482 to 501 impact receptor binding, while the 574 to 690 segment corresponds to the S2 cleavage site. (D) Sites with shared mutations across SARS-CoV-2 circulating sequences.
T163 894-1061 Sentence denotes The colors of the spheres correspond to the proportion of SARS-CoV-2 sequences that differed from the Wuhan-Hu-1 sequence (GISAID: EPI_ISL_402125, GenBank: NC_045512).
T164 1062-1138 Sentence denotes Mutations that were found only in one or two sequences were not represented.