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PMC:7067204 / 204-1697 JSONTXT

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LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
58 673-676 Gene denotes bat Gene:570
59 487-490 Gene denotes bat Gene:570
60 184-186 Gene denotes as Gene:112935892
61 1402-1405 Gene denotes the Gene:25085
62 1369-1372 Gene denotes the Gene:25085
63 1327-1330 Gene denotes the Gene:25085
64 1238-1241 Gene denotes the Gene:25085
65 1141-1144 Gene denotes the Gene:25085
66 1083-1086 Gene denotes the Gene:25085
67 723-726 Gene denotes the Gene:25085
68 669-672 Gene denotes the Gene:25085
69 547-550 Gene denotes The Gene:25085
70 430-433 Gene denotes the Gene:25085
71 239-242 Gene denotes the Gene:25085
72 77-79 Gene denotes to Gene:6999
73 749-754 Gene denotes Spike Gene:43740568
74 588-593 Gene denotes Spike Gene:43740568
75 1105-1109 Gene denotes SARS Gene:6301
76 491-495 Gene denotes SARS Gene:6301
77 954-958 Gene denotes orf8 Gene:43740577
78 1413-1415 Gene denotes of Gene:6688
79 1263-1265 Gene denotes of Gene:6688
80 781-783 Gene denotes of Gene:6688
81 746-748 Gene denotes of Gene:6688
82 666-668 Gene denotes of Gene:6688
83 570-572 Gene denotes of Gene:6688
84 528-530 Gene denotes of Gene:6688
85 441-443 Gene denotes of Gene:6688
86 116-118 Gene denotes of Gene:6688
87 31-33 Gene denotes of Gene:6688
88 148-165 Species denotes novel coronavirus Tax:2697049
89 187-209 Species denotes 2019 novel coronavirus Tax:2697049
90 211-220 Species denotes 2019-nCoV Tax:2697049
91 332-339 Species denotes patient Tax:9606
92 400-411 Species denotes coronavirus Tax:11118
93 444-453 Species denotes 2019-nCoV Tax:2697049
94 537-545 Species denotes SARS-CoV Tax:694009
95 694-712 Species denotes SARS coronaviruses Tax:694009
96 784-793 Species denotes 2019-nCoV Tax:2697049
97 841-867 Species denotes SARS-related coronaviruses Tax:694009
98 1114-1119 Species denotes camel Tax:9838
99 1162-1171 Species denotes 2019-nCoV Tax:2697049
100 1287-1302 Species denotes betacoronavirus Tax:694002
101 43-52 Disease denotes pneumonia MESH:D011014
102 345-364 Disease denotes 2019-nCoV infection MESH:C000657245
103 1483-1492 Disease denotes infection MESH:D007239

LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T1 318-324 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T2 412-419 Body_part denotes genomes http://purl.org/sig/ont/fma/fma84116
T3 434-440 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T4 462-472 Body_part denotes nucleotide http://purl.org/sig/ont/fma/fma82740
T5 810-820 Body_part denotes amino acid http://purl.org/sig/ont/fma/fma82739
T6 924-931 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T7 985-992 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T8 1007-1012 Body_part denotes helix http://purl.org/sig/ont/fma/fma60992

LitCovid-PD-UBERON

Id Subject Object Predicate Lexical cue uberon_id
T1 1007-1012 Body_part denotes helix http://purl.obolibrary.org/obo/UBERON_0002488

LitCovid-PD-HP

Id Subject Object Predicate Lexical cue hp_id
T2 43-52 Phenotype denotes pneumonia http://purl.obolibrary.org/obo/HP_0002090

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T3 43-52 Disease denotes pneumonia http://purl.obolibrary.org/obo/MONDO_0005249
T4 345-364 Disease denotes 2019-nCoV infection http://purl.obolibrary.org/obo/MONDO_0100096
T5 355-364 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T6 491-495 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T7 537-545 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T8 694-698 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T9 841-845 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T10 1105-1109 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T11 1483-1492 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T3 9-10 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T4 80-81 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T5 133-134 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T6 146-147 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T7 256-268 http://purl.obolibrary.org/obo/OBI_0000245 denotes Organization
T8 310-311 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T9 312-317 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T10 330-331 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T11 454-457 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T12 487-490 http://purl.obolibrary.org/obo/NCBITaxon_9397 denotes bat
T13 531-536 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T14 585-586 http://purl.obolibrary.org/obo/CLO_0001021 denotes b
T15 605-613 http://purl.obolibrary.org/obo/UBERON_0000158 denotes Membrane
T16 673-676 http://purl.obolibrary.org/obo/NCBITaxon_9397 denotes bat
T17 688-693 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T18 899-900 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T19 974-975 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T20 1029-1030 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T21 1114-1119 http://purl.obolibrary.org/obo/NCBITaxon_9837 denotes camel
T22 1145-1151 http://purl.obolibrary.org/obo/NCBITaxon_33208 denotes animal
T23 1195-1200 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T24 1285-1286 http://purl.obolibrary.org/obo/CLO_0001021 denotes B

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T3 462-472 Chemical denotes nucleotide http://purl.obolibrary.org/obo/CHEBI_36976
T4 810-820 Chemical denotes amino acid http://purl.obolibrary.org/obo/CHEBI_33709
T5 810-815 Chemical denotes amino http://purl.obolibrary.org/obo/CHEBI_46882
T6 816-820 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527
T7 924-931 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T8 985-992 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T9 1001-1006 Chemical denotes alpha http://purl.obolibrary.org/obo/CHEBI_30216
T10 1031-1035 Chemical denotes beta http://purl.obolibrary.org/obo/CHEBI_10545
T11 1428-1437 Chemical denotes antiviral http://purl.obolibrary.org/obo/CHEBI_22587

LitCovid-PD-GO-BP

Id Subject Object Predicate Lexical cue
T1 1069-1077 http://purl.obolibrary.org/obo/GO_0007612 denotes Learning
T2 1373-1385 http://purl.obolibrary.org/obo/GO_0009405 denotes pathogenesis

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T7 0-8 Sentence denotes ABSTRACT
T8 9-125 Sentence denotes A mysterious outbreak of atypical pneumonia in late 2019 was traced to a seafood wholesale market in Wuhan of China.
T9 126-269 Sentence denotes Within a few weeks, a novel coronavirus tentatively named as 2019 novel coronavirus (2019-nCoV) was announced by the World Health Organization.
T10 270-420 Sentence denotes We performed bioinformatics analysis on a virus genome from a patient with 2019-nCoV infection and compared it with other related coronavirus genomes.
T11 421-546 Sentence denotes Overall, the genome of 2019-nCoV has 89% nucleotide identity with bat SARS-like-CoVZXC21 and 82% with that of human SARS-CoV.
T12 547-713 Sentence denotes The phylogenetic trees of their orf1a/b, Spike, Envelope, Membrane and Nucleoprotein also clustered closely with those of the bat, civet and human SARS coronaviruses.
T13 714-868 Sentence denotes However, the external subdomain of Spike’s receptor binding domain of 2019-nCoV shares only 40% amino acid identity with other SARS-related coronaviruses.
T14 869-932 Sentence denotes Remarkably, its orf3b encodes a completely novel short protein.
T15 933-1068 Sentence denotes Furthermore, its new orf8 likely encodes a secreted protein with an alpha-helix, following with a beta-sheet(s) containing six strands.
T16 1069-1303 Sentence denotes Learning from the roles of civet in SARS and camel in MERS, hunting for the animal source of 2019-nCoV and its more ancestral virus would be important for understanding the origin and evolution of this novel lineage B betacoronavirus.
T17 1304-1493 Sentence denotes These findings provide the basis for starting further studies on the pathogenesis, and optimizing the design of diagnostic, antiviral and vaccination strategies for this emerging infection.