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PMC:7574920 / 11936-13110 JSONTXT

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LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T69 145-148 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T70 216-219 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T71 1059-1063 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402
T72 1109-1112 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T50 479-481 Disease denotes OD http://purl.obolibrary.org/obo/MONDO_0017178
T51 701-703 Disease denotes OD http://purl.obolibrary.org/obo/MONDO_0017178

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T112 100-101 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T113 223-224 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T114 265-266 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T115 297-299 http://purl.obolibrary.org/obo/CLO_0001313 denotes 36
T116 380-382 http://purl.obolibrary.org/obo/CLO_0001236 denotes 2A
T117 419-420 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T118 618-619 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T119 856-860 http://purl.obolibrary.org/obo/UBERON_0000473 denotes test
T120 927-935 http://purl.obolibrary.org/obo/UBERON_0000473 denotes test was
T121 952-953 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T122 976-980 http://purl.obolibrary.org/obo/UBERON_0000473 denotes test
T123 996-997 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T124 1059-1063 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T43 576-586 Chemical denotes phenol red http://purl.obolibrary.org/obo/CHEBI_31991
T44 576-582 Chemical denotes phenol http://purl.obolibrary.org/obo/CHEBI_15882
T45 633-636 Chemical denotes dye http://purl.obolibrary.org/obo/CHEBI_37958

LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
158 620-622 Gene denotes pH Gene:5053
159 576-586 Chemical denotes phenol red MESH:D010637

LitCovid-PD-GO-BP

Id Subject Object Predicate Lexical cue
T64 29-31 http://purl.obolibrary.org/obo/GO_0001171 denotes RT
T65 112-114 http://purl.obolibrary.org/obo/GO_0001171 denotes RT
T66 171-173 http://purl.obolibrary.org/obo/GO_0001171 denotes RT
T67 848-850 http://purl.obolibrary.org/obo/GO_0001171 denotes RT
T68 919-921 http://purl.obolibrary.org/obo/GO_0001171 denotes RT

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T77 0-127 Sentence denotes To evaluate the colorimetric RT-LAMP assay, we needed to compare its sensitivity and specificity to a validated RT-qPCR method.
T78 128-252 Sentence denotes We first used 95 RNA samples and performed RT-LAMP reactions using 1 μl of the isolated RNA in a reaction volume of 12.5 μl.
T79 253-384 Sentence denotes We detected a red-to-yellow color change in 36 of the samples following an incubation of the reaction for 30 min at 65°C (Fig. 2A).
T80 385-661 Sentence denotes To quantify the reaction, we used a plate scanner and measured the difference in absorbance (ΔOD) of the samples at 434 and 560 nm (corresponding to the absorbance maxima of the two forms of phenol red that were used in the assay as a pH-sensitive dye) at several time points.
T81 662-913 Sentence denotes To visualize the data, we plotted the ΔOD values against incubation time and colored the time traces of individual samples according to the cycle threshold (CT) values obtained from the RT-qPCR test run in the clinical diagnostic laboratory (Fig. 2B).
T82 914-1174 Sentence denotes This RT-qPCR test was performed using a commercial diagnostic test kit containing a modified version of the E-Sarbeco primer set for the viral E gene suggested by Corman et al. (15) and 10 μl of RNA isolated with an automated platform (QiaSymphony or QiaCube).