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PMC:7144273 / 1644-4559 JSONTXT

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LitCovid-PMC-OGER-BB

Id Subject Object Predicate Lexical cue
T28 17-28 NCBITaxon:11118 denotes coronavirus
T29 43-51 SP_7 denotes COVID-19
T30 241-253 SP_7 denotes severe acute
T31 254-265 SP_7;UBERON:0001004 denotes respiratory
T32 266-288 SP_7 denotes syndrome coronavirus 2
T33 290-300 SP_7 denotes SARS-CoV-2
T34 319-322 BV_22 denotes RNA
T35 323-328 BV_22;NCBITaxon:10239 denotes virus
T36 336-349 NCBITaxon:11118 denotes Coronaviridae
T37 350-355 NCBITaxon:10239 denotes virus
T38 364-369 SP_6;NCBITaxon:9606 denotes Human
T39 373-378 SP_6;NCBITaxon:9606 denotes human
T40 407-418 UBERON:0001004 denotes respiratory
T41 561-578 UBERON:0000065 denotes respiratory tract
T42 677-688 UBERON:0001004 denotes respiratory
T43 909-917 SP_7 denotes COVID-19
T44 1012-1017 UBERON:0000062 denotes organ
T45 1093-1098 NCBITaxon:10239 denotes viral
T46 1321-1331 DG_28 denotes remdesivir
T47 1333-1342 DG_23 denotes lopinavir
T48 1343-1352 DG_30 denotes ritonavir
T49 1357-1366 DG_23 denotes lopinavir
T50 1367-1376 DG_30 denotes ritonavir
T51 1485-1495 DG_28 denotes Remdesivir
T52 1500-1505 PR:000008924 denotes IFN-β
T53 1554-1563 DG_23;NCBITaxon:11646 denotes lopinavir
T54 1568-1578 DG_28 denotes remdesivir
T55 1608-1619 UBERON:0001004 denotes respiratory
T56 1630-1634 SP_9 denotes MERS
T57 1636-1647 NCBITaxon:11118 denotes coronavirus
T58 1681-1691 SP_7 denotes SARS-CoV-2
T59 1729-1733 CHEBI:33290;CHEBI:33290 denotes Food
T60 1738-1742 CHEBI:23888;CHEBI:23888 denotes Drug
T61 1793-1811 CHEBI:5801;CHEBI:5801;DG_20 denotes hydroxychloroquine
T62 1815-1823 SP_7 denotes COVID-19
T63 1915-1920 NCBITaxon:10239 denotes virus
T64 1951-1956 UBERON:0000170 denotes lungs
T65 2199-2210 CL:0000134;UBERON:0003104 denotes mesenchymal
T66 2211-2215 CL:0002540 denotes stem
T67 2217-2224 CL:0000499;UBERON:0003891 denotes stromal
T68 2233-2237 DG_47 denotes MSCs
T69 2291-2313 GO:1903561 denotes extracellular vesicles
T70 2377-2385 SP_7 denotes COVID-19
T71 2386-2397 GO:0045333 denotes respiratory
T72 2601-2612 UBERON:0001004 denotes respiratory
T73 2613-2618 NCBITaxon:10239 denotes viral
T74 2669-2680 UBERON:0001004 denotes respiratory
T75 2681-2686 NCBITaxon:10239 denotes virus
T2084 17-28 NCBITaxon:11118 denotes coronavirus
T24757 43-51 SP_7 denotes COVID-19
T77433 241-253 SP_7 denotes severe acute
T25240 254-265 SP_7;UBERON:0001004 denotes respiratory
T61821 266-288 SP_7 denotes syndrome coronavirus 2
T51488 290-300 SP_7 denotes SARS-CoV-2
T72346 319-322 BV_22 denotes RNA
T63541 323-328 BV_22;NCBITaxon:10239 denotes virus
T63057 336-349 NCBITaxon:11118 denotes Coronaviridae
T74239 350-355 NCBITaxon:10239 denotes virus
T50871 364-369 SP_6;NCBITaxon:9606 denotes Human
T8899 373-378 SP_6;NCBITaxon:9606 denotes human
T56974 407-418 UBERON:0001004 denotes respiratory
T74650 561-578 UBERON:0000065 denotes respiratory tract
T87761 677-688 UBERON:0001004 denotes respiratory
T42553 909-917 SP_7 denotes COVID-19
T52691 1012-1017 UBERON:0000062 denotes organ
T41920 1093-1098 NCBITaxon:10239 denotes viral
T27259 1321-1331 DG_28 denotes remdesivir
T8475 1333-1342 DG_23 denotes lopinavir
T44553 1343-1352 DG_30 denotes ritonavir
T42287 1357-1366 DG_23 denotes lopinavir
T22890 1367-1376 DG_30 denotes ritonavir
T44456 1485-1495 DG_28 denotes Remdesivir
T64865 1500-1505 PR:000008924 denotes IFN-β
T84174 1554-1563 DG_23;NCBITaxon:11646 denotes lopinavir
T82214 1568-1578 DG_28 denotes remdesivir
T74336 1608-1619 UBERON:0001004 denotes respiratory
T80235 1630-1634 SP_9 denotes MERS
T53486 1636-1647 NCBITaxon:11118 denotes coronavirus
T31435 1681-1691 SP_7 denotes SARS-CoV-2
T4055 1729-1733 CHEBI:33290;CHEBI:33290 denotes Food
T94978 1738-1742 CHEBI:23888;CHEBI:23888 denotes Drug
T36847 1793-1811 CHEBI:5801;CHEBI:5801;DG_20 denotes hydroxychloroquine
T71772 1815-1823 SP_7 denotes COVID-19
T17314 1915-1920 NCBITaxon:10239 denotes virus
T53851 1951-1956 UBERON:0000170 denotes lungs
T25000 2199-2210 CL:0000134;UBERON:0003104 denotes mesenchymal
T85100 2211-2215 CL:0002540 denotes stem
T38762 2217-2224 CL:0000499;UBERON:0003891 denotes stromal
T37614 2233-2237 DG_47 denotes MSCs
T31115 2291-2313 GO:1903561 denotes extracellular vesicles
T19560 2377-2385 SP_7 denotes COVID-19
T12176 2386-2397 GO:0045333 denotes respiratory
T3124 2601-2612 UBERON:0001004 denotes respiratory
T63910 2613-2618 NCBITaxon:10239 denotes viral
T61343 2669-2680 UBERON:0001004 denotes respiratory
T19925 2681-2686 NCBITaxon:10239 denotes virus

LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T10 319-322 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T11 561-578 Body_part denotes respiratory tract http://purl.org/sig/ont/fma/fma265130
T12 1012-1017 Body_part denotes organ http://purl.org/sig/ont/fma/fma67498
T13 1929-1937 Body_part denotes cytokine http://purl.org/sig/ont/fma/fma84050
T14 1951-1956 Body_part denotes lungs http://purl.org/sig/ont/fma/fma68877
T15 2047-2058 Body_part denotes interleukin http://purl.org/sig/ont/fma/fma86578
T16 2060-2062 Body_part denotes IL http://purl.org/sig/ont/fma/fma86578
T17 2074-2078 Body_part denotes IL-1 http://purl.org/sig/ont/fma/fma86583
T18 2074-2076 Body_part denotes IL http://purl.org/sig/ont/fma/fma86578
T19 2157-2161 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T20 2226-2231 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T21 2332-2336 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T22 2871-2875 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646

LitCovid-PD-UBERON

Id Subject Object Predicate Lexical cue uberon_id
T3 561-578 Body_part denotes respiratory tract http://purl.obolibrary.org/obo/UBERON_0000065
T4 1012-1017 Body_part denotes organ http://purl.obolibrary.org/obo/UBERON_0000062

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T17 17-41 Disease denotes coronavirus disease 2019 http://purl.obolibrary.org/obo/MONDO_0100096
T18 43-51 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T19 241-288 Disease denotes severe acute respiratory syndrome coronavirus 2 http://purl.obolibrary.org/obo/MONDO_0100096
T20 241-274 Disease denotes severe acute respiratory syndrome http://purl.obolibrary.org/obo/MONDO_0005091
T21 290-298 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T22 290-294 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T23 561-588 Disease denotes respiratory tract infection http://purl.obolibrary.org/obo/MONDO_0024355
T24 579-588 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T25 657-666 Disease denotes pneumonia http://purl.obolibrary.org/obo/MONDO_0005249
T26 671-706 Disease denotes acute respiratory distress syndrome http://purl.obolibrary.org/obo/MONDO_0006502
T27 677-706 Disease denotes respiratory distress syndrome http://purl.obolibrary.org/obo/MONDO_0009971
T28 708-712 Disease denotes ARDS http://purl.obolibrary.org/obo/MONDO_0006502
T29 909-917 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T30 939-943 Disease denotes ARDS http://purl.obolibrary.org/obo/MONDO_0006502
T31 1003-1025 Disease denotes multiple organ failure http://purl.obolibrary.org/obo/MONDO_0043726
T32 1093-1108 Disease denotes viral infection http://purl.obolibrary.org/obo/MONDO_0005108
T33 1099-1108 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T34 1276-1286 Disease denotes infections http://purl.obolibrary.org/obo/MONDO_0005550
T35 1681-1689 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T36 1681-1685 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T37 1815-1823 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T38 2377-2385 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T39 2386-2405 Disease denotes respiratory disease http://purl.obolibrary.org/obo/MONDO_0005087
T40 2613-2629 Disease denotes viral infections http://purl.obolibrary.org/obo/MONDO_0005108
T41 2681-2697 Disease denotes virus infections http://purl.obolibrary.org/obo/MONDO_0005108
T42 2775-2779 Disease denotes ARDS http://purl.obolibrary.org/obo/MONDO_0006502

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T21 323-328 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T22 350-355 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T23 364-369 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes Human
T24 373-378 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T25 515-522 http://purl.obolibrary.org/obo/CLO_0053001 denotes 1 to 14
T26 800-805 http://purl.obolibrary.org/obo/CLO_0050507 denotes 2% [2
T27 1012-1017 http://purl.obolibrary.org/obo/UBERON_0003103 denotes organ
T28 1069-1070 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T29 1542-1550 http://purl.obolibrary.org/obo/CLO_0001658 denotes activity
T30 1764-1767 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T31 1915-1920 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T32 1951-1956 http://www.ebi.ac.uk/efo/EFO_0000934 denotes lungs
T33 2110-2111 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T34 2157-2161 http://purl.obolibrary.org/obo/GO_0005623 denotes cell
T35 2216-2231 http://purl.obolibrary.org/obo/CL_0000499 denotes (stromal) cells
T36 2332-2342 http://purl.obolibrary.org/obo/CL_0000000 denotes cell types
T37 2426-2427 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T38 2681-2686 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T39 2871-2875 http://purl.obolibrary.org/obo/GO_0005623 denotes cell

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T1 1321-1331 Chemical denotes remdesivir http://purl.obolibrary.org/obo/CHEBI_145994
T2 1333-1342 Chemical denotes lopinavir http://purl.obolibrary.org/obo/CHEBI_31781
T3 1343-1352 Chemical denotes ritonavir http://purl.obolibrary.org/obo/CHEBI_45409
T4 1357-1366 Chemical denotes lopinavir http://purl.obolibrary.org/obo/CHEBI_31781
T5 1367-1376 Chemical denotes ritonavir http://purl.obolibrary.org/obo/CHEBI_45409
T6 1381-1391 Chemical denotes interferon http://purl.obolibrary.org/obo/CHEBI_52999
T7 1393-1396 Chemical denotes IFN http://purl.obolibrary.org/obo/CHEBI_52999
T8 1500-1503 Chemical denotes IFN http://purl.obolibrary.org/obo/CHEBI_52999
T9 1532-1541 Chemical denotes antiviral http://purl.obolibrary.org/obo/CHEBI_22587
T10 1554-1563 Chemical denotes lopinavir http://purl.obolibrary.org/obo/CHEBI_31781
T11 1568-1578 Chemical denotes remdesivir http://purl.obolibrary.org/obo/CHEBI_145994
T12 1793-1811 Chemical denotes hydroxychloroquine http://purl.obolibrary.org/obo/CHEBI_5801
T13 2060-2062 Chemical denotes IL http://purl.obolibrary.org/obo/CHEBI_63895|http://purl.obolibrary.org/obo/CHEBI_74072
T15 2074-2076 Chemical denotes IL http://purl.obolibrary.org/obo/CHEBI_63895|http://purl.obolibrary.org/obo/CHEBI_74072

LitCovid-PD-GO-BP

Id Subject Object Predicate Lexical cue
T1 1093-1108 http://purl.obolibrary.org/obo/GO_0016032 denotes viral infection
T2 1974-1986 http://purl.obolibrary.org/obo/GO_0009405 denotes pathogenesis
T3 2613-2629 http://purl.obolibrary.org/obo/GO_0016032 denotes viral infections

LitCovid-PD-HP

Id Subject Object Predicate Lexical cue hp_id
T3 561-588 Phenotype denotes respiratory tract infection http://purl.obolibrary.org/obo/HP_0011947
T4 621-626 Phenotype denotes fever http://purl.obolibrary.org/obo/HP_0001945
T5 637-642 Phenotype denotes cough http://purl.obolibrary.org/obo/HP_0012735
T6 657-666 Phenotype denotes pneumonia http://purl.obolibrary.org/obo/HP_0002090
T7 677-697 Phenotype denotes respiratory distress http://purl.obolibrary.org/obo/HP_0002098
T8 993-998 Phenotype denotes shock http://purl.obolibrary.org/obo/HP_0031273
T9 1929-1943 Phenotype denotes cytokine storm http://purl.obolibrary.org/obo/HP_0033041

MyTest

Id Subject Object Predicate Lexical cue
32265310-31978945-29390428 214-215 31978945 denotes 1
32265310-31978945-29390429 454-455 31978945 denotes 1
32265310-31924756-29390430 804-805 31924756 denotes 2
32265310-31924756-29390431 1718-1719 31924756 denotes 2
32265310-32192578-29390432 2091-2092 32192578 denotes 3

2_test

Id Subject Object Predicate Lexical cue
32265310-31978945-29390428 214-215 31978945 denotes 1
32265310-31978945-29390429 454-455 31978945 denotes 1
32265310-31924756-29390430 804-805 31924756 denotes 2
32265310-31924756-29390431 1718-1719 31924756 denotes 2
32265310-32192578-29390432 2091-2092 32192578 denotes 3

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T12 0-12 Sentence denotes Introduction
T13 13-217 Sentence denotes The coronavirus disease 2019 (COVID-19) pandemic, originating in Wuhan, China, is rapidly and continuously spreading globally and can result in serious significant respiratory morbidity and mortality [1].
T14 218-363 Sentence denotes The responsible agent, severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), is an enveloped RNA virus of the Coronaviridae virus family.
T15 364-457 Sentence denotes Human-to-human transmission occurs through respiratory droplets or contaminated surfaces [1].
T16 458-528 Sentence denotes The average incubation period is 5 days, but ranges from 1 to 14 days.
T17 529-649 Sentence denotes Most patients present with mild respiratory tract infection, most commonly characterised by fever (82%) and cough (81%).
T18 650-807 Sentence denotes Severe pneumonia and acute respiratory distress syndrome (ARDS) have been described in 14% of the reported cases, and the overall mortality is around 2% [2].
T19 808-904 Sentence denotes However, these numbers are evolving as the pandemic spreads, and depend on the country involved.
T20 905-1170 Sentence denotes For COVID-19 patients who develop ARDS requiring intubation and mechanical ventilation, shock and multiple organ failure can also develop, although whether this is a direct consequence of viral infection or due to complications of critical illness is not yet clear.
T21 1171-1287 Sentence denotes Current therapeutic approaches include aggressive standard supportive care and treatment of any other co-infections.
T22 1288-1484 Sentence denotes Antiviral medications, including remdesivir, lopinavir–ritonavir, or lopinavir–ritonavir and interferon (IFN)-β1, are under investigation but safety and potential efficacy remain to be determined.
T23 1485-1721 Sentence denotes Remdesivir and IFN-β1β appear to have superior antiviral activity to lopinavir and remdesivir in vitro for the Middle East respiratory syndrome (MERS) coronavirus but whether this is the case for SARS-CoV-2 remains to be determined [2].
T24 1722-1875 Sentence denotes The US Food and Drug Administration (FDA) has recently approved use of hydroxychloroquine in COVID-19 patients but the efficacy remains to be determined.
T25 1876-2094 Sentence denotes Growing information also suggests that virus-induced cytokine storm in the lungs may drive severe pathogenesis and provide potential therapeutic targets, for example anti-interleukin (IL)-6 or anti-IL-1 approaches [3].
T26 2095-2406 Sentence denotes More recently, a growing number of clinical investigations of cell-based therapies, primarily involving mesenchymal stem (stromal) cells (MSCs) but also utilising MSC-derived conditioned media or extracellular vesicles and several other cell types, have been initiated in China for COVID-19 respiratory disease.
T27 2407-2630 Sentence denotes As these encompass a wide range of approaches and targeted patient groups, it is imperative to better understand the rationale of the studies and the potential mechanisms of MSC actions towards respiratory viral infections.
T28 2631-2915 Sentence denotes Recent pre-clinical data in models of respiratory virus infections and relevant related clinical studies of MSC administration in patients with ARDS can contribute to better definition of the patient population for whom potential MSC-based cell therapy approaches might be considered.

LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
66 241-300 Species denotes severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2 Tax:2697049
67 336-349 Species denotes Coronaviridae Tax:11118
68 364-369 Species denotes Human Tax:9606
69 373-378 Species denotes human Tax:9606
70 534-542 Species denotes patients Tax:9606
71 177-188 Species denotes respiratory Tax:12814
72 407-418 Species denotes respiratory Tax:12814
74 203-212 Disease denotes mortality MESH:D003643
75 561-588 Disease denotes respiratory tract infection MESH:D012141
76 621-626 Disease denotes fever MESH:D005334
77 637-642 Disease denotes cough MESH:D003371
78 657-666 Disease denotes pneumonia MESH:D011014
79 671-706 Disease denotes acute respiratory distress syndrome MESH:D012128
80 708-712 Disease denotes ARDS MESH:D012128
81 780-789 Disease denotes mortality MESH:D003643
104 1381-1401 Gene denotes interferon (IFN)-β1, Gene:3456
105 2047-2065 Gene denotes interleukin (IL)-6 Gene:3569
106 2074-2078 Gene denotes IL-1 Gene:3552
107 918-926 Species denotes patients Tax:9606
108 1596-1647 Species denotes Middle East respiratory syndrome (MERS) coronavirus Tax:1335626
109 1681-1691 Species denotes SARS-CoV-2 Tax:2697049
110 1824-1832 Species denotes patients Tax:9606
111 1321-1331 Chemical denotes remdesivir MESH:C000606551
112 1333-1352 Chemical denotes lopinavir–ritonavir MESH:C558899
113 1357-1376 Chemical denotes lopinavir–ritonavir MESH:C558899
114 1485-1495 Chemical denotes Remdesivir MESH:C000606551
115 1554-1563 Chemical denotes lopinavir MESH:D061466
116 1568-1578 Chemical denotes remdesivir MESH:C000606551
117 1793-1811 Chemical denotes hydroxychloroquine MESH:D006886
118 909-917 Disease denotes COVID-19 MESH:C000657245
119 939-943 Disease denotes ARDS MESH:D012128
120 993-998 Disease denotes shock MESH:D012769
121 1003-1025 Disease denotes multiple organ failure MESH:D009102
122 1093-1108 Disease denotes viral infection MESH:D001102
123 1136-1152 Disease denotes critical illness MESH:D016638
124 1273-1286 Disease denotes co-infections MESH:D060085
125 1815-1823 Disease denotes COVID-19 MESH:C000657245
140 2130-2138 Species denotes clinical Tax:191496