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PMC:7650537 / 9623-12674 JSONTXT

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LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T66 29-37 Body_part denotes Antibody http://purl.org/sig/ont/fma/fma62871
T67 61-64 Body_part denotes IgG http://purl.org/sig/ont/fma/fma62872
T68 91-94 Body_part denotes IgG http://purl.org/sig/ont/fma/fma62872
T69 150-153 Body_part denotes IgG http://purl.org/sig/ont/fma/fma62872
T70 227-230 Body_part denotes IgG http://purl.org/sig/ont/fma/fma62872
T71 316-319 Body_part denotes IgG http://purl.org/sig/ont/fma/fma62872
T72 332-334 Body_part denotes AG http://purl.org/sig/ont/fma/fma61898
T73 383-386 Body_part denotes IgG http://purl.org/sig/ont/fma/fma62872
T74 442-445 Body_part denotes IgG http://purl.org/sig/ont/fma/fma62872
T75 468-470 Body_part denotes AG http://purl.org/sig/ont/fma/fma61898
T76 524-527 Body_part denotes IgG http://purl.org/sig/ont/fma/fma62872
T77 611-619 Body_part denotes antibody http://purl.org/sig/ont/fma/fma62871
T78 777-784 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T79 837-844 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T80 973-976 Body_part denotes IgG http://purl.org/sig/ont/fma/fma62872
T81 1966-1969 Body_part denotes IgG http://purl.org/sig/ont/fma/fma62872
T82 2355-2358 Body_part denotes IgG http://purl.org/sig/ont/fma/fma62872
T83 2376-2378 Body_part denotes v1 http://purl.org/sig/ont/fma/fma13444|http://purl.org/sig/ont/fma/fma68614
T85 2411-2414 Body_part denotes IgG http://purl.org/sig/ont/fma/fma62872
T86 2446-2448 Body_part denotes v2 http://purl.org/sig/ont/fma/fma13443|http://purl.org/sig/ont/fma/fma68615
T88 2480-2483 Body_part denotes IgG http://purl.org/sig/ont/fma/fma62872
T89 2537-2544 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T90 2660-2667 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T91 2770-2778 Body_part denotes proteins http://purl.org/sig/ont/fma/fma67257

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T44 18-26 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T45 50-58 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T46 80-88 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T47 134-142 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T48 218-226 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T49 298-306 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T50 372-380 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T51 421-429 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T52 513-517 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T53 600-608 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T54 645-653 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T55 952-960 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T56 1945-1953 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T57 2469-2477 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T58 2685-2693 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T59 2713-2721 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T60 2814-2822 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T87 38-43 http://purl.obolibrary.org/obo/UBERON_0000473 denotes Tests
T88 145-147 http://purl.obolibrary.org/obo/CLO_0050050 denotes S1
T89 446-450 http://purl.obolibrary.org/obo/UBERON_0000473 denotes Test
T90 620-624 http://purl.obolibrary.org/obo/UBERON_0000473 denotes test
T91 759-764 http://purl.obolibrary.org/obo/UBERON_0000473 denotes tests
T92 877-879 http://purl.obolibrary.org/obo/CLO_0050050 denotes S1
T93 926-928 http://purl.obolibrary.org/obo/CLO_0008922 denotes S2
T94 926-928 http://purl.obolibrary.org/obo/CLO_0050052 denotes S2
T95 977-981 http://purl.obolibrary.org/obo/UBERON_0000473 denotes test
T96 1027-1029 http://purl.obolibrary.org/obo/CLO_0050050 denotes S1
T97 1034-1036 http://purl.obolibrary.org/obo/CLO_0008922 denotes S2
T98 1034-1036 http://purl.obolibrary.org/obo/CLO_0050052 denotes S2
T99 1094-1095 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T100 1116-1117 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T101 1145-1147 http://purl.obolibrary.org/obo/CLO_0050050 denotes S1
T102 1154-1159 http://purl.obolibrary.org/obo/UBERON_0000473 denotes tests
T103 1280-1281 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T104 1308-1309 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T105 1506-1514 http://purl.obolibrary.org/obo/UBERON_0000473 denotes test was
T106 1555-1556 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T107 1805-1806 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T108 1807-1813 http://purl.obolibrary.org/obo/SO_0000418 denotes signal
T109 1907-1908 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T110 1925-1927 http://purl.obolibrary.org/obo/CLO_0050507 denotes 22
T111 2125-2129 http://purl.obolibrary.org/obo/UBERON_0000473 denotes test
T112 2246-2252 http://purl.obolibrary.org/obo/UBERON_0000473 denotes tested
T113 2552-2557 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T114 2829-2832 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T115 2862-2864 http://purl.obolibrary.org/obo/CLO_0050050 denotes S1
T116 2886-2887 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T117 2987-2988 http://purl.obolibrary.org/obo/CLO_0001020 denotes a

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T44 195-198 Chemical denotes EDI http://purl.obolibrary.org/obo/CHEBI_73491
T45 332-334 Chemical denotes AG http://purl.obolibrary.org/obo/CHEBI_27569|http://purl.obolibrary.org/obo/CHEBI_40618|http://purl.obolibrary.org/obo/CHEBI_73757
T48 468-470 Chemical denotes AG http://purl.obolibrary.org/obo/CHEBI_27569|http://purl.obolibrary.org/obo/CHEBI_40618|http://purl.obolibrary.org/obo/CHEBI_73757
T51 741-749 Chemical denotes antigens http://purl.obolibrary.org/obo/CHEBI_59132
T52 777-784 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T53 837-844 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T54 926-928 Chemical denotes S2 http://purl.obolibrary.org/obo/CHEBI_29387
T55 1018-1026 Chemical denotes antigens http://purl.obolibrary.org/obo/CHEBI_59132
T56 1034-1036 Chemical denotes S2 http://purl.obolibrary.org/obo/CHEBI_29387
T57 1047-1054 Chemical denotes antigen http://purl.obolibrary.org/obo/CHEBI_59132
T58 1118-1132 Chemical denotes nitrocellulose http://purl.obolibrary.org/obo/CHEBI_53325
T59 1827-1829 Chemical denotes CO http://purl.obolibrary.org/obo/CHEBI_17245
T60 2278-2285 Chemical denotes reagent http://purl.obolibrary.org/obo/CHEBI_33893
T61 2296-2300 Chemical denotes urea http://purl.obolibrary.org/obo/CHEBI_16199
T62 2537-2544 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T63 2637-2645 Chemical denotes antigens http://purl.obolibrary.org/obo/CHEBI_59132
T64 2660-2667 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T65 2770-2778 Chemical denotes proteins http://purl.obolibrary.org/obo/CHEBI_36080
T66 2865-2872 Chemical denotes antigen http://purl.obolibrary.org/obo/CHEBI_59132

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T74 0-4 Sentence denotes 2.2.
T75 5-43 Sentence denotes Investigated SARS-CoV-2 Antibody Tests
T76 44-724 Sentence denotes Seven SARS-CoV-2 IgG assays (Abbott SARS-CoV-2 IgG, Wiesbaden, Germany; DiaSorin Liaison® SARS-CoV-2 S1/2 IgG, DiaSorin, Dietzenbach, Germany; Epitope EDI™ Novel Coronavirus COVID-19 IgG ELISA Kit, Epitope Diagnostics, San Diego, CA, USA; Euroimmun Anti-SARS-CoV-2 ELISA (IgG), EUROIMMUN AG, Lübeck, Germany; Mikrogen recomWell SARS-CoV-2 IgG, Mikrogen GmbH, Neuried, Germany; SARS-CoV-2 ViraChip® IgG Test, Viramed Biotech AG, Planegg, Germany; and SERION ELISA agile SARS-COV-2 IgG, Institute Virion-Serion GmbH, Würzburg, Germany), as well as one total SARS-CoV-2 antibody test (Roche Elecsys Anti-SARS-CoV-2, Roche Diagnostics, Mannheim, Germany), were included in this study.
T77 725-947 Sentence denotes The recombinant antigens of these tests cover the N protein (Abbott, Epitope, Mikrogen, Roche) and the entire S protein (Virion-Serion), as well as its S1 domain alone (Euroimmun) or together with the S2 domain (DiaSorin).
T78 948-1149 Sentence denotes The SARS-CoV-2 ViraChip® IgG test kit uses the purified viral surface antigens S1 and S2 and the N antigen, which are all presented separately at a defined position on a nitrocellulose film (Table S1).
T79 1150-1491 Sentence denotes All tests were conducted strictly following the recommendations of the manufacturers on an Architect or Alinity machine (Abbott), a Liaison XL (DiaSorin), or a Cobas e 411 (Roche) or, for the assays of Epitope, Euroimmun, Mikrogen Viramed, and Virion-Serion, on the BEP 2000 system (Siemens Healthcare GmbH, Erlangen, Germany), respectively.
T80 1492-1601 Sentence denotes The ViraChip® test was then evaluated automatically by help of a ViraChip® reader and the ViraChip® Software.
T81 1602-1660 Sentence denotes All borderline/gray zone results were counted as positive.
T82 1661-1795 Sentence denotes Furthermore, raw data from seven assays were converted into relative indices according to the decision limits set by the manufacturer.
T83 1796-1929 Sentence denotes Thereby, a signal (S)/cut-off (CO) value of <1 was valued as negative and ≥1 as positive, which corresponds to a previous study [22].
T84 1930-2073 Sentence denotes Results of the SARS-CoV-2 ViraChip® IgG could not be converted into relative indices and were only given qualitatively as negative or positive.
T85 2074-2213 Sentence denotes The proportion of correctly identified samples per test relative to the chosen reference method was calculated and given as assay accuracy.
T86 2214-2379 Sentence denotes The convalescent sera were also tested with and without avidity reagent (contains urea in denaturating concentrations) in two versions of an IgG line assay (blot v1:
T87 2380-2449 Sentence denotes Mikrogen recomLine Coronavirus IgG (Avidität), prototype and blot v2:
T88 2450-2500 Sentence denotes Mikrogen recomLine SARS-CoV-2 IgG (Avidität)/RUO).
T89 2501-2724 Sentence denotes The first version is based on the N protein of the human coronaviruses (HCoVs) 229E, HKU1, NL63, and OC43, which are used separately as antigens, and on the N protein of the “classic” SARS-CoV from 2002/2003 and SARS-CoV-2.
T90 2725-2885 Sentence denotes The second improved version still uses the N proteins of the aforementioned HCoVs and of SARS-CoV-2 but has been expanded to include the S1 antigen and its RBD.
T91 2886-2941 Sentence denotes A Dynablot Plus system was used to process all samples.
T92 2942-3051 Sentence denotes Blots were then evaluated automatically with a BLOTrix reader and the recomScan software (all from Mikrogen).

LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
175 18-28 Species denotes SARS-CoV-2 Tax:2697049
190 1045-1046 Gene denotes N Gene:43740575
191 775-776 Gene denotes N Gene:43740575
192 134-144 Species denotes SARS-CoV-2 Tax:2697049
193 200-217 Species denotes Novel Coronavirus Tax:2697049
194 50-60 Species denotes SARS-CoV-2 Tax:2697049
195 80-90 Species denotes SARS-CoV-2 Tax:2697049
196 298-308 Species denotes SARS-CoV-2 Tax:2697049
197 372-382 Species denotes SARS-CoV-2 Tax:2697049
198 421-431 Species denotes SARS-CoV-2 Tax:2697049
199 513-523 Species denotes SARS-COV-2 Tax:2697049
200 600-610 Species denotes SARS-CoV-2 Tax:2697049
201 645-655 Species denotes SARS-CoV-2 Tax:2697049
202 952-962 Species denotes SARS-CoV-2 Tax:2697049
203 218-226 Disease denotes COVID-19 MESH:C000657245
206 1815-1816 Gene denotes S Gene:43740568
207 1945-1955 Species denotes SARS-CoV-2 Tax:2697049
217 2768-2769 Gene denotes N Gene:43740575
218 2552-2557 Species denotes human Tax:9606
219 2558-2571 Species denotes coronaviruses Tax:11118
220 2685-2693 Species denotes SARS-CoV Tax:694009
221 2713-2723 Species denotes SARS-CoV-2 Tax:2697049
222 2814-2824 Species denotes SARS-CoV-2 Tax:2697049
223 2399-2410 Species denotes Coronavirus Tax:11118
224 2469-2479 Species denotes SARS-CoV-2 Tax:2697049
225 2296-2300 Chemical denotes urea MESH:D014508