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PMC:7067204 / 7155-8880 JSONTXT

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LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
510 320-323 Gene denotes The Gene:25085
511 552-555 Gene denotes the Gene:25085
512 1393-1396 Gene denotes the Gene:25085
513 1678-1680 Gene denotes as Gene:112935892
514 387-389 Gene denotes as Gene:112935892
515 1702-1705 Gene denotes the Gene:25085
516 1633-1636 Gene denotes The Gene:25085
517 1457-1460 Gene denotes the Gene:25085
518 1297-1300 Gene denotes the Gene:25085
519 1217-1220 Gene denotes the Gene:25085
520 970-973 Gene denotes the Gene:25085
521 565-568 Gene denotes the Gene:25085
522 510-513 Gene denotes the Gene:25085
523 463-466 Gene denotes The Gene:25085
524 440-443 Gene denotes the Gene:25085
525 399-402 Gene denotes the Gene:25085
526 372-375 Gene denotes the Gene:25085
527 301-304 Gene denotes the Gene:25085
528 246-249 Gene denotes the Gene:25085
529 204-207 Gene denotes the Gene:25085
530 161-164 Gene denotes The Gene:25085
531 34-37 Gene denotes the Gene:25085
532 1692-1694 Gene denotes to Gene:6999
533 431-433 Gene denotes to Gene:6999
534 339-341 Gene denotes to Gene:6999
535 298-300 Gene denotes to Gene:6999
536 878-882 Gene denotes orf8 Gene:43740577
537 1664-1667 Gene denotes UTR Gene:2837
538 1252-1254 Gene denotes of Gene:6688
539 985-987 Gene denotes of Gene:6688
540 875-877 Gene denotes of Gene:6688
541 576-578 Gene denotes of Gene:6688
542 562-564 Gene denotes of Gene:6688
543 396-398 Gene denotes of Gene:6688
544 176-178 Gene denotes of Gene:6688
545 1643-1651 Species denotes SARS-CoV Tax:694009
546 1432-1436 Gene denotes -UTR Gene:2837
547 1421-1424 Gene denotes UTR Gene:2837

LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T26 579-589 Body_part denotes amino acid http://purl.org/sig/ont/fma/fma82739
T27 988-995 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T28 1044-1049 Body_part denotes helix http://purl.org/sig/ont/fma/fma60992
T29 1069-1079 Body_part denotes amino acid http://purl.org/sig/ont/fma/fma82739
T30 1120-1137 Body_part denotes neural networking http://purl.org/sig/ont/fma/fma74616

LitCovid-PD-UBERON

Id Subject Object Predicate Lexical cue uberon_id
T9 342-347 Body_part denotes scale http://purl.obolibrary.org/obo/UBERON_0002542
T10 1044-1049 Body_part denotes helix http://purl.obolibrary.org/obo/UBERON_0002488

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T51 1643-1651 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T89 260-264 http://purl.obolibrary.org/obo/UBERON_0000473 denotes test
T90 752-757 http://purl.obolibrary.org/obo/CLO_0009640 denotes X [15
T91 1637-1642 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T22 83-87 Chemical denotes MEGA http://purl.obolibrary.org/obo/CHEBI_6617
T23 579-589 Chemical denotes amino acid http://purl.obolibrary.org/obo/CHEBI_33709
T24 579-584 Chemical denotes amino http://purl.obolibrary.org/obo/CHEBI_46882
T25 585-589 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527
T26 747-751 Chemical denotes MEGA http://purl.obolibrary.org/obo/CHEBI_6617
T27 988-995 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T28 1026-1030 Chemical denotes beta http://purl.obolibrary.org/obo/CHEBI_10545
T29 1038-1043 Chemical denotes alpha http://purl.obolibrary.org/obo/CHEBI_30216
T30 1069-1079 Chemical denotes amino acid http://purl.obolibrary.org/obo/CHEBI_33709
T31 1069-1074 Chemical denotes amino http://purl.obolibrary.org/obo/CHEBI_46882
T32 1075-1079 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T71 0-160 Sentence denotes Phylogenetic tree construction by the neighbour joining method was performed using MEGA X software, with bootstrap values being calculated from 1000 trees [12].
T72 161-319 Sentence denotes The percentage of replicate trees in which the associated taxa clustered together in the bootstrap test (1000 replicates) was shown next to the branches [13].
T73 320-462 Sentence denotes The tree was drawn to scale, with branch lengths in the same units as those of the evolutionary distances used to infer the phylogenetic tree.
T74 463-618 Sentence denotes The evolutionary distances were computed using the Poisson correction method and were in the units of the number of amino acid substitutions per site [14].
T75 619-706 Sentence denotes All ambiguous positions were removed for each sequence pair (pairwise deletion option).
T76 707-759 Sentence denotes Evolutionary analyses were conducted in MEGA X [15].
T77 760-854 Sentence denotes Multiple alignment was performed using CLUSTAL 2.1 and further visualized using BOXSHADE 3.21.
T78 855-965 Sentence denotes Structural analysis of orf8 was performed using PSI-blast-based secondary structure PREDiction (PSIPRED) [16].
T79 966-1160 Sentence denotes For the prediction of protein secondary structure including beta sheet, alpha helix, and coil, initial amino acid sequences were input and analysed using neural networking and its own algorithm.
T80 1161-1240 Sentence denotes Predicted structures were visualized and highlighted on the BOXSHADE alignment.
T81 1241-1358 Sentence denotes Prediction of transmembrane domains was performed using the TMHMM 2.0 server (http://www.cbs.dtu.dk/services/TMHMM/).
T82 1359-1632 Sentence denotes Secondary structure prediction in the 5′-untranslated region (UTR) and 3′-UTR was performed using the RNAfold WebServer (http://rna.tbi.univie.ac.at/cgi-bin/RNAWebSuite/RNAfold.cgi) with minimum free energy (MFE) and partition function in Fold algorithms and basic options.
T83 1633-1725 Sentence denotes The human SARS-CoV 5′- and 3′- UTR were used as references to adjust the prediction results.

2_test

Id Subject Object Predicate Lexical cue
31987001-3447015-27754481 156-158 3447015 denotes 12
31987001-28561359-27754482 315-317 28561359 denotes 13
31987001-29722887-27754483 755-757 29722887 denotes 15
31987001-31251384-27754484 961-963 31251384 denotes 16

MyTest

Id Subject Object Predicate Lexical cue
31987001-3447015-27754481 156-158 3447015 denotes 12
31987001-28561359-27754482 315-317 28561359 denotes 13
31987001-29722887-27754483 755-757 29722887 denotes 15
31987001-31251384-27754484 961-963 31251384 denotes 16