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LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T1 289-292 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T2 323-330 Body_part denotes genomes http://purl.org/sig/ont/fma/fma84116
T3 351-355 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402
T4 377-380 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T5 664-670 Body_part denotes uracil http://purl.org/sig/ont/fma/fma82778
T6 727-735 Body_part denotes cytosine http://purl.org/sig/ont/fma/fma82776
T7 800-803 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T8 896-899 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T9 978-984 Body_part denotes uracil http://purl.org/sig/ont/fma/fma82778
T10 1000-1007 Body_part denotes guanine http://purl.org/sig/ont/fma/fma82775
T11 1161-1170 Body_part denotes cytokines http://purl.org/sig/ont/fma/fma84050
T12 1199-1203 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T13 1306-1309 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T14 1404-1413 Body_part denotes cytokines http://purl.org/sig/ont/fma/fma84050

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T1 23-31 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T2 109-156 Disease denotes Severe acute respiratory syndrome coronavirus 2 http://purl.obolibrary.org/obo/MONDO_0100096
T3 158-166 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T4 170-179 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T5 195-204 Disease denotes pneumonia http://purl.obolibrary.org/obo/MONDO_0005249
T6 272-280 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T7 416-424 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T8 609-617 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T9 1102-1110 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T10 1351-1359 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T1 225-226 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T2 351-355 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene
T3 381-388 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes viruses
T4 572-573 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T5 1199-1209 http://purl.obolibrary.org/obo/CLO_0000031 denotes cell lines
T6 1279-1284 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T7 1321-1322 http://purl.obolibrary.org/obo/CLO_0001020 denotes a

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T1 664-670 Chemical denotes uracil http://purl.obolibrary.org/obo/CHEBI_17568
T2 727-735 Chemical denotes cytosine http://purl.obolibrary.org/obo/CHEBI_16040
T3 978-984 Chemical denotes uracil http://purl.obolibrary.org/obo/CHEBI_17568
T4 1000-1007 Chemical denotes guanine http://purl.obolibrary.org/obo/CHEBI_16235
T5 1190-1192 Chemical denotes IL http://purl.obolibrary.org/obo/CHEBI_63895|http://purl.obolibrary.org/obo/CHEBI_74072

LitCovid-PD-GO-BP

Id Subject Object Predicate Lexical cue
T1 75-107 http://purl.obolibrary.org/obo/GO_0050729 denotes stimulate inflammatory responses
T2 85-107 http://purl.obolibrary.org/obo/GO_0006954 denotes inflammatory responses
T3 800-811 http://purl.obolibrary.org/obo/GO_0009451 denotes RNA editing
T4 896-907 http://purl.obolibrary.org/obo/GO_0009451 denotes RNA editing
T5 1306-1317 http://purl.obolibrary.org/obo/GO_0009451 denotes RNA editing
T6 1404-1424 http://purl.obolibrary.org/obo/GO_0001816 denotes cytokines production

LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
1 23-33 Species denotes SARS-CoV-2 Tax:2697049
21 109-156 Species denotes Severe acute respiratory syndrome coronavirus 2 Tax:2697049
22 158-168 Species denotes SARS-CoV-2 Tax:2697049
23 170-179 Disease denotes infection MESH:D007239
24 195-204 Disease denotes pneumonia MESH:D011014
25 247-260 Species denotes Coronaviruses Tax:11118
26 272-282 Species denotes SARS-CoV-2 Tax:2697049
27 416-426 Species denotes SARS-CoV-2 Tax:2697049
28 609-619 Species denotes SARS-CoV-2 Tax:2697049
29 664-670 Chemical denotes uracil MESH:D014498
30 727-735 Chemical denotes cytosine MESH:D003596
31 737-738 Chemical denotes C MESH:D003596
32 917-922 Gene denotes ADARs
33 978-984 Chemical denotes uracil MESH:D014498
34 1000-1007 Chemical denotes guanine MESH:D006147
35 1102-1112 Species denotes SARS-CoV-2 Tax:2697049
36 1180-1185 Gene denotes TNF-α Gene:7124
37 1190-1194 Gene denotes IL-6 Gene:3569
38 1248-1253 Chemical denotes ssRNA
39 1351-1361 Species denotes SARS-CoV-2 Tax:2697049

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T1 0-108 Sentence denotes Point mutation bias in SARS-CoV-2 variants results in increased ability to stimulate inflammatory responses.
T2 109-246 Sentence denotes Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) infection induces severe pneumonia and is the cause of a worldwide pandemic.
T3 247-389 Sentence denotes Coronaviruses, including SARS-CoV-2, have RNA proofreading enzymes in their genomes, resulting in fewer gene mutations than other RNA viruses.
T4 390-548 Sentence denotes Nevertheless, variants of SARS-CoV-2 exist and may induce different symptoms; however, the factors and the impacts of these mutations are not well understood.
T5 549-675 Sentence denotes We found that there is a bias to the mutations occurring in SARS-CoV-2 variants, with disproportionate mutation to uracil (U).
T6 676-829 Sentence denotes These point mutations to U are mainly derived from cytosine (C), which is consistent with the substrate specificity of host RNA editing enzymes, APOBECs.
T7 830-923 Sentence denotes We also found the point mutations which are consistent with other RNA editing enzymes, ADARs.
T8 924-1061 Sentence denotes For the C-to-U mutations, the context of the upstream uracil and downstream guanine from mutated position was found to be most prevalent.
T9 1062-1294 Sentence denotes Further, the degree of increase of U in SARS-CoV-2 variants correlates with enhanced production of cytokines, such as TNF-α and IL-6, in cell lines when compared with stimulation by the ssRNA sequence of the isolated virus in Wuhan.
T10 1295-1425 Sentence denotes Therefore, RNA editing is a factor for mutation bias in SARS-CoV-2 variants, which affects host inflammatory cytokines production.

LitCovid-PD-HP

Id Subject Object Predicate Lexical cue hp_id
T1 195-204 Phenotype denotes pneumonia http://purl.obolibrary.org/obo/HP_0002090

LitCovid_AGAC_only

Id Subject Object Predicate Lexical cue
p240931s5 27-33 Gene denotes -CoV-2
p240931s9 34-42 Var denotes variants
p240931s12 54-63 PosReg denotes increased
p240931s13 64-71 MPA denotes ability
p240931s15 75-84 PosReg denotes stimulate
p240931s16 85-107 MPA denotes inflammatory responses
p240933s8 180-187 Reg denotes induces
p240933s14 216-221 Reg denotes cause
p240940s5 1085-1093 PosReg denotes increase
p240940s7 1097-1098 MPA denotes U
p240940s10 1106-1112 Gene denotes -CoV-2
p240940s14 1113-1121 Var denotes variants
p240940s17 1138-1146 PosReg denotes enhanced
p240940s18 1147-1170 MPA denotes production of cytokines
p240940s24 1180-1185 MPA denotes TNF-α
p240940s28 1190-1194 MPA denotes IL-6
p240941s19 1378-1385 Reg denotes affects
p240941s20 1386-1424 MPA denotes host inflammatory cytokines production

mondo_disease

Id Subject Object Predicate Lexical cue mondo_id
T1 23-33 Disease denotes SARS-CoV-2 http://purl.obolibrary.org/obo/MONDO_0100096
T2 109-156 Disease denotes Severe acute respiratory syndrome coronavirus 2 http://purl.obolibrary.org/obo/MONDO_0100096
T3 158-168 Disease denotes SARS-CoV-2 http://purl.obolibrary.org/obo/MONDO_0100096
T4 170-179 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T5 195-204 Disease denotes pneumonia http://purl.obolibrary.org/obo/MONDO_0005249
T6 272-282 Disease denotes SARS-CoV-2 http://purl.obolibrary.org/obo/MONDO_0100096
T7 416-426 Disease denotes SARS-CoV-2 http://purl.obolibrary.org/obo/MONDO_0100096
T8 609-619 Disease denotes SARS-CoV-2 http://purl.obolibrary.org/obo/MONDO_0100096
T9 1102-1112 Disease denotes SARS-CoV-2 http://purl.obolibrary.org/obo/MONDO_0100096
T10 1351-1361 Disease denotes SARS-CoV-2 http://purl.obolibrary.org/obo/MONDO_0100096

NCBITAXON

Id Subject Object Predicate Lexical cue db_id
T1 23-31 OrganismTaxon denotes SARS-CoV 694009
T2 109-142 OrganismTaxon denotes Severe acute respiratory syndrome 694009
T3 158-166 OrganismTaxon denotes SARS-CoV 694009
T4 272-280 OrganismTaxon denotes SARS-CoV 694009
T5 377-388 OrganismTaxon denotes RNA viruses 2559587
T6 416-424 OrganismTaxon denotes SARS-CoV 694009
T7 609-617 OrganismTaxon denotes SARS-CoV 694009
T8 1102-1110 OrganismTaxon denotes SARS-CoV 694009
T9 1351-1359 OrganismTaxon denotes SARS-CoV 694009

HP-phenotype

Id Subject Object Predicate Lexical cue hp_id
T1 195-204 Phenotype denotes pneumonia HP:0002090