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PMC:7073332 / 14778-16382 JSONTXT

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LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
414 252-257 Species denotes human Tax:9606
415 450-455 Species denotes human Tax:9606
416 729-734 Species denotes human Tax:9606
417 948-953 Species denotes human Tax:9606
418 1501-1506 Species denotes human Tax:9606
419 339-343 Species denotes HCoV Tax:694448
420 670-674 Species denotes HCoV Tax:694448
421 155-170 Disease denotes viral infection MESH:D001102

LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T76 102-110 Body_part denotes proteins http://purl.org/sig/ont/fma/fma67257
T77 356-364 Body_part denotes proteins http://purl.org/sig/ont/fma/fma67257
T78 456-463 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T79 464-471 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T80 954-961 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T81 1064-1071 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T64 155-170 Disease denotes viral infection http://purl.obolibrary.org/obo/MONDO_0005108
T65 161-170 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T99 252-257 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T100 283-284 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T101 450-463 http://purl.obolibrary.org/obo/PR_000029067 denotes human protein
T102 588-589 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T103 729-734 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T104 763-764 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T105 948-961 http://purl.obolibrary.org/obo/PR_000029067 denotes human protein
T106 1220-1229 http://purl.obolibrary.org/obo/SO_0000418 denotes signaling
T107 1375-1376 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T108 1413-1417 http://purl.obolibrary.org/obo/UBERON_0000473 denotes test
T109 1501-1506 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T143 41-45 Chemical denotes drug http://purl.obolibrary.org/obo/CHEBI_23888
T144 102-110 Chemical denotes proteins http://purl.obolibrary.org/obo/CHEBI_36080
T145 285-289 Chemical denotes drug http://purl.obolibrary.org/obo/CHEBI_23888
T146 356-364 Chemical denotes proteins http://purl.obolibrary.org/obo/CHEBI_36080
T147 456-463 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T148 464-471 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T149 709-713 Chemical denotes drug http://purl.obolibrary.org/obo/CHEBI_23888
T150 765-769 Chemical denotes drug http://purl.obolibrary.org/obo/CHEBI_23888
T151 866-871 Chemical denotes drugs http://purl.obolibrary.org/obo/CHEBI_23888
T152 954-961 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T153 1064-1071 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T154 1549-1552 Chemical denotes PPI http://purl.obolibrary.org/obo/CHEBI_53266|http://purl.obolibrary.org/obo/CHEBI_60614

LitCovid-PD-GO-BP

Id Subject Object Predicate Lexical cue
T21 155-170 http://purl.obolibrary.org/obo/GO_0016032 denotes viral infection
T22 1220-1229 http://purl.obolibrary.org/obo/GO_0023052 denotes signaling

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T92 0-278 Sentence denotes The basis for the proposed network-based drug repurposing methodologies rests on the notions that the proteins that associate with and functionally govern viral infection are localized in the corresponding subnetwork (Fig. 1a) within the comprehensive human interactome network.
T93 279-579 Sentence denotes For a drug with multiple targets to be effective against an HCoV, its target proteins should be within or in the immediate vicinity of the corresponding subnetwork in the human protein–protein interactome (Fig. 1), as we demonstrated in multiple diseases13,22,23,28 using this network-based strategy.
T94 580-747 Sentence denotes We used a state-of-the-art network proximity measure to quantify the relationship between HCoV-specific subnetwork (Fig. 3a) and drug targets in the human interactome.
T95 748-900 Sentence denotes We constructed a drug–target network by assembling target information for more than 2000 FDA-approved or experimental drugs (see Materials and methods).
T96 901-1366 Sentence denotes To improve the quality and completeness of the human protein interactome network, we integrated PPIs with five types of experimental data: (1) binary PPIs from 3D protein structures; (2) binary PPIs from unbiased high-throughput yeast-two-hybrid assays; (3) experimentally identified kinase-substrate interactions; (4) signaling networks derived from experimental data; and (5) literature-derived PPIs with various experimental evidence (see Materials and methods).
T97 1367-1604 Sentence denotes We used a Z-score (Z) measure and permutation test to reduce the study bias in network proximity analyses (including hub nodes in the human interactome network by literature-derived PPI data bias) as described in our recent studies13,28.

2_test

Id Subject Object Predicate Lexical cue
32194980-30002366-19614179 533-535 30002366 denotes 13
32194980-22589709-19614180 536-538 22589709 denotes 22
32194980-31375661-19614181 539-541 31375661 denotes 23
32194980-30867426-19614182 542-544 30867426 denotes 28
32194980-30002366-19614183 1598-1600 30002366 denotes 13
32194980-30867426-19614184 1601-1603 30867426 denotes 28