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PMC:7200337 / 73085-75250 JSONTXT

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2_test

Id Subject Object Predicate Lexical cue
32505227-29511076-46575385 406-410 29511076 denotes 2018
32505227-28659436-46575386 543-547 28659436 denotes 2017
32505227-32054787-46575387 564-568 32054787 denotes 2020
T66152 406-410 29511076 denotes 2018
T956 543-547 28659436 denotes 2017
T31132 564-568 32054787 denotes 2020

LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T650 8-11 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T651 22-25 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T652 77-80 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T653 263-266 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T654 301-312 Body_part denotes nucleotides http://purl.org/sig/ont/fma/fma82740
T655 357-360 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T656 772-776 Body_part denotes lung http://purl.org/sig/ont/fma/fma7195
T657 1337-1346 Body_part denotes lysosomes http://purl.org/sig/ont/fma/fma63836
T658 1443-1452 Body_part denotes lysosomes http://purl.org/sig/ont/fma/fma63836
T659 1501-1504 Body_part denotes MHC http://purl.org/sig/ont/fma/fma84079
T660 1610-1618 Body_part denotes cytokine http://purl.org/sig/ont/fma/fma84050
T661 1620-1629 Body_part denotes chemokine http://purl.org/sig/ont/fma/fma241981
T662 1731-1734 Body_part denotes CSF http://purl.org/sig/ont/fma/fma20935
T663 1786-1795 Body_part denotes monocytes http://purl.org/sig/ont/fma/fma62864
T664 1800-1811 Body_part denotes macrophages http://purl.org/sig/ont/fma/fma63261
T665 1989-1995 Body_part denotes plasma http://purl.org/sig/ont/fma/fma62970
T666 2033-2036 Body_part denotes CSF http://purl.org/sig/ont/fma/fma20935
T667 2038-2049 Body_part denotes granulocyte http://purl.org/sig/ont/fma/fma62854
T668 2050-2060 Body_part denotes macrophage http://purl.org/sig/ont/fma/fma63261
T669 2136-2139 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T670 2150-2153 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095

LitCovid-PD-UBERON

Id Subject Object Predicate Lexical cue uberon_id
T85 772-776 Body_part denotes lung http://purl.obolibrary.org/obo/UBERON_0002048

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T435 487-495 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T436 498-511 Disease denotes infections in http://purl.obolibrary.org/obo/MONDO_0005550
T437 668-676 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T438 679-689 Disease denotes infections http://purl.obolibrary.org/obo/MONDO_0005550
T439 793-802 Disease denotes pneumonia http://purl.obolibrary.org/obo/MONDO_0005249
T440 956-964 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T441 967-977 Disease denotes infections http://purl.obolibrary.org/obo/MONDO_0005550
T442 1028-1036 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T443 1276-1284 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T444 1287-1297 Disease denotes infections http://purl.obolibrary.org/obo/MONDO_0005550
T445 1678-1686 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T446 1687-1690 Disease denotes CRS http://purl.obolibrary.org/obo/MONDO_0007399|http://purl.obolibrary.org/obo/MONDO_0017361
T448 1846-1854 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T449 2011-2019 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T831 148-149 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T832 385-386 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T833 406-410 http://purl.obolibrary.org/obo/CLO_0001185 denotes 2018
T834 424-427 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T835 512-518 http://purl.obolibrary.org/obo/NCBITaxon_33208 denotes animal
T836 582-583 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T837 647-662 http://purl.obolibrary.org/obo/NCBITaxon_9544 denotes rhesus macaques
T838 757-758 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T839 772-776 http://purl.obolibrary.org/obo/UBERON_0002048 denotes lung
T840 772-776 http://www.ebi.ac.uk/efo/EFO_0000934 denotes lung
T841 832-837 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T842 1085-1086 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T843 1300-1301 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T844 1337-1346 http://purl.obolibrary.org/obo/GO_0005764 denotes lysosomes
T845 1443-1452 http://purl.obolibrary.org/obo/GO_0005764 denotes lysosomes
T846 1529-1534 http://purl.obolibrary.org/obo/PR_000001852 denotes CTLA4
T847 1549-1554 http://purl.obolibrary.org/obo/CL_0000792 denotes Tregs
T848 1579-1588 http://purl.obolibrary.org/obo/SO_0000418 denotes signaling
T849 1649-1652 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T850 1786-1795 http://purl.obolibrary.org/obo/CL_0000576 denotes monocytes
T851 1989-1995 http://purl.obolibrary.org/obo/UBERON_0001969 denotes plasma

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T31555 167-176 Chemical denotes antiviral http://purl.obolibrary.org/obo/CHEBI_22587
T58401 177-187 Chemical denotes inhibitors http://purl.obolibrary.org/obo/CHEBI_35222
T20534 204-226 Chemical denotes adenosine triphosphate http://purl.obolibrary.org/obo/CHEBI_15422
T160 204-213 Chemical denotes adenosine http://purl.obolibrary.org/obo/CHEBI_16335
T42292 214-226 Chemical denotes triphosphate http://purl.obolibrary.org/obo/CHEBI_18036
T162 301-312 Chemical denotes nucleotides http://purl.obolibrary.org/obo/CHEBI_36976
T74458 619-629 Chemical denotes remdesivir http://purl.obolibrary.org/obo/CHEBI_145994
T164 739-749 Chemical denotes remdesivir http://purl.obolibrary.org/obo/CHEBI_145994
T6245 916-926 Chemical denotes remdesivir http://purl.obolibrary.org/obo/CHEBI_145994
T77021 1021-1027 Chemical denotes Manage http://purl.obolibrary.org/obo/CHEBI_81767
T60495 1093-1103 Chemical denotes inhibitors http://purl.obolibrary.org/obo/CHEBI_35222
T73210 1105-1115 Chemical denotes remdesivir http://purl.obolibrary.org/obo/CHEBI_145994
T70894 1117-1128 Chemical denotes favipiravir http://purl.obolibrary.org/obo/CHEBI_134722
T89954 1131-1150 Chemical denotes protease inhibitors http://purl.obolibrary.org/obo/CHEBI_37670|http://purl.obolibrary.org/obo/CHEBI_60258
T54802 1140-1150 Chemical denotes inhibitors http://purl.obolibrary.org/obo/CHEBI_35222
T15191 1152-1171 Chemical denotes lopinavir/ritonavir http://purl.obolibrary.org/obo/CHEBI_145924
T82677 1152-1161 Chemical denotes lopinavir http://purl.obolibrary.org/obo/CHEBI_31781
T88539 1162-1171 Chemical denotes ritonavir http://purl.obolibrary.org/obo/CHEBI_45409
T33657 1189-1199 Chemical denotes inhibitors http://purl.obolibrary.org/obo/CHEBI_35222
T6138 1201-1208 Chemical denotes arbidol http://purl.obolibrary.org/obo/CHEBI_134730
T69396 1303-1305 Chemical denotes CQ http://purl.obolibrary.org/obo/CHEBI_3638
T38298 1462-1469 Chemical denotes antigen http://purl.obolibrary.org/obo/CHEBI_59132
T180 1574-1576 Chemical denotes IL http://purl.obolibrary.org/obo/CHEBI_63895|http://purl.obolibrary.org/obo/CHEBI_74072
T182 1728-1730 Chemical denotes GM http://purl.obolibrary.org/obo/CHEBI_74120
T74683 2030-2032 Chemical denotes GM http://purl.obolibrary.org/obo/CHEBI_74120
T184 2088-2090 Chemical denotes CQ http://purl.obolibrary.org/obo/CHEBI_3638
T86587 2092-2103 Chemical denotes chloroquine http://purl.obolibrary.org/obo/CHEBI_3638
T186 2110-2128 Chemical denotes hydroxychloroquine http://purl.obolibrary.org/obo/CHEBI_5801

LitCovid-PD-HP

Id Subject Object Predicate Lexical cue hp_id
T46 793-802 Phenotype denotes pneumonia http://purl.obolibrary.org/obo/HP_0002090

LitCovid-PD-GO-BP

Id Subject Object Predicate Lexical cue
T185 58-67 http://purl.obolibrary.org/obo/GO_0009058 denotes synthesis
T186 126-143 http://purl.obolibrary.org/obo/GO_0019079 denotes viral replication
T187 126-143 http://purl.obolibrary.org/obo/GO_0019058 denotes viral replication
T188 361-374 http://purl.obolibrary.org/obo/GO_0006351 denotes transcription
T189 1462-1480 http://purl.obolibrary.org/obo/GO_0019882 denotes antigen processing
T190 1579-1596 http://purl.obolibrary.org/obo/GO_0007165 denotes signaling pathway
T191 1579-1588 http://purl.obolibrary.org/obo/GO_0023052 denotes signaling

LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
2341 1057-1059 Gene denotes to Gene:6999
2342 1018-1020 Gene denotes to Gene:6999
2343 1028-1036 Disease denotes COVID-19 MESH:C000657245
2349 1088-1092 Gene denotes Rdrp Gene:43740578
2350 1105-1115 Chemical denotes remdesivir MESH:C000606551
2351 1117-1128 Chemical denotes favipiravir MESH:C462182
2352 1152-1171 Chemical denotes lopinavir/ritonavir MESH:C558899
2353 1276-1297 Disease denotes SARS-CoV-2 infections MESH:C000657245
2357 1529-1534 Gene denotes CTLA4 Gene:1493
2358 1303-1305 Chemical denotes CQ MESH:D002738
2359 1310-1313 Chemical denotes HCQ MESH:D006886
2365 1574-1578 Gene denotes IL-6 Gene:3569
2366 1728-1734 Gene denotes GM-CSF Gene:1437
2367 1751-1753 Gene denotes to Gene:6999
2368 1667-1669 Gene denotes to Gene:6999
2369 1678-1686 Disease denotes COVID-19 MESH:C000657245
2373 2020-2028 Species denotes patients Tax:9606
2374 1846-1856 Species denotes SARS-CoV-2 Tax:2697049
2375 2011-2019 Disease denotes COVID-19 MESH:C000657245
2383 2030-2036 Gene denotes GM-CSF Gene:1437
2384 2038-2086 Gene denotes granulocyte-macrophage colony-stimulating factor Gene:1437
2385 2130-2134 Gene denotes RdRp Gene:43740578
2386 2088-2090 Chemical denotes CQ MESH:D002738
2387 2092-2103 Chemical denotes chloroquine MESH:D002738
2388 2105-2108 Chemical denotes HCQ MESH:D006886
2389 2110-2128 Chemical denotes hydroxychloroquine MESH:D006886
2405 38-42 Gene denotes RdRp Gene:43740578
2406 244-248 Gene denotes RdRp Gene:43740578
2407 450-452 Gene denotes to Gene:6999
2408 474-482 Species denotes MERS-CoV Tax:1335626
2409 647-662 Species denotes rhesus macaques Tax:9544
2410 189-199 Chemical denotes Remdesivir MESH:C000606551
2411 204-213 Chemical denotes adenosine MESH:D000241
2412 413-423 Chemical denotes Remdesivir MESH:C000606551
2413 619-629 Chemical denotes remdesivir MESH:C000606551
2414 739-749 Chemical denotes remdesivir MESH:C000606551
2415 916-926 Chemical denotes remdesivir MESH:C000606551
2416 487-508 Disease denotes SARS-CoV-1 infections MESH:C000657245
2417 668-689 Disease denotes SARS-CoV-2 infections MESH:C000657245
2418 793-802 Disease denotes pneumonia MESH:D011014
2419 956-977 Disease denotes SARS-CoV-2 infections MESH:C000657245

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T410 0-188 Sentence denotes The CoV RNA-dependent RNA polymerase (RdRp) catalyzes the synthesis of viral RNA (Gao et al., 2020a), making it essential for viral replication and a prime target for antiviral inhibitors.
T411 189-412 Sentence denotes Remdesivir, an adenosine triphosphate analog, inhibits RdRp by binding to RNA strands and preventing additional nucleotides from being added, thereby terminating viral RNA transcription (Figure 6 A) (Agostini et al., 2018).
T412 413-570 Sentence denotes Remdesivir has been previously shown to be effective against MERS-CoV and SARS-CoV-1 infections in animal models (Sheahan et al., 2017, de Wit et al., 2020).
T413 571-716 Sentence denotes Similarly, a study investigated the efficacy of remdesivir treatments on 12 rhesus macaques with SARS-CoV-2 infections (Williamson et al., 2020).
T414 717-847 Sentence denotes Macaques treated with remdesivir showed a reduction in lung viral loads and pneumonia symptoms but no reduction in virus shedding.
T415 848-978 Sentence denotes This study does provide evidence that if administered early enough, remdesivir may be effective at treating SARS-CoV-2 infections.
T416 979-1083 Sentence denotes Figure 6 Available Therapeutic Options to Manage COVID-19 Immunopathology and to Deter Viral Propagation
T417 1084-1298 Sentence denotes (A) Rdrp inhibitors (remdesivir, favipiravir), protease inhibitors (lopinavir/ritonavir), and antifusion inhibitors (arbidol) are currently being investigated in their efficacy in controlling SARS-CoV-2 infections.
T418 1299-1406 Sentence denotes (B) CQ and HCQ increase the pH within lysosomes, impairing viral transit through the endolysosomal pathway.
T419 1407-1555 Sentence denotes Reduced proteolytic function within lysosomes augments antigen processing for presentation on MHC complexes and increases CTLA4 expression on Tregs.
T420 1556-1691 Sentence denotes (C) Antagonism of IL-6 signaling pathway and of other cytokine-/chemokine-associated targets has been proposed to control COVID-19 CRS.
T421 1692-1812 Sentence denotes These include secreted factors like GM-CSF that contribute to the recruitment of inflammatory monocytes and macrophages.
T422 1813-2029 Sentence denotes (D) Several potential sources of SARS-CoV-2 neutralizing antibodies are currently under investigation, including monoclonal antibodies, polyclonal antibodies, and convalescent plasma from recovered COVID-19 patients.
T423 2030-2165 Sentence denotes GM-CSF, granulocyte-macrophage colony-stimulating factor; CQ, chloroquine; HCQ, hydroxychloroquine; RdRp, RNA-dependent RNA polymerase.