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PMC:7025910 JSONTXT

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LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
4 18-25 Species denotes Patient Tax:9606
5 116-135 Chemical denotes Lopinavir/Ritonavir MESH:C558899
6 62-86 Disease denotes Coronavirus Disease 2019 MESH:C000657245
7 157-175 Disease denotes COVID-19 Pneumonia MESH:C000657245
23 344-352 Species denotes patients Tax:9606
24 586-593 Species denotes patient Tax:9606
25 850-857 Species denotes patient Tax:9606
26 995-1002 Species denotes patient Tax:9606
27 1144-1157 Species denotes β-coronavirus Tax:694002
28 1211-1222 Species denotes coronavirus Tax:11118
29 1088-1107 Chemical denotes lopinavir/ritonavir MESH:C558899
30 247-271 Disease denotes coronavirus disease 2019 MESH:C000657245
31 273-281 Disease denotes COVID-19 MESH:C000657245
32 335-343 Disease denotes COVID-19 MESH:C000657245
33 540-550 Disease denotes infections MESH:D007239
34 609-617 Disease denotes COVID-19 MESH:C000657245
35 680-700 Disease denotes respiratory symptoms MESH:D012818
36 718-723 Disease denotes fever MESH:D005334
37 765-774 Disease denotes pneumonia MESH:D011014
40 1390-1401 Disease denotes muscle pain MESH:D063806
41 1558-1566 Disease denotes COVID-19 MESH:C000657245
44 1648-1659 Species denotes coronavirus Tax:11118
45 1623-1631 Disease denotes COVID-19 MESH:C000657245
51 1800-1807 Species denotes patient Tax:9606
52 1845-1852 Species denotes patient Tax:9606
53 1913-1920 Species denotes patient Tax:9606
54 1967-1975 Disease denotes COVID-19 MESH:C000657245
55 2142-2150 Disease denotes COVID-19 MESH:C000657245
62 2176-2183 Species denotes patient Tax:9606
63 2761-2789 Species denotes human immunodeficiency virus Tax:12721
64 2791-2794 Species denotes HIV Tax:12721
65 2402-2422 Disease denotes respiratory symptoms MESH:D012818
66 2736-2743 Disease denotes Malaria MESH:D008288
67 2747-2759 Disease denotes tuberculosis MESH:D014376
73 2888-2893 Disease denotes fever MESH:D005334
74 2898-2907 Disease denotes dry cough MESH:D003371
75 2972-2992 Disease denotes respiratory symptoms MESH:D012818
76 3001-3020 Disease denotes shortness of breath MESH:D004417
77 3043-3053 Disease denotes chest pain MESH:D002637
80 3320-3327 Species denotes patient Tax:9606
81 3725-3735 Species denotes SARS-CoV-2 Tax:2697049
90 4104-4117 Species denotes β-coronavirus Tax:694002
91 4177-4188 Species denotes coronavirus Tax:11118
92 3815-3834 Chemical denotes lopinavir/ritonavir MESH:C558899
93 3885-3904 Chemical denotes Lopinavir/ritonavir MESH:C558899
94 3973-3982 Chemical denotes lopinavir MESH:D061466
95 3990-3999 Chemical denotes ritonavir MESH:D019438
96 4068-4087 Chemical denotes lopinavir/ritonavir MESH:C558899
97 3874-3882 Disease denotes COVID-19 MESH:C000657245
102 4303-4313 Species denotes SARS-CoV-2 Tax:2697049
103 4400-4419 Chemical denotes lopinavir/ritonavir MESH:C558899
104 4507-4526 Chemical denotes lopinavir/ritonavir MESH:C558899
105 4545-4553 Disease denotes COVID-19 MESH:C000657245
115 4559-4566 Species denotes patient Tax:9606
116 4679-4686 Species denotes patient Tax:9606
117 4716-4722 Species denotes people Tax:9606
118 4777-4785 Species denotes patients Tax:9606
119 4586-4606 Disease denotes psychiatric symptoms MESH:D004421
120 4615-4625 Disease denotes depression MESH:D000275
121 4627-4635 Disease denotes insomnia MESH:D007319
122 4768-4776 Disease denotes COVID-19 MESH:C000657245
123 4825-4833 Disease denotes COVID-19 MESH:C000657245
133 5129-5136 Species denotes patient Tax:9606
134 5417-5425 Species denotes patients Tax:9606
135 5429-5437 Species denotes patients Tax:9606
136 5201-5220 Chemical denotes lopinavir/ritonavir MESH:C558899
137 5316-5335 Chemical denotes lopinavir/ritonavir MESH:C558899
138 5546-5565 Chemical denotes lopinavir/ritonavir MESH:C558899
139 5078-5086 Disease denotes COVID-19 MESH:C000657245
140 5173-5182 Disease denotes pneumonia MESH:D011014
141 5389-5407 Disease denotes COVID-19 pneumonia MESH:C000657245
143 5656-5663 Species denotes patient Tax:9606
145 5821-5828 Species denotes patient Tax:9606
147 6164-6166 Disease denotes MJ MESH:D009207
149 6223-6225 Disease denotes MJ MESH:D009207
167 6786-6793 Species denotes patient Tax:9606
169 7188-7195 Species denotes patient Tax:9606
181 8229-8232 Gene denotes AST Gene:26503
182 8006-8013 Chemical denotes Glucose MESH:D005947
183 8103-8113 Chemical denotes Creatinine MESH:D003404
184 7382-7384 Disease denotes HD MESH:D006816
185 7404-7406 Disease denotes HD MESH:D006816
186 7426-7428 Disease denotes HD MESH:D006816
187 7448-7450 Disease denotes HD MESH:D006816
188 7471-7473 Disease denotes HD MESH:D006816
189 7494-7496 Disease denotes HD MESH:D006816
190 7518-7520 Disease denotes HD MESH:D006816
191 7542-7544 Disease denotes HD MESH:D006816
198 9121-9124 Gene denotes AST Gene:26503
199 9161-9185 Gene denotes alanine aminotransferase Gene:2875
200 9209-9212 Gene denotes ALP Gene:250
201 9304-9307 Gene denotes CRP Gene:1401
202 9310-9328 Gene denotes C-reactive protein Gene:1401
203 9102-9104 Disease denotes HD MESH:D006816

LitCovid_Glycan-Motif-Structure

Id Subject Object Predicate Lexical cue
T1 8006-8013 https://glytoucan.org/Structures/Glycans/G15021LG denotes Glucose

LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T1 787-792 Body_part denotes chest http://purl.org/sig/ont/fma/fma9576
T2 1390-1396 Body_part denotes muscle http://purl.org/sig/ont/fma/fma32558
T3 1777-1783 Body_part denotes throat http://purl.org/sig/ont/fma/fma228738
T4 2280-2284 Body_part denotes body http://purl.org/sig/ont/fma/fma256135
T5 2427-2432 Body_part denotes blood http://purl.org/sig/ont/fma/fma9670
T6 2542-2546 Body_part denotes body http://purl.org/sig/ont/fma/fma256135
T7 2626-2630 Body_part denotes lung http://purl.org/sig/ont/fma/fma7195
T8 2658-2663 Body_part denotes chest http://purl.org/sig/ont/fma/fma9576
T9 2791-2794 Body_part denotes HIV http://purl.org/sig/ont/fma/fma278683
T10 2796-2798 Body_part denotes Ag http://purl.org/sig/ont/fma/fma61898
T11 3033-3039 Body_part denotes sputum http://purl.org/sig/ont/fma/fma312401
T12 3043-3048 Body_part denotes chest http://purl.org/sig/ont/fma/fma9576
T13 3078-3094 Body_part denotes right upper lobe http://purl.org/sig/ont/fma/fma7333
T14 3447-3450 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T15 3474-3480 Body_part denotes sputum http://purl.org/sig/ont/fma/fma312401
T16 3500-3503 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T17 6175-6179 Body_part denotes Shin http://purl.org/sig/ont/fma/fma24985
T18 6227-6231 Body_part denotes Shin http://purl.org/sig/ont/fma/fma24985
T19 6598-6604 Body_part denotes sputum http://purl.org/sig/ont/fma/fma312401
T20 6799-6804 Body_part denotes Chest http://purl.org/sig/ont/fma/fma9576
T21 6849-6854 Body_part denotes Chest http://purl.org/sig/ont/fma/fma9576
T22 6899-6904 Body_part denotes Chest http://purl.org/sig/ont/fma/fma9576
T23 7204-7207 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T24 7218-7221 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T25 7549-7565 Body_part denotes White blood cell http://purl.org/sig/ont/fma/fma62852
T26 7561-7565 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T27 7645-7655 Body_part denotes neutrophil http://purl.org/sig/ont/fma/fma62860
T28 7707-7717 Body_part denotes Lymphocyte http://purl.org/sig/ont/fma/fma62863
T29 7769-7777 Body_part denotes Monocyte http://purl.org/sig/ont/fma/fma62864
T30 7828-7838 Body_part denotes Eosinophil http://purl.org/sig/ont/fma/fma62861
T31 7882-7892 Body_part denotes Hemoglobin http://purl.org/sig/ont/fma/fma62293
T32 7947-7956 Body_part denotes Platelets http://purl.org/sig/ont/fma/fma62851
T33 8006-8013 Body_part denotes Glucose http://purl.org/sig/ont/fma/fma82743
T34 8646-8653 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T35 8855-8865 Body_part denotes Calcitonin http://purl.org/sig/ont/fma/fma83348
T36 9161-9168 Body_part denotes alanine http://purl.org/sig/ont/fma/fma82749
T37 9272-9283 Body_part denotes erythrocyte http://purl.org/sig/ont/fma/fma62845
T38 9321-9328 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257

LitCovid-PD-UBERON

Id Subject Object Predicate Lexical cue uberon_id
T1 787-792 Body_part denotes chest http://purl.obolibrary.org/obo/UBERON_0001443
T2 1777-1783 Body_part denotes throat http://purl.obolibrary.org/obo/UBERON_0000341
T3 2427-2432 Body_part denotes blood http://purl.obolibrary.org/obo/UBERON_0000178
T4 2626-2630 Body_part denotes lung http://purl.obolibrary.org/obo/UBERON_0002048
T5 2658-2663 Body_part denotes chest http://purl.obolibrary.org/obo/UBERON_0001443
T6 3033-3039 Body_part denotes sputum http://purl.obolibrary.org/obo/UBERON_0007311
T7 3043-3048 Body_part denotes chest http://purl.obolibrary.org/obo/UBERON_0001443
T8 3090-3094 Body_part denotes lobe http://purl.obolibrary.org/obo/UBERON_3010752
T9 3474-3480 Body_part denotes sputum http://purl.obolibrary.org/obo/UBERON_0007311
T10 6598-6604 Body_part denotes sputum http://purl.obolibrary.org/obo/UBERON_0007311
T11 6799-6804 Body_part denotes Chest http://purl.obolibrary.org/obo/UBERON_0001443
T12 6849-6854 Body_part denotes Chest http://purl.obolibrary.org/obo/UBERON_0001443
T13 6899-6904 Body_part denotes Chest http://purl.obolibrary.org/obo/UBERON_0001443
T14 7555-7560 Body_part denotes blood http://purl.obolibrary.org/obo/UBERON_0000178

LitCovid_AGAC

Id Subject Object Predicate Lexical cue
p3216s20 1184-1193 NegReg denotes decreased
p3240s19 4140-4148 NegReg denotes decrease
p3248s9 5240-5247 NegReg denotes reduced

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T1 62-86 Disease denotes Coronavirus Disease 2019 http://purl.obolibrary.org/obo/MONDO_0100096
T2 157-165 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T3 166-175 Disease denotes Pneumonia http://purl.obolibrary.org/obo/MONDO_0005249
T4 247-271 Disease denotes coronavirus disease 2019 http://purl.obolibrary.org/obo/MONDO_0100096
T5 273-281 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T6 335-343 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T7 540-550 Disease denotes infections http://purl.obolibrary.org/obo/MONDO_0005550
T8 609-617 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T9 765-774 Disease denotes pneumonia http://purl.obolibrary.org/obo/MONDO_0005249
T10 1472-1474 Disease denotes he http://purl.obolibrary.org/obo/MONDO_0017319
T11 1558-1566 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T12 1623-1631 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T13 1967-1975 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T14 2142-2150 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T15 2392-2394 Disease denotes he http://purl.obolibrary.org/obo/MONDO_0017319
T16 2721-2734 Disease denotes Tsutsugamushi http://purl.obolibrary.org/obo/MONDO_0019365
T17 2736-2743 Disease denotes Malaria http://purl.obolibrary.org/obo/MONDO_0005136
T18 2747-2759 Disease denotes tuberculosis http://purl.obolibrary.org/obo/MONDO_0018076
T19 2767-2783 Disease denotes immunodeficiency http://purl.obolibrary.org/obo/MONDO_0021094
T20 2807-2823 Disease denotes venereal disease http://purl.obolibrary.org/obo/MONDO_0021681
T21 2954-2956 Disease denotes he http://purl.obolibrary.org/obo/MONDO_0017319
T22 3725-3733 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T23 4303-4311 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T24 4545-4553 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T25 4615-4625 Disease denotes depression http://purl.obolibrary.org/obo/MONDO_0002050
T26 4627-4635 Disease denotes insomnia http://purl.obolibrary.org/obo/MONDO_0013600
T27 4768-4776 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T28 4825-4833 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T29 5078-5086 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T30 5173-5182 Disease denotes pneumonia http://purl.obolibrary.org/obo/MONDO_0005249
T31 5389-5397 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T32 5398-5407 Disease denotes pneumonia http://purl.obolibrary.org/obo/MONDO_0005249
T33 5914-5922 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T34 5995-6003 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T35 6502-6510 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T36 6584-6592 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T37 7382-7384 Disease denotes HD http://purl.obolibrary.org/obo/MONDO_0007739
T38 7404-7406 Disease denotes HD http://purl.obolibrary.org/obo/MONDO_0007739
T39 7426-7428 Disease denotes HD http://purl.obolibrary.org/obo/MONDO_0007739
T40 7448-7450 Disease denotes HD http://purl.obolibrary.org/obo/MONDO_0007739
T41 7471-7473 Disease denotes HD http://purl.obolibrary.org/obo/MONDO_0007739
T42 7494-7496 Disease denotes HD http://purl.obolibrary.org/obo/MONDO_0007739
T43 7518-7520 Disease denotes HD http://purl.obolibrary.org/obo/MONDO_0007739
T44 7542-7544 Disease denotes HD http://purl.obolibrary.org/obo/MONDO_0007739
T45 8356-8358 Disease denotes CK http://purl.obolibrary.org/obo/MONDO_0017941
T46 9102-9104 Disease denotes HD http://purl.obolibrary.org/obo/MONDO_0007739
T47 9187-9189 Disease denotes CK http://purl.obolibrary.org/obo/MONDO_0017941

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T1 283-286 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T2 568-572 http://purl.obolibrary.org/obo/UBERON_0003101 denotes male
T3 568-572 http://www.ebi.ac.uk/efo/EFO_0000970 denotes male
T4 634-635 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T5 647-648 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T6 787-792 http://www.ebi.ac.uk/efo/EFO_0000965 denotes chest
T7 1266-1270 http://purl.obolibrary.org/obo/CLO_0001599 denotes A 54
T8 1390-1396 http://purl.obolibrary.org/obo/UBERON_0001630 denotes muscle
T9 1390-1396 http://purl.obolibrary.org/obo/UBERON_0005090 denotes muscle
T10 1390-1396 http://www.ebi.ac.uk/efo/EFO_0000801 denotes muscle
T11 1390-1396 http://www.ebi.ac.uk/efo/EFO_0001949 denotes muscle
T12 1413-1415 http://purl.obolibrary.org/obo/CLO_0050507 denotes 22
T13 1434-1435 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T14 1491-1492 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T15 1644-1647 http://purl.obolibrary.org/obo/NCBITaxon_9596 denotes pan
T16 1775-1776 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T17 1824-1829 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T18 1853-1854 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T19 1859-1860 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T20 1921-1922 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T21 2035-2036 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T22 2188-2189 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T23 2240-2241 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T24 2427-2432 http://purl.obolibrary.org/obo/UBERON_0000178 denotes blood
T25 2427-2432 http://www.ebi.ac.uk/efo/EFO_0000296 denotes blood
T26 2540-2541 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T27 2626-2630 http://purl.obolibrary.org/obo/UBERON_0002048 denotes lung
T28 2626-2630 http://www.ebi.ac.uk/efo/EFO_0000934 denotes lung
T29 2658-2663 http://www.ebi.ac.uk/efo/EFO_0000965 denotes chest
T30 2685-2690 http://purl.obolibrary.org/obo/UBERON_0000473 denotes Tests
T31 2714-2719 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T32 2761-2766 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T33 2784-2789 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T34 2851-2855 http://purl.obolibrary.org/obo/UBERON_0000473 denotes test
T35 3043-3048 http://www.ebi.ac.uk/efo/EFO_0000965 denotes chest
T36 5036-5037 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T37 5127-5128 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T38 5962-5963 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T39 5964-5968 http://purl.obolibrary.org/obo/UBERON_0000473 denotes test
T40 6006-6011 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T41 6164-6166 http://purl.obolibrary.org/obo/CLO_0007731 denotes MJ
T42 6172-6173 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T43 6223-6225 http://purl.obolibrary.org/obo/CLO_0007731 denotes MJ
T44 6240-6241 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T45 6260-6261 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T46 6535-6536 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T47 6581-6582 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T48 6671-6676 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T49 6796-6797 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T50 6799-6804 http://www.ebi.ac.uk/efo/EFO_0000965 denotes Chest
T51 6846-6847 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T52 6849-6854 http://www.ebi.ac.uk/efo/EFO_0000965 denotes Chest
T53 6899-6904 http://www.ebi.ac.uk/efo/EFO_0000965 denotes Chest
T54 7045-7047 http://purl.obolibrary.org/obo/CLO_0001547 denotes AP
T55 7555-7560 http://www.ebi.ac.uk/efo/EFO_0000296 denotes blood
T56 7561-7565 http://purl.obolibrary.org/obo/GO_0005623 denotes cell
T57 7769-7777 http://purl.obolibrary.org/obo/CL_0000576 denotes Monocyte
T58 7982-7985 http://purl.obolibrary.org/obo/CLO_0001196 denotes 225
T59 8026-8029 http://purl.obolibrary.org/obo/CLO_0053001 denotes 114
T60 8239-8241 http://purl.obolibrary.org/obo/CLO_0050509 denotes 27
T61 8250-8252 http://purl.obolibrary.org/obo/CLO_0050507 denotes 22
T62 8304-8306 http://purl.obolibrary.org/obo/CLO_0053799 denotes 45
T63 8461-8464 http://purl.obolibrary.org/obo/CLO_0001310 denotes 351
T64 8621-8624 http://purl.obolibrary.org/obo/CLO_0054060 denotes 102
T65 8770-8772 http://purl.obolibrary.org/obo/CLO_0050509 denotes 27
T66 9215-9235 http://purl.obolibrary.org/obo/PR_000023540 denotes alkaline phosphatase
T67 9272-9283 http://purl.obolibrary.org/obo/CL_0000232 denotes erythrocyte
T68 9335-9346 http://purl.obolibrary.org/obo/PR_000007299 denotes prothrombin
T69 9398-9407 http://purl.obolibrary.org/obo/CLO_0001658 denotes activated

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T1 116-125 Chemical denotes Lopinavir http://purl.obolibrary.org/obo/CHEBI_31781
T2 568-572 Chemical denotes male http://purl.obolibrary.org/obo/CHEBI_30780
T3 1088-1107 Chemical denotes lopinavir/ritonavir http://purl.obolibrary.org/obo/CHEBI_145924
T4 1088-1097 Chemical denotes lopinavir http://purl.obolibrary.org/obo/CHEBI_31781
T5 1098-1107 Chemical denotes ritonavir http://purl.obolibrary.org/obo/CHEBI_45409
T6 1109-1116 Chemical denotes Kaletra http://purl.obolibrary.org/obo/CHEBI_145924
T7 2796-2798 Chemical denotes Ag http://purl.obolibrary.org/obo/CHEBI_30512|http://purl.obolibrary.org/obo/CHEBI_9141
T9 3815-3834 Chemical denotes lopinavir/ritonavir http://purl.obolibrary.org/obo/CHEBI_145924
T10 3815-3824 Chemical denotes lopinavir http://purl.obolibrary.org/obo/CHEBI_31781
T11 3825-3834 Chemical denotes ritonavir http://purl.obolibrary.org/obo/CHEBI_45409
T12 3836-3843 Chemical denotes Kaletra http://purl.obolibrary.org/obo/CHEBI_145924
T13 3885-3894 Chemical denotes Lopinavir http://purl.obolibrary.org/obo/CHEBI_31781
T14 3895-3904 Chemical denotes ritonavir http://purl.obolibrary.org/obo/CHEBI_45409
T15 3973-3982 Chemical denotes lopinavir http://purl.obolibrary.org/obo/CHEBI_31781
T16 3990-3999 Chemical denotes ritonavir http://purl.obolibrary.org/obo/CHEBI_45409
T17 4068-4087 Chemical denotes lopinavir/ritonavir http://purl.obolibrary.org/obo/CHEBI_145924
T18 4068-4077 Chemical denotes lopinavir http://purl.obolibrary.org/obo/CHEBI_31781
T19 4078-4087 Chemical denotes ritonavir http://purl.obolibrary.org/obo/CHEBI_45409
T20 4400-4419 Chemical denotes lopinavir/ritonavir http://purl.obolibrary.org/obo/CHEBI_145924
T21 4400-4409 Chemical denotes lopinavir http://purl.obolibrary.org/obo/CHEBI_31781
T22 4410-4419 Chemical denotes ritonavir http://purl.obolibrary.org/obo/CHEBI_45409
T23 4507-4526 Chemical denotes lopinavir/ritonavir http://purl.obolibrary.org/obo/CHEBI_145924
T24 4507-4516 Chemical denotes lopinavir http://purl.obolibrary.org/obo/CHEBI_31781
T25 4517-4526 Chemical denotes ritonavir http://purl.obolibrary.org/obo/CHEBI_45409
T26 5201-5220 Chemical denotes lopinavir/ritonavir http://purl.obolibrary.org/obo/CHEBI_145924
T27 5201-5210 Chemical denotes lopinavir http://purl.obolibrary.org/obo/CHEBI_31781
T28 5211-5220 Chemical denotes ritonavir http://purl.obolibrary.org/obo/CHEBI_45409
T29 5316-5335 Chemical denotes lopinavir/ritonavir http://purl.obolibrary.org/obo/CHEBI_145924
T30 5316-5325 Chemical denotes lopinavir http://purl.obolibrary.org/obo/CHEBI_31781
T31 5326-5335 Chemical denotes ritonavir http://purl.obolibrary.org/obo/CHEBI_45409
T32 5546-5565 Chemical denotes lopinavir/ritonavir http://purl.obolibrary.org/obo/CHEBI_145924
T33 5546-5555 Chemical denotes lopinavir http://purl.obolibrary.org/obo/CHEBI_31781
T34 5556-5565 Chemical denotes ritonavir http://purl.obolibrary.org/obo/CHEBI_45409
T35 5937-5939 Chemical denotes Co http://purl.obolibrary.org/obo/CHEBI_27638
T36 6180-6182 Chemical denotes HY http://purl.obolibrary.org/obo/CHEBI_74059
T37 6190-6192 Chemical denotes YM http://purl.obolibrary.org/obo/CHEBI_134468
T38 6232-6234 Chemical denotes HY http://purl.obolibrary.org/obo/CHEBI_74059
T39 6322-6324 Chemical denotes KW http://purl.obolibrary.org/obo/CHEBI_74569
T40 6414-6416 Chemical denotes KW http://purl.obolibrary.org/obo/CHEBI_74569
T41 6423-6425 Chemical denotes YM http://purl.obolibrary.org/obo/CHEBI_134468
T42 6570-6574 Chemical denotes beta http://purl.obolibrary.org/obo/CHEBI_10545
T43 7045-7047 Chemical denotes AP http://purl.obolibrary.org/obo/CHEBI_28971|http://purl.obolibrary.org/obo/CHEBI_73393|http://purl.obolibrary.org/obo/CHEBI_81686
T46 7382-7384 Chemical denotes HD http://purl.obolibrary.org/obo/CHEBI_73925
T47 7404-7406 Chemical denotes HD http://purl.obolibrary.org/obo/CHEBI_73925
T48 7426-7428 Chemical denotes HD http://purl.obolibrary.org/obo/CHEBI_73925
T49 7448-7450 Chemical denotes HD http://purl.obolibrary.org/obo/CHEBI_73925
T50 7471-7473 Chemical denotes HD http://purl.obolibrary.org/obo/CHEBI_73925
T51 7494-7496 Chemical denotes HD http://purl.obolibrary.org/obo/CHEBI_73925
T52 7518-7520 Chemical denotes HD http://purl.obolibrary.org/obo/CHEBI_73925
T53 7542-7544 Chemical denotes HD http://purl.obolibrary.org/obo/CHEBI_73925
T54 7882-7892 Chemical denotes Hemoglobin http://purl.obolibrary.org/obo/CHEBI_5656
T55 8006-8013 Chemical denotes Glucose http://purl.obolibrary.org/obo/CHEBI_17234|http://purl.obolibrary.org/obo/CHEBI_4167|http://purl.obolibrary.org/obo/CHEBI_42758
T58 8103-8113 Chemical denotes Creatinine http://purl.obolibrary.org/obo/CHEBI_16737
T59 8167-8176 Chemical denotes bilirubin http://purl.obolibrary.org/obo/CHEBI_16990
T60 8229-8232 Chemical denotes AST http://purl.obolibrary.org/obo/CHEBI_76649
T61 8311-8320 Chemical denotes Uric acid http://purl.obolibrary.org/obo/CHEBI_17775
T62 8316-8320 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527
T63 8583-8591 Chemical denotes Chloride http://purl.obolibrary.org/obo/CHEBI_17996
T64 8646-8653 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T65 8851-8854 Chemical denotes Pro http://purl.obolibrary.org/obo/CHEBI_50342
T66 8855-8865 Chemical denotes Calcitonin http://purl.obolibrary.org/obo/CHEBI_3306
T67 8900-8902 Chemical denotes PT http://purl.obolibrary.org/obo/CHEBI_141395
T68 8950-8952 Chemical denotes PT http://purl.obolibrary.org/obo/CHEBI_141395
T69 9102-9104 Chemical denotes HD http://purl.obolibrary.org/obo/CHEBI_73925
T70 9121-9124 Chemical denotes AST http://purl.obolibrary.org/obo/CHEBI_76649
T71 9127-9136 Chemical denotes aspartate http://purl.obolibrary.org/obo/CHEBI_132943|http://purl.obolibrary.org/obo/CHEBI_29995|http://purl.obolibrary.org/obo/CHEBI_72314
T74 9161-9168 Chemical denotes alanine http://purl.obolibrary.org/obo/CHEBI_16449
T75 9192-9200 Chemical denotes creatine http://purl.obolibrary.org/obo/CHEBI_16919|http://purl.obolibrary.org/obo/CHEBI_57947
T77 9243-9250 Chemical denotes lactate http://purl.obolibrary.org/obo/CHEBI_24996
T78 9321-9328 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T79 9330-9332 Chemical denotes PT http://purl.obolibrary.org/obo/CHEBI_141395

LitCovid-PD-GO-BP

Id Subject Object Predicate Lexical cue
T1 202-204 http://purl.obolibrary.org/obo/GO_0001171 denotes RT
T2 3389-3410 http://purl.obolibrary.org/obo/GO_0001171 denotes reverse transcription
T3 3397-3410 http://purl.obolibrary.org/obo/GO_0006351 denotes transcription
T4 3412-3414 http://purl.obolibrary.org/obo/GO_0001171 denotes RT
T5 6526-6528 http://purl.obolibrary.org/obo/GO_0001171 denotes RT
T6 6551-6553 http://purl.obolibrary.org/obo/GO_0001171 denotes RT
T7 6712-6716 http://purl.obolibrary.org/obo/GO_0003968 denotes RdRP
T8 7197-7201 http://purl.obolibrary.org/obo/GO_0003968 denotes RdRP
T9 9224-9235 http://purl.obolibrary.org/obo/GO_0016791 denotes phosphatase

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T1 0-208 Sentence denotes Case of the Index Patient Who Caused Tertiary Transmission of Coronavirus Disease 2019 in Korea: the Application of Lopinavir/Ritonavir for the Treatment of COVID-19 Pneumonia Monitored by Quantitative RT-PCR
T2 210-218 Sentence denotes Abstract
T3 219-320 Sentence denotes Since mid-December of 2019, coronavirus disease 2019 (COVID-19) has been spreading from Wuhan, China.
T4 321-409 Sentence denotes The confirmed COVID-19 patients in South Korea are those who came from or visited China.
T5 410-551 Sentence denotes As secondary transmissions have occurred and the speed of transmission is accelerating, there are rising concerns about community infections.
T6 552-627 Sentence denotes The 54-year old male is the third patient diagnosed with COVID-19 in Korea.
T7 628-844 Sentence denotes He is a worker for a clothing business and had mild respiratory symptoms and intermittent fever in the beginning of hospitalization, and pneumonia symptoms on chest computerized tomography scan on day 6 of admission.
T8 845-941 Sentence denotes This patient caused one case of secondary transmission and three cases of tertiary transmission.
T9 942-1066 Sentence denotes Hereby, we report the clinical findings of the index patient who was the first to cause tertiary transmission outside China.
T10 1067-1244 Sentence denotes Interestingly, after lopinavir/ritonavir (Kaletra, AbbVie) was administered, β-coronavirus viral loads significantly decreased and no or little coronavirus titers were observed.
T11 1246-1264 Sentence denotes Graphical Abstract
T12 1266-1416 Sentence denotes A 54-year-old Korean man living in Wuhan, China entered Korea on January 20, 2020 and felt the first symptoms of chills and muscle pain on January 22.
T13 1417-1581 Sentence denotes After contacting a public health center on January 25, he was isolated in a negative pressure room at Myongji Hospital and confirmed to have COVID-19 on January 26.
T14 1582-1789 Sentence denotes At that time the initial confirmation of COVID-19 was made by pan-coronavirus conventional polymerase chain reaction assay and sequencing of the polymerase chain reaction (PCR) amplicons using a throat swab.
T15 1790-1903 Sentence denotes The index patient transmitted the virus to his friend (patient A) at a restaurant on the 1st day of the symptoms.
T16 1904-2086 Sentence denotes And then patient A (confirmed on January 30, 2020) transmitted COVID-19 to his spouse and son (confirmed on January 31, 2020), and a church colleague (confirmed on February 6, 2020).
T17 2087-2165 Sentence denotes Those were the first cases of tertiary transmission of COVID-19 outside China.
T18 2166-2329 Sentence denotes The index patient was a clothing worker at the Wuhan Fashion Center, with a height of 193 cm and weight of 96 kg (body mass index, 25.7), and had no major illness.
T19 2330-2373 Sentence denotes He denied any smoking and drinking history.
T20 2374-2569 Sentence denotes On admission day, he had no respiratory symptoms and blood pressure of 152/93 mmHg, pulse rate of 73 beats per minute, respiratory rate of 20 breaths per minute, and a body temperature of 37.0°C.
T21 2570-2684 Sentence denotes On physical examination, no pharyngeal injection, clear lung sounds, and no haziness on chest X-ray were observed.
T22 2685-2874 Sentence denotes Tests for Leptospira, Hantan virus, Tsutsugamushi, Malaria, M tuberculosis, human immunodeficiency virus (HIV) Ag/Ab, and venereal disease research laboratory (VDRL) test were all negative.
T23 2875-3054 Sentence denotes He developed fever and dry cough on days 5 and 7 of illness, respectively, but he had no serious respiratory symptoms such as shortness of breath, productive sputum or chest pain.
T24 3055-3206 Sentence denotes Small consolidation in right upper lobe and ground-glass opacities in both lower lobes were observed on high-resolution computed tomography scan (Figs.
T25 3207-3225 Sentence denotes 1 and 2, Table 1).
T26 3226-3342 Sentence denotes The initial viral load could not be measured because real-time PCR was not available when the patient was diagnosed.
T27 3343-3430 Sentence denotes So we measured viral loads using quantitative reverse transcription (RT)-PCR since Jan.
T28 3431-3440 Sentence denotes 31, 2020.
T29 3441-3584 Sentence denotes Viral RNA was extracted from the sputum using QIAamp viral RNA mini kit (Qiagen, Hilden, Germany) according to the manufacturer's instructions.
T30 3585-3784 Sentence denotes All quantitative real-time PCR amplifications were performed using Quantstudio 1 (Applied Biosystems, Foster City, CA, USA) and PowerCheck™ SARS-CoV-2 Real-Time PCR kit (KogeneBiotech, Seoul, Korea).
T31 3785-4031 Sentence denotes There were some reports about lopinavir/ritonavir (Kaletra, AbbVie) for the treatment of COVID-19.1 Lopinavir/ritonavir was started from the hospital day 8 (day 10 of illness); 2 tablets (lopinavir 200 mg/ritonavir 50 mg) were given per oral bid.
T32 4032-4260 Sentence denotes Interestingly, from the next day of lopinavir/ritonavir administration, β-coronavirus viral load started to decrease and no detectable or little coronavirus titers have been observed since then (Fig. 2 and Supplementary Fig. 1).
T33 4261-4429 Sentence denotes It is possible that the decreased load of SARS-CoV-2 resulted from the natural course of the healing process rather than administration of lopinavir/ritonavir, or both.
T34 4430-4554 Sentence denotes Therefore, more data need to be collected to figure out the direct effect of lopinavir/ritonavir on treatment with COVID-19.
T35 4555-4674 Sentence denotes The patient also complained of psychiatric symptoms such as depression, insomnia and suicidal thoughts after isolation.
T36 4675-4786 Sentence denotes The patient experienced stress regarding people's reactions from the media reports about the COVID-19 patients.
T37 4787-4965 Sentence denotes In addition, despite mild symptoms of COVID-19 in his case, isolation in the negative pressure room during treatment might be one of the reasons provoking psychological symptoms.
T38 4966-5052 Sentence denotes Counseling and related medications were provided under the consult of a psychiatrist.2
T39 5053-5312 Sentence denotes This case shows that the COVID-19 may induce relatively mild symptoms and a patient can recover when early diagnosis of pneumonia was made.345 When lopinavir/ritonavir was used, we found reduced viral loads and improved clinical symptoms during the treatment.
T40 5313-5485 Sentence denotes So lopinavir/ritonavir can be recommended to relatively high-risk groups of COVID-19 pneumonia (elderly patients or patients with underlying diseases) from the early stage.
T41 5486-5607 Sentence denotes But we need more evidence to prove the clinical efficacy of lopinavir/ritonavir based on well controlled clinical trials.
T42 5608-5664 Sentence denotes The images are published under agreement of the patient.
T43 5666-5682 Sentence denotes Ethics statement
T44 5683-5757 Sentence denotes Myongji Hospital Institutional Review Board (IRB) approved this study (No.
T45 5758-5829 Sentence denotes IRB 2020-01-027) and written informed consent was given by the patient.
T46 5831-5846 Sentence denotes ACKNOWLEDGMENTS
T47 5847-6019 Sentence denotes We thank to Myongji Hospital staffs for their efforts to cope with COVID-19 and CancerROP Co., Ltd., for providing a test diagnostic kit to measure SARS-CoV-2 virus titers.
T48 6020-6031 Sentence denotes Disclosure:
T49 6032-6096 Sentence denotes The authors have no potential conflicts of interest to disclose.
T50 6097-6118 Sentence denotes Author Contributions:
T51 6119-6137 Sentence denotes Conceptualization:
T52 6138-6144 Sentence denotes Lim J.
T53 6145-6159 Sentence denotes Data curation:
T54 6160-6193 Sentence denotes Kim MJ, Lee B, Shin HY, Seong YM.
T55 6194-6210 Sentence denotes Formal analysis:
T56 6211-6242 Sentence denotes Jeon S, Kim MJ, Shin HY, Lee B.
T57 6243-6255 Sentence denotes Methodology:
T58 6256-6262 Sentence denotes Lee B.
T59 6263-6286 Sentence denotes Project administration:
T60 6287-6295 Sentence denotes Park SJ.
T61 6296-6308 Sentence denotes Supervision:
T62 6309-6325 Sentence denotes Lee WJ, Choe KW.
T63 6326-6337 Sentence denotes Validation:
T64 6338-6345 Sentence denotes Lee WJ.
T65 6346-6371 Sentence denotes Writing - original draft:
T66 6372-6380 Sentence denotes Park SJ.
T67 6381-6408 Sentence denotes Writing - review & editing:
T68 6409-6426 Sentence denotes Choe KW, Kang YM.
T69 6428-6450 Sentence denotes SUPPLEMENTARY MATERIAL
T70 6451-6471 Sentence denotes Supplementary Fig. 1
T71 6472-6640 Sentence denotes Time course quantification of SARS-CoV-2 by real-time RT-PCR. (A) Quantitative RT-PCR analysis of beta CoV. (B) SARS-CoV-2 in sputum samples collected from the patient.
T72 6641-6749 Sentence denotes The results showed decline of virus titers with time and no detectable RdRP titer at illness days 12 and 13.
T73 6751-6794 Sentence denotes Fig. 1 Radiologic findings of the patient.
T74 6795-7044 Sentence denotes (A) Chest X-ray of illness day 3, hospital day 1. (B) Chest X-ray of illness day 9, hospital day 7. (C) Chest X-ray of illness day 15, hospital day 13. (D) HRCT scan of illness day 9, hospital day 7. (E) HRCT scan of illness day 15, hospital day 13.
T75 7045-7130 Sentence denotes AP(P) = Anteroposterior (Portable X-ray), HRCT = high-resolution computed tomography.
T76 7131-7196 Sentence denotes Fig. 2 Clinical course, treatment and viral load of the patient.
T77 7197-7305 Sentence denotes RdRP = RNA-dependent RNA polymerase, Posi = positive, Nega = negative, UD = undeteced, Ct = cycle threshold.
T78 7306-7355 Sentence denotes Table 1 Serial laboratory results of the patient
T79 7356-7548 Sentence denotes Variables Illness day 3 (HD 1) Illness day 6 (HD 4) Illness day 7 (HD 5) Illness day 8 (HD 6) Illness day 10 (HD 8) Illness day 12 (HD 10) Illness day 14 (HD 12) Illness day 16 (HD 14)
T80 7549-7636 Sentence denotes White blood cell count, ×103/µL 7,200 5,800 5,200 6,700 6,000 6,700 8,600 9,100
T81 7637-7706 Sentence denotes Segment neutrophil, % 59.0 64.2 50.3 69.3 58.8 55.5 63.1 63.0
T82 7707-7768 Sentence denotes Lymphocyte, % 28.5 24.0 36.5 19.1 30.9 29.4 24.4 24.9
T83 7769-7827 Sentence denotes Monocyte, % 11.5 11.0 11.6 10.7 9.2 13.5 10.9 10.2
T84 7828-7881 Sentence denotes Eosinophil, % 0.6 0.3 1.0 0.6 0.8 1.3 1.3 1.5
T85 7882-7946 Sentence denotes Hemoglobin, g/dL 16.3 15.4 16.1 15.3 15.2 14.9 14.2 13.9
T86 7947-8005 Sentence denotes Platelets, ×103/µL 301 176 212 225 229 287 358 507
T87 8006-8049 Sentence denotes Glucose, mg/dL 97 114 - - - - - 103
T88 8050-8102 Sentence denotes BUN, mg/dL 13.0 7.0 10.1 9.1 9.6 7.9 6.3 8.1
T89 8103-8160 Sentence denotes Creatinine, mg/dL 1.0 0.8 1.2 0.8 1.0 0.8 0.8 0.9
T90 8161-8228 Sentence denotes Total bilirubin, mg/dL 0.50 0.47 - 0.35 0.61 0.74 0.85 1.09
T91 8229-8269 Sentence denotes AST, U/L 27 31 - 22 127 54 19 17
T92 8270-8310 Sentence denotes ALT, U/L 29 37 - 29 106 83 45 30
T93 8311-8355 Sentence denotes Uric acid, mg/dL 8.6 7.0 - - - - - -
T94 8356-8391 Sentence denotes CK, U/L - 43 - - - 31 30 28
T95 8392-8430 Sentence denotes ALP, U/L - 62 - - - 140 113 95
T96 8431-8469 Sentence denotes LDH, U/L - 332 - - - - 351 329
T97 8470-8524 Sentence denotes Sodium, mmol/L 138 135 138 137 138 138 138 139
T98 8525-8582 Sentence denotes Potassium, mmol/L 4.3 4.1 4.8 4.2 4.2 4.3 4.2 4.3
T99 8583-8639 Sentence denotes Chloride, mmol/L 104 104 105 104 102 103 103 103
T100 8640-8699 Sentence denotes Total protein, g/dL 7.4 6.4 6.8 6.3 6.3 6.4 6.3 6.5
T101 8700-8753 Sentence denotes Albumin, g/dL 4.5 3.9 4.1 3.8 3.8 3.8 3.7 3.7
T102 8754-8792 Sentence denotes ESR, mm/hr 26 27 - - 66 - - 82
T103 8793-8850 Sentence denotes CRP, mg/dL 0.43 1.23 - 4.51 10.94 9.11 11.20 3.60
T104 8851-8899 Sentence denotes Pro-Calcitonin, ng/mL - 0.06 - - - - - -
T105 8900-8949 Sentence denotes PT, sec 12.5 12.9 - - 13.2 13.1 13.6 13.6
T106 8950-8998 Sentence denotes PT INR 0.96 1.00 - - 1.03 1.02 1.07 1.07
T107 8999-9050 Sentence denotes aPTT, sec 40.4 38.5 - - 38.8 38.0 40.1 40.7
T108 9051-9101 Sentence denotes D-dimer, µg/mL (FEU) - 0.28 - - - - 1.22 -
T109 9102-9471 Sentence denotes HD = hospital day, AST = aspartate aminotransferase, ALT = alanine aminotransferase, CK = creatine kinase, ALP = alkaline phosphatase, LDH = lactate dehydrogenase, ESR = erythrocyte sedimentation rate, CRP = C-reactive protein, PT = prothrombin time, INR = international normalized ratio, aPTT = activated partial thromboplastin time, FEU = fibrinogen equivalent units.

LitCovid-PD-HP

Id Subject Object Predicate Lexical cue hp_id
T1 166-175 Phenotype denotes Pneumonia http://purl.obolibrary.org/obo/HP_0002090
T2 705-723 Phenotype denotes intermittent fever http://purl.obolibrary.org/obo/HP_0001954
T3 765-774 Phenotype denotes pneumonia http://purl.obolibrary.org/obo/HP_0002090
T4 1379-1385 Phenotype denotes chills http://purl.obolibrary.org/obo/HP_0025143
T5 1390-1401 Phenotype denotes muscle pain http://purl.obolibrary.org/obo/HP_0003326
T6 2767-2783 Phenotype denotes immunodeficiency http://purl.obolibrary.org/obo/HP_0002721
T7 2888-2893 Phenotype denotes fever http://purl.obolibrary.org/obo/HP_0001945
T8 2898-2907 Phenotype denotes dry cough http://purl.obolibrary.org/obo/HP_0031246
T9 3001-3020 Phenotype denotes shortness of breath http://purl.obolibrary.org/obo/HP_0002098
T10 3043-3053 Phenotype denotes chest pain http://purl.obolibrary.org/obo/HP_0100749
T11 4615-4625 Phenotype denotes depression http://purl.obolibrary.org/obo/HP_0000716
T12 4627-4635 Phenotype denotes insomnia http://purl.obolibrary.org/obo/HP_0100785
T13 5173-5182 Phenotype denotes pneumonia http://purl.obolibrary.org/obo/HP_0002090
T14 5398-5407 Phenotype denotes pneumonia http://purl.obolibrary.org/obo/HP_0002090