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PMC:6988269 / 11239-12672 JSONTXT

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LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T42 79-83 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T43 165-170 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T44 259-263 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T45 420-423 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T46 521-524 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T47 815-819 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402
T48 829-833 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402
T49 1171-1175 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402
T50 1181-1184 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T51 1230-1233 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T52 1284-1288 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T37 115-123 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T38 115-119 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T97 10-11 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T98 79-83 http://purl.obolibrary.org/obo/GO_0005623 denotes cell
T99 160-164 http://purl.obolibrary.org/obo/CLO_0009524 denotes Vero
T100 160-164 http://purl.obolibrary.org/obo/CLO_0050515 denotes Vero
T101 165-170 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T102 236-237 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T103 259-263 http://purl.obolibrary.org/obo/GO_0005623 denotes cell
T104 489-490 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T105 624-631 http://purl.obolibrary.org/obo/UBERON_0000473 denotes testing
T106 740-741 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T107 815-819 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene
T108 829-833 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene
T109 1083-1088 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes Virus
T110 1171-1175 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene
T111 1284-1288 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene
T112 1430-1432 http://purl.obolibrary.org/obo/CLO_0008922 denotes S2
T113 1430-1432 http://purl.obolibrary.org/obo/CLO_0050052 denotes S2

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T38 372-385 Chemical denotes nucleic acids http://purl.obolibrary.org/obo/CHEBI_33696
T39 380-385 Chemical denotes acids http://purl.obolibrary.org/obo/CHEBI_37527
T40 1061-1069 Chemical denotes reagents http://purl.obolibrary.org/obo/CHEBI_33893
T41 1430-1432 Chemical denotes S2 http://purl.obolibrary.org/obo/CHEBI_29387

LitCovid-PD-GO-BP

Id Subject Object Predicate Lexical cue
T11 1220-1224 http://purl.obolibrary.org/obo/GO_0003968 denotes RdRP

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T92 0-171 Sentence denotes To obtain a preliminary assessment of analytical sensitivity, we used purified cell culture supernatant containing SARS-CoV strain Frankfurt-1 virions grown on Vero cells.
T93 172-284 Sentence denotes The supernatant was ultrafiltered and thereby concentrated from a ca 20-fold volume of cell culture supernatant.
T94 285-424 Sentence denotes The concentration step simultaneously reduces the relative concentration of background nucleic acids such as not virion-packaged viral RNA.
T95 425-584 Sentence denotes The virion preparation was quantified by real-time RT-PCR using a specific in vitro-transcribed RNA quantification standard as described in Drosten et al. [8].
T96 585-743 Sentence denotes All assays were subjected to replicate testing in order to determine stochastic detection frequencies at each assay’s sensitivity end point (Figure 3A and B).
T97 744-918 Sentence denotes All assays were highly sensitive, with best results obtained for the E gene and RdRp gene assays (5.2 and 3.8 copies per reaction at 95% detection probability, respectively).
T98 919-971 Sentence denotes These two assays were chosen for further evaluation.
T99 972-1176 Sentence denotes One of the laboratories participating in the external evaluation used other basic RT-PCR reagents (TaqMan Fast Virus 1-Step Master Mix) and repeated the sensitivity study, with equivalent results (E gene:
T100 1177-1209 Sentence denotes 3.2 RNA copies/reaction (95% CI:
T101 1210-1225 Sentence denotes 2.2–6.8); RdRP:
T102 1226-1258 Sentence denotes 3.7 RNA copies/reaction (95% CI:
T103 1259-1268 Sentence denotes 2.8–8.0).
T104 1269-1433 Sentence denotes Of note, the N gene assay also performed well but was not subjected to intensive further validation because it was slightly less sensitive (Supplementary Figure S2)

LitCovid-PD-HP

Id Subject Object Predicate Lexical cue hp_id
T3 760-776 Phenotype denotes highly sensitive http://purl.obolibrary.org/obo/HP_0041092

2_test

Id Subject Object Predicate Lexical cue
31992387-12690091-29325740 581-582 12690091 denotes 8

LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
210 824-828 Gene denotes RdRp Gene:43740578
211 1220-1224 Gene denotes RdRP Gene:43740578
212 1103-1106 Gene denotes Mix Gene:83881
213 115-123 Species denotes SARS-CoV Tax:694009

MyTest

Id Subject Object Predicate Lexical cue
31992387-12690091-29325740 581-582 12690091 denotes 8