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PMC:6988269 / 16254-18622 JSONTXT

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LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T78 42-46 Body_part denotes Cell http://purl.org/sig/ont/fma/fma68646
T79 311-314 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T80 414-417 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T81 522-526 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T82 636-642 Body_part denotes sputum http://purl.org/sig/ont/fma/fma312401
T83 816-820 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T84 900-904 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402
T85 1793-1799 Body_part denotes sputum http://purl.org/sig/ont/fma/fma312401
T86 1811-1814 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T87 1925-1928 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T88 2070-2076 Body_part denotes sputum http://purl.org/sig/ont/fma/fma312401
T89 2088-2091 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T90 2154-2157 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T91 2295-2301 Body_part denotes sputum http://purl.org/sig/ont/fma/fma312401
T92 2313-2316 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095

LitCovid-PD-UBERON

Id Subject Object Predicate Lexical cue uberon_id
T5 636-642 Body_part denotes sputum http://purl.obolibrary.org/obo/UBERON_0007311
T6 1793-1799 Body_part denotes sputum http://purl.obolibrary.org/obo/UBERON_0007311
T7 2070-2076 Body_part denotes sputum http://purl.obolibrary.org/obo/UBERON_0007311
T8 2295-2301 Body_part denotes sputum http://purl.obolibrary.org/obo/UBERON_0007311

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T55 1082-1099 Disease denotes Influenza A(H1N1) http://purl.obolibrary.org/obo/MONDO_0005460
T56 1112-1121 Disease denotes Influenza http://purl.obolibrary.org/obo/MONDO_0005812
T57 1137-1146 Disease denotes Influenza http://purl.obolibrary.org/obo/MONDO_0005812
T58 1168-1177 Disease denotes Influenza http://purl.obolibrary.org/obo/MONDO_0005812
T59 1192-1201 Disease denotes Influenza http://purl.obolibrary.org/obo/MONDO_0005812
T60 1216-1225 Disease denotes Influenza http://purl.obolibrary.org/obo/MONDO_0005812
T61 1522-1532 Disease denotes Legionella http://purl.obolibrary.org/obo/MONDO_0005824

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T146 42-46 http://purl.obolibrary.org/obo/GO_0005623 denotes Cell
T147 91-96 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T148 172-178 http://purl.obolibrary.org/obo/UBERON_0000473 denotes tested
T149 274-279 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T150 280-286 http://purl.obolibrary.org/obo/UBERON_0001005 denotes airway
T151 522-526 http://purl.obolibrary.org/obo/GO_0005623 denotes cell
T152 553-559 http://purl.obolibrary.org/obo/UBERON_0000473 denotes tested
T153 630-635 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T154 664-670 http://purl.obolibrary.org/obo/UBERON_0000473 denotes tested
T155 671-678 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes viruses
T156 682-687 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T157 744-749 http://purl.obolibrary.org/obo/UBERON_0000473 denotes Tests
T158 771-778 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes viruses
T159 783-791 http://purl.obolibrary.org/obo/NCBITaxon_2 denotes bacteria
T160 816-820 http://purl.obolibrary.org/obo/GO_0005623 denotes cell
T161 900-904 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene
T162 950-957 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes viruses
T163 978-983 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes Virus
T164 1059-1061 http://purl.obolibrary.org/obo/CLO_0050510 denotes 18
T165 1092-1093 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T166 1122-1123 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T167 1147-1148 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T168 1160-1162 http://purl.obolibrary.org/obo/CLO_0053733 denotes 11
T169 1178-1179 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T170 1187-1191 http://purl.obolibrary.org/obo/CLO_0053733 denotes 1 1
T171 1202-1203 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T172 1226-1227 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T173 1252-1257 http://purl.obolibrary.org/obo/CLO_0001006 denotes 31 1
T174 1311-1316 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T175 1318-1319 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T176 1320-1321 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T177 1347-1352 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T178 1377-1382 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T179 1384-1386 http://purl.obolibrary.org/obo/CLO_0053733 denotes 11
T180 1407-1412 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T181 1437-1442 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T182 1444-1446 http://purl.obolibrary.org/obo/CLO_0053733 denotes 11
T183 1451-1456 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes Human
T184 1499-1504 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes Human
T185 1601-1602 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T186 1629-1636 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes viruses
T187 1651-1656 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T188 1735-1736 http://purl.obolibrary.org/obo/CLO_0001021 denotes b
T189 1770-1775 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T190 1785-1792 http://purl.obolibrary.org/obo/UBERON_0000473 denotes testing
T191 1881-1886 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T192 1887-1893 http://purl.obolibrary.org/obo/UBERON_0001005 denotes airway
T193 1894-1904 http://purl.obolibrary.org/obo/CL_0000066 denotes epithelial
T194 2047-2052 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T195 2062-2069 http://purl.obolibrary.org/obo/UBERON_0000473 denotes testing
T196 2272-2277 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T197 2287-2294 http://purl.obolibrary.org/obo/UBERON_0000473 denotes testing

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T53 1165-1167 Chemical denotes NA http://purl.obolibrary.org/obo/CHEBI_33696
T54 1286-1288 Chemical denotes NA http://purl.obolibrary.org/obo/CHEBI_33696
T55 1328-1330 Chemical denotes NA http://purl.obolibrary.org/obo/CHEBI_33696
T56 1358-1360 Chemical denotes NA http://purl.obolibrary.org/obo/CHEBI_33696
T57 1388-1390 Chemical denotes NA http://purl.obolibrary.org/obo/CHEBI_33696
T58 1418-1420 Chemical denotes NA http://purl.obolibrary.org/obo/CHEBI_33696
T59 1448-1450 Chemical denotes NA http://purl.obolibrary.org/obo/CHEBI_33696
T60 1478-1480 Chemical denotes NA http://purl.obolibrary.org/obo/CHEBI_33696
T61 1519-1521 Chemical denotes NA http://purl.obolibrary.org/obo/CHEBI_33696
T62 1542-1544 Chemical denotes NA http://purl.obolibrary.org/obo/CHEBI_33696
T63 1565-1567 Chemical denotes NA http://purl.obolibrary.org/obo/CHEBI_33696
T64 1598-1600 Chemical denotes NA http://purl.obolibrary.org/obo/CHEBI_33696

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T138 0-41 Sentence denotes Cross-reactivity with other coronaviruses
T139 42-222 Sentence denotes Cell culture supernatants containing all endemic human coronaviruses (HCoV)‑229E, ‑NL63, ‑OC43 and ‑HKU1 as well as MERS-CoV were tested in duplicate in all three assays (Table 2).
T140 223-304 Sentence denotes For the non-cultivable HCoV-HKU1, supernatant from human airway culture was used.
T141 305-479 Sentence denotes Viral RNA concentration in all samples was determined by specific real-time RT-PCRs and in vitro-transcribed RNA standards designed for absolute quantification of viral load.
T142 480-585 Sentence denotes Additional undiluted (but not quantified) cell culture supernatants were tested as summarised in Table 2.
T143 586-651 Sentence denotes These were additionally mixed into negative human sputum samples.
T144 652-734 Sentence denotes None of the tested viruses or virus preparations showed reactivity with any assay.
T145 735-921 Sentence denotes Table 2 Tests of known respiratory viruses and bacteria in clinical samples and cell culture preparations for cross-reactivity in 2019 novel coronavirus E and RdRp gene assays (n = 310)
T146 922-993 Sentence denotes Clinical samples with known viruses Clinical samplesa Virus isolatesb
T147 994-1011 Sentence denotes HCoV-HKU1 14 1c
T148 1012-1029 Sentence denotes HCoV-OC43 16 2d
T149 1030-1047 Sentence denotes HCoV-NL63 14 1e
T150 1048-1065 Sentence denotes HCoV-229E 18 2f
T151 1066-1081 Sentence denotes MERS-CoV 5 1g
T152 1082-1111 Sentence denotes Influenza A(H1N1)pdm09 17 1
T153 1112-1136 Sentence denotes Influenza A(H3N2) 16 1
T154 1137-1167 Sentence denotes Influenza A (untyped) 11 NA
T155 1168-1191 Sentence denotes Influenza A(H5N1) 1 1
T156 1192-1215 Sentence denotes Influenza A(H7N9) 0 1
T157 1216-1257 Sentence denotes Influenza B (Victoria or Yamagata) 31 1
T158 1258-1288 Sentence denotes Rhinovirus/enterovirus 31 NA
T159 1289-1330 Sentence denotes Respiratory syncytial virus (A/B) 33 NA
T160 1331-1360 Sentence denotes Parainfluenza 1 virus 12 NA
T161 1361-1390 Sentence denotes Parainfluenza 2 virus 11 NA
T162 1391-1420 Sentence denotes Parainfluenza 3 virus 14 NA
T163 1421-1450 Sentence denotes Parainfluenza 4 virus 11 NA
T164 1451-1480 Sentence denotes Human metapneumovirus 16 NA
T165 1481-1498 Sentence denotes Adenovirus 13 1
T166 1499-1521 Sentence denotes Human bocavirus 6 NA
T167 1522-1537 Sentence denotes Legionella spp.
T168 1539-1544 Sentence denotes 3 NA
T169 1545-1560 Sentence denotes Mycoplasma spp.
T170 1562-1567 Sentence denotes 4 NA
T171 1568-1600 Sentence denotes Total clinical samples 297 NA
T172 1601-1734 Sentence denotes a For samples with multiple viruses detected, the virus with highest concentration is listed, as indicated by real-time PCR Ct value.
T173 1735-1800 Sentence denotes b Directly quantified or spiked in human negative-testing sputum.
T174 1801-1866 Sentence denotes c 1 × 105 RNA copies/mL, determined by specific real-time RT-PCR.
T175 1867-1913 Sentence denotes Isolated from human airway epithelial culture.
T176 1914-1995 Sentence denotes d 1 × 1010 RNA copies/mL, determined by specific real-time RT-PCR of one isolate.
T177 1996-2077 Sentence denotes The other isolate was not quantified but spiked in human negative-testing sputum.
T178 2078-2143 Sentence denotes e 4 × 109 RNA copies/mL, determined by specific real-time RT-PCR.
T179 2144-2224 Sentence denotes f 3 × 109 RNA copies/mL, determined by specific real-time RT-PCR of one isolate.
T180 2225-2302 Sentence denotes The other isolate was not quantified spiked in human negative-testing sputum.
T181 2303-2368 Sentence denotes g 1 × 108 RNA copies/mL, determined by specific real-time RT-PCR.

LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
287 131-146 Gene denotes ‑OC43 and ‑HKU1
288 91-96 Species denotes human Tax:9606
289 97-110 Species denotes coronaviruses Tax:11118
290 112-122 Species denotes HCoV)‑229E Tax:11137
291 158-166 Species denotes MERS-CoV Tax:1335626
292 246-255 Species denotes HCoV-HKU1 Tax:290028
293 274-279 Species denotes human Tax:9606
294 630-635 Species denotes human Tax:9606
295 125-129 Species denotes NL63 Tax:277944
309 994-1003 Species denotes HCoV-HKU1 Tax:290028
310 1012-1021 Species denotes HCoV-OC43 Tax:31631
311 1030-1039 Species denotes HCoV-NL63 Tax:277944
312 1048-1057 Species denotes HCoV-229E Tax:11137
313 1066-1074 Species denotes MERS-CoV Tax:1335626
314 1094-1098 Species denotes H1N1 Tax:114727
315 1124-1128 Species denotes H3N2 Tax:119210
316 1258-1268 Species denotes Rhinovirus Tax:12059
317 1289-1319 Species denotes Respiratory syncytial virus (A Tax:1439707
318 1451-1472 Species denotes Human metapneumovirus Tax:162145
319 1481-1491 Species denotes Adenovirus Tax:10508
320 1499-1514 Species denotes Human bocavirus Tax:329641
321 1204-1208 CellLine denotes H7N9 CVCL:0452
325 895-899 Gene denotes RdRp Gene:43740578
326 866-888 Species denotes 2019 novel coronavirus Tax:2697049
327 759-770 Species denotes respiratory Tax:1439707
329 1770-1775 Species denotes human Tax:9606
332 1822-1824 Gene denotes mL Gene:21832
333 1881-1886 Species denotes human Tax:9606
336 1936-1938 Gene denotes mL Gene:21832
337 2047-2052 Species denotes human Tax:9606
339 2099-2101 Gene denotes mL Gene:21832
342 2165-2167 Gene denotes mL Gene:21832
343 2272-2277 Species denotes human Tax:9606
345 2324-2326 Gene denotes mL Gene:21832