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PMC:7073332 / 12242-14735 JSONTXT

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LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
343 0-4 Species denotes HCoV Tax:694448
345 1900-1904 Species denotes HCoV Tax:694448
350 2400-2405 Species denotes human Tax:9606
351 1955-1959 Species denotes HCoV Tax:694448
352 2009-2013 Species denotes HCoV Tax:694448
353 2468-2472 Species denotes HCoV Tax:694448
380 600-604 Gene denotes XPO1 Gene:7514
381 606-610 Gene denotes NPM1 Gene:4869
382 616-623 Gene denotes HNRNPA1 Gene:3178
383 1572-1577 Gene denotes GSK3B Gene:2932
384 1579-1583 Gene denotes DPP4 Gene:1803
385 1585-1590 Gene denotes SMAD3 Gene:4088
386 1592-1597 Gene denotes PARP1 Gene:142
387 1603-1608 Gene denotes IKBKB Gene:3551
388 92-95 Species denotes CoV Tax:11118
389 144-152 Species denotes SARS-CoV Tax:694009
390 154-162 Species denotes MERS-CoV Tax:1335626
391 164-173 Species denotes HCoV-229E Tax:11137
392 179-188 Species denotes HCoV-NL63 Tax:277944
393 195-200 Species denotes mouse Tax:10090
394 318-322 Species denotes CoVs Tax:11118
395 1425-1430 Species denotes human Tax:9606
396 1835-1844 Species denotes 2019-nCoV Tax:2697049
397 1845-1855 Species denotes SARS-CoV-2 Tax:2697049
398 44-48 Species denotes HCoV Tax:694448
399 426-430 Species denotes HCoV Tax:694448
400 499-503 Species denotes HCoV Tax:694448
401 1343-1347 Species denotes HCoV Tax:694448
402 1668-1672 Species denotes HCoV Tax:694448
403 479-493 Disease denotes HCoV infection MESH:D007239
404 855-883 Disease denotes Epstein-Barr virus infection MESH:D020031
405 995-1010 Disease denotes viral infection MESH:D001102

LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T54 112-120 Body_part denotes proteins http://purl.org/sig/ont/fma/fma67257
T55 227-234 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T56 293-301 Body_part denotes proteins http://purl.org/sig/ont/fma/fma67257
T57 384-392 Body_part denotes proteins http://purl.org/sig/ont/fma/fma67257
T58 431-439 Body_part denotes proteins http://purl.org/sig/ont/fma/fma67257
T59 576-584 Body_part denotes proteins http://purl.org/sig/ont/fma/fma67257
T60 679-687 Body_part denotes proteins http://purl.org/sig/ont/fma/fma67257
T61 818-821 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T62 910-914 Body_part denotes Gene http://purl.org/sig/ont/fma/fma74402
T63 1245-1249 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T64 1431-1439 Body_part denotes proteins http://purl.org/sig/ont/fma/fma67257
T65 1633-1641 Body_part denotes proteins http://purl.org/sig/ont/fma/fma67257
T66 1777-1785 Body_part denotes proteins http://purl.org/sig/ont/fma/fma67257
T67 2030-2038 Body_part denotes proteins http://purl.org/sig/ont/fma/fma67257
T68 2053-2061 Body_part denotes proteins http://purl.org/sig/ont/fma/fma67257
T69 2145-2153 Body_part denotes proteins http://purl.org/sig/ont/fma/fma67257
T70 2197-2204 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T71 2205-2212 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T72 2300-2307 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T73 2308-2315 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T74 2422-2426 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402
T75 2484-2492 Body_part denotes proteins http://purl.org/sig/ont/fma/fma67257

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T54 144-152 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T55 484-493 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T56 809-816 Disease denotes measles http://purl.obolibrary.org/obo/MONDO_0004619
T57 855-883 Disease denotes Epstein-Barr virus infection http://purl.obolibrary.org/obo/MONDO_0005111
T58 868-883 Disease denotes virus infection http://purl.obolibrary.org/obo/MONDO_0005108
T59 874-883 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T60 889-898 Disease denotes influenza http://purl.obolibrary.org/obo/MONDO_0005812
T61 995-1010 Disease denotes viral infection http://purl.obolibrary.org/obo/MONDO_0005108
T62 1001-1010 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T63 1845-1853 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T84 195-200 http://purl.obolibrary.org/obo/CLO_0007836 denotes mouse
T85 842-843 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T86 844-853 http://purl.obolibrary.org/obo/SO_0000418 denotes signaling
T87 868-873 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T88 910-914 http://purl.obolibrary.org/obo/OGG_0000000002 denotes Gene
T89 1099-1104 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T90 1208-1213 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T91 1245-1249 http://purl.obolibrary.org/obo/GO_0005623 denotes cell
T92 1425-1439 http://purl.obolibrary.org/obo/PR_000029067 denotes human proteins
T93 1714-1715 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T94 1923-1926 http://purl.obolibrary.org/obo/CLO_0001627 denotes a A
T95 2390-2391 http://purl.obolibrary.org/obo/CLO_0001021 denotes b
T96 2400-2405 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T97 2415-2416 http://purl.obolibrary.org/obo/CLO_0001021 denotes b
T98 2422-2426 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T113 112-120 Chemical denotes proteins http://purl.obolibrary.org/obo/CHEBI_36080
T114 227-234 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T115 257-259 Chemical denotes S3 http://purl.obolibrary.org/obo/CHEBI_29388
T116 293-301 Chemical denotes proteins http://purl.obolibrary.org/obo/CHEBI_36080
T117 384-392 Chemical denotes proteins http://purl.obolibrary.org/obo/CHEBI_36080
T118 431-439 Chemical denotes proteins http://purl.obolibrary.org/obo/CHEBI_36080
T119 576-584 Chemical denotes proteins http://purl.obolibrary.org/obo/CHEBI_36080
T120 679-687 Chemical denotes proteins http://purl.obolibrary.org/obo/CHEBI_36080
T121 833-835 Chemical denotes NF http://purl.obolibrary.org/obo/CHEBI_141424|http://purl.obolibrary.org/obo/CHEBI_25573|http://purl.obolibrary.org/obo/CHEBI_1224
T124 1286-1290 Chemical denotes drug http://purl.obolibrary.org/obo/CHEBI_23888
T125 1431-1439 Chemical denotes proteins http://purl.obolibrary.org/obo/CHEBI_36080
T126 1510-1514 Chemical denotes drug http://purl.obolibrary.org/obo/CHEBI_23888
T127 1531-1535 Chemical denotes drug http://purl.obolibrary.org/obo/CHEBI_23888
T128 1633-1641 Chemical denotes proteins http://purl.obolibrary.org/obo/CHEBI_36080
T129 1716-1720 Chemical denotes drug http://purl.obolibrary.org/obo/CHEBI_23888
T130 1777-1785 Chemical denotes proteins http://purl.obolibrary.org/obo/CHEBI_36080
T131 2030-2038 Chemical denotes proteins http://purl.obolibrary.org/obo/CHEBI_36080
T132 2053-2061 Chemical denotes proteins http://purl.obolibrary.org/obo/CHEBI_36080
T133 2090-2095 Chemical denotes drugs http://purl.obolibrary.org/obo/CHEBI_23888
T134 2099-2104 Chemical denotes drugs http://purl.obolibrary.org/obo/CHEBI_23888
T135 2145-2153 Chemical denotes proteins http://purl.obolibrary.org/obo/CHEBI_36080
T136 2176-2183 Chemical denotes ligands http://purl.obolibrary.org/obo/CHEBI_52214
T137 2197-2204 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T138 2205-2212 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T139 2300-2307 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T140 2308-2315 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T141 2484-2492 Chemical denotes proteins http://purl.obolibrary.org/obo/CHEBI_36080

LitCovid-PD-GO-BP

Id Subject Object Predicate Lexical cue
T6 818-831 http://purl.obolibrary.org/obo/GO_0050658 denotes RNA transport
T7 822-831 http://purl.obolibrary.org/obo/GO_0006810 denotes transport
T8 844-853 http://purl.obolibrary.org/obo/GO_0023052 denotes signaling
T9 995-1010 http://purl.obolibrary.org/obo/GO_0016032 denotes viral infection
T10 1067-1083 http://purl.obolibrary.org/obo/GO_0019058 denotes viral life cycle
T11 1139-1152 http://purl.obolibrary.org/obo/GO_0016032 denotes viral process
T12 1154-1193 http://purl.obolibrary.org/obo/GO_1903902 denotes positive regulation of viral life cycle
T13 1154-1193 http://purl.obolibrary.org/obo/GO_0048524 denotes positive regulation of viral life cycle
T14 1163-1193 http://purl.obolibrary.org/obo/GO_1903900 denotes regulation of viral life cycle
T15 1163-1173 http://purl.obolibrary.org/obo/GO_0065007 denotes regulation
T16 1177-1193 http://purl.obolibrary.org/obo/GO_0019058 denotes viral life cycle
T17 1195-1213 http://purl.obolibrary.org/obo/GO_0046794 denotes transport of virus
T18 1195-1204 http://purl.obolibrary.org/obo/GO_0006810 denotes transport
T19 1219-1249 http://purl.obolibrary.org/obo/GO_0019062 denotes virion attachment to host cell
T20 1603-1608 http://purl.obolibrary.org/obo/GO_0008384 denotes IKBKB

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T74 0-29 Sentence denotes HCoV–host interactome network
T75 30-261 Sentence denotes To depict the HCoV–host interactome network, we assembled the CoV-associated host proteins from four known HCoVs (SARS-CoV, MERS-CoV, HCoV-229E, and HCoV-NL63), one mouse MHV, and one avian IBV (N protein) (Supplementary Table S3).
T76 262-358 Sentence denotes In total, we obtained 119 host proteins associated with CoVs with various experimental evidence.
T77 359-494 Sentence denotes Specifically, these host proteins are either the direct targets of HCoV proteins or are involved in crucial pathways of HCoV infection.
T78 495-549 Sentence denotes The HCoV–host interactome network is shown in Fig. 3a.
T79 550-688 Sentence denotes We identified several hub proteins including JUN, XPO1, NPM1, and HNRNPA1, with the highest number of connections within the 119 proteins.
T80 689-909 Sentence denotes KEGG pathway enrichment analysis revealed multiple significant biological pathways (adjusted P value < 0.05), including measles, RNA transport, NF-kappa B signaling, Epstein-Barr virus infection, and influenza (Fig. 3b).
T81 910-1260 Sentence denotes Gene ontology (GO) biological process enrichment analysis further confirmed multiple viral infection-related processes (adjusted P value < 0.001), including viral life cycle, modulation by virus of host morphology or physiology, viral process, positive regulation of viral life cycle, transport of virus, and virion attachment to host cell (Fig. 3c).
T82 1261-1407 Sentence denotes We then mapped the known drug–target network (see Materials and methods) into the HCoV–host interactome to search for druggable, cellular targets.
T83 1408-1558 Sentence denotes We found that 47 human proteins (39%, blue nodes in Fig. 3a) can be targeted by at least one approved drug or experimental drug under clinical trials.
T84 1559-1642 Sentence denotes For example, GSK3B, DPP4, SMAD3, PARP1, and IKBKB are the most targetable proteins.
T85 1643-1856 Sentence denotes The high druggability of HCoV–host interactome motivates us to develop a drug repurposing strategy by specifically targeting cellular proteins associated with HCoVs for potential treatment of 2019-nCoV/SARS-CoV-2.
T86 1857-1922 Sentence denotes Fig. 3 Drug-target network analysis of the HCoV–host interactome.
T87 1923-1977 Sentence denotes a A subnetwork highlighting the HCoV–host interactome.
T88 1978-2235 Sentence denotes Nodes represent three types of HCoV-associated host proteins: targetgable (proteins can be targeted by approved drugs or drugs under clinical trials), non-targetable (proteins do not have any known ligands), neighbors (protein–protein interaction partners).
T89 2236-2357 Sentence denotes Edge colors indicate five types of experimental evidence of the protein–protein interactions (see Materials and methods).
T90 2358-2493 Sentence denotes 3D three-dimensional structure. b, c KEGG human pathway (b) and gene ontology enrichment analyses (c) for the HCoV-associated proteins.