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LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
3 18-29 Species denotes Coronavirus Tax:11118
4 46-53 Species denotes Patient Tax:9606
5 68-76 Disease denotes COVID-19 MESH:C000657245
15 119-127 Species denotes patients Tax:9606
16 238-249 Species denotes coronavirus Tax:11118
17 251-261 Species denotes SARS-CoV-2 Tax:2697049
18 365-373 Species denotes patients Tax:9606
19 488-496 Species denotes patients Tax:9606
20 145-154 Disease denotes pneumonia MESH:D011014
21 272-302 Disease denotes 2019 novel coronavirus disease MESH:C000657245
22 313-321 Disease denotes COVID-19 MESH:C000657245
23 379-387 Disease denotes COVID-19 MESH:C000657245
26 573-581 Species denotes patients Tax:9606
27 587-595 Disease denotes COVID-19 MESH:C000657245
35 911-921 Species denotes SARS-CoV-2 Tax:2697049
36 946-954 Species denotes patients Tax:9606
37 1018-1028 Species denotes SARS-CoV-2 Tax:2697049
38 1034-1042 Species denotes SARS-CoV Tax:694009
39 1048-1056 Species denotes MERS-CoV Tax:1335626
40 1090-1101 Species denotes Coronavirus Tax:11118
41 1161-1175 Disease denotes virus-infected MESH:D001102
48 1200-1210 Species denotes SARS-CoV-2 Tax:2697049
49 1238-1246 Species denotes patients Tax:9606
50 1340-1347 Species denotes BetaCoV Tax:694002
51 1264-1273 Disease denotes pneumonia MESH:D011014
52 1291-1299 Disease denotes coughing MESH:D003371
53 1304-1309 Disease denotes fever MESH:D005334
72 1649-1654 Gene denotes spike Gene:43740568
73 1381-1392 Species denotes Coronavirus Tax:11118
74 1485-1496 Species denotes Coronavirus Tax:11118
75 1518-1531 Species denotes Coronaviridae Tax:11118
76 1582-1595 Species denotes coronaviruses Tax:11118
77 1812-1818 Species denotes humans Tax:9606
78 2019-2032 Species denotes coronaviruses Tax:11118
79 2067-2073 Species denotes humans Tax:9606
80 2088-2104 Species denotes coronavirus 229E Tax:11137
81 2176-2221 Species denotes severe acute respiratory syndrome-coronavirus Tax:694009
82 2223-2231 Species denotes SARS-CoV Tax:694009
83 2246-2301 Species denotes Middle East respiratory syndrome-coronavirus (MERS-CoV) Tax:1335626
84 2112-2116 Species denotes NL63 Tax:277944
85 1846-1854 Disease denotes Infected MESH:D007239
86 2054-2063 Disease denotes infection MESH:D007239
87 2325-2345 Disease denotes respiratory diseases MESH:D012140
88 2354-2363 Disease denotes pneumonia MESH:D011014
89 2368-2373 Disease denotes death MESH:D003643
95 2469-2484 Species denotes new coronavirus Tax:2697049
96 2730-2738 Species denotes patients Tax:9606
97 2862-2872 Species denotes SARS-CoV-2 Tax:2697049
98 2426-2435 Disease denotes pneumonia MESH:D011014
99 2598-2607 Disease denotes pneumonia MESH:D011014
106 2988-2998 Species denotes SARS-CoV-2 Tax:2697049
107 3068-3076 Species denotes patients Tax:9606
108 3117-3127 Species denotes SARS-CoV-2 Tax:2697049
109 3138-3145 Species denotes BetaCoV Tax:694002
110 3026-3056 Disease denotes 2019 novel coronavirus disease MESH:C000657245
111 3058-3066 Disease denotes COVID-19 MESH:C000657245
115 3319-3327 Species denotes patients Tax:9606
116 3338-3348 Species denotes SARS-CoV-2 Tax:2697049
117 3690-3698 Disease denotes COVID-19 MESH:C000657245
119 3869-3877 Species denotes SARS-CoV Tax:694009
131 5031-5039 Species denotes patients Tax:9606
132 5589-5599 Species denotes SARS-CoV-2 Tax:2697049
133 5152-5160 Chemical denotes Nystadin
134 5162-5172 Chemical denotes penicillin MESH:D010406
135 5173-5185 Chemical denotes streptomycin MESH:D013307
136 5335-5338 Chemical denotes CO2 MESH:D002245
137 5345-5379 Chemical denotes Dulbecco’s modified Eagle’s medium
138 5381-5385 Chemical denotes DMEM
139 5431-5441 Chemical denotes penicillin MESH:D010406
140 5442-5454 Chemical denotes streptomycin MESH:D013307
141 5022-5030 Disease denotes COVID-19 MESH:C000657245
143 6118-6128 Species denotes SARS-CoV-2 Tax:2697049
146 6427-6432 Species denotes human Tax:9606
147 6444-6455 Species denotes coronavirus Tax:11118
159 6864-6880 Chemical denotes paraformaldehyde MESH:C003043
160 6890-6904 Chemical denotes glutaraldehyde MESH:D005976
161 6914-6923 Chemical denotes phosphate MESH:D010710
162 7169-7185 Chemical denotes osmium tetroxide MESH:D009993
163 7224-7229 Chemical denotes water MESH:D014867
164 7335-7342 Chemical denotes ethanol MESH:D000431
165 7437-7452 Chemical denotes propylene oxide MESH:C009068
166 7657-7663 Chemical denotes nickel MESH:D009532
167 7697-7711 Chemical denotes uranyl acetate MESH:C005460
168 6978-6986 Disease denotes infected MESH:D007239
169 7397-7408 Disease denotes dehydration MESH:D003681
171 8942-8953 Species denotes Coronavirus Tax:11118
183 9534-9539 Species denotes human Tax:9606
184 9551-9564 Species denotes coronaviruses Tax:11118
185 9699-9709 Species denotes SARS-CoV-2 Tax:2697049
186 9731-9734 Species denotes CoV Tax:11118
187 9740-9745 Species denotes human Tax:9606
188 9746-9754 Species denotes SARS-CoV Tax:694009
189 9865-9875 Species denotes SARS-CoV-2 Tax:2697049
190 9941-9951 Species denotes SARS-CoV-2 Tax:2697049
191 9983-9990 Species denotes BetaCoV Tax:694002
192 9582-9617 Disease denotes IVDC-HB-01/2019(GISAID accession ID MESH:C000657245
193 10074-10093 Disease denotes GISAID accession ID MESH:C537985
209 10274-10284 Species denotes SARS-CoV-2 Tax:2697049
210 10312-10319 Species denotes patient Tax:9606
211 10410-10417 Species denotes patient Tax:9606
212 10521-10531 Species denotes SARS-CoV-2 Tax:2697049
213 10646-10656 Species denotes SARS-CoV-2 Tax:2697049
214 10698-10703 Species denotes human Tax:9606
215 10777-10784 Species denotes patient Tax:9606
216 10812-10817 Species denotes human Tax:9606
217 10973-10983 Species denotes SARS-CoV-2 Tax:2697049
218 10163-10171 Disease denotes COVID-19 MESH:C000657245
219 10399-10404 Disease denotes fever MESH:D005334
220 10447-10455 Disease denotes coughing MESH:D003371
221 10790-10799 Disease denotes pneumonia MESH:D011014
222 10576-10583 CellLine denotes Caco-II CVCL:0025
223 11004-11011 CellLine denotes Caco-II CVCL:0025
238 11189-11206 Species denotes novel coronavirus Tax:2697049
239 11255-11265 Species denotes SARS-CoV-2 Tax:2697049
240 11278-11283 Species denotes human Tax:9606
241 11284-11297 Species denotes coronaviruses Tax:11118
242 11303-11307 Species denotes CoVs Tax:11118
243 11316-11326 Species denotes SARS-CoV-2 Tax:2697049
244 11503-11518 Species denotes new coronavirus Tax:2697049
245 11520-11530 Species denotes SARS-CoV-2 Tax:2697049
246 11549-11564 Species denotes betacoronavirus Tax:694002
247 11763-11766 Species denotes CoV Tax:11118
248 11785-11793 Species denotes SARS-CoV Tax:694009
249 11809-11817 Species denotes MERS-CoV Tax:1335626
250 11926-11933 Species denotes BetaCoV Tax:694002
251 11691-11726 Disease denotes IVDC-HB-01/2019(GISAID accession ID MESH:C000657245
264 12124-12134 Species denotes SARS-CoV-2 Tax:2697049
265 12204-12207 Species denotes CoV Tax:11118
266 12240-12250 Species denotes SARS-CoV-2 Tax:2697049
267 12269-12272 Species denotes CoV Tax:11118
268 12292-12297 Species denotes human Tax:9606
269 12298-12311 Species denotes coronaviruses Tax:11118
270 12331-12344 Species denotes coronaviruses Tax:11118
271 12396-12406 Species denotes SARS-CoV-2 Tax:2697049
272 12493-12501 Species denotes patients Tax:9606
273 12173-12182 Disease denotes pneumonia MESH:D011014
274 12484-12492 Disease denotes COVID-19 MESH:C000657245
275 12531-12539 Disease denotes COVID-19 MESH:C000657245
322 13064-13074 Species denotes SARS-CoV-2 Tax:2697049
323 13120-13130 Species denotes SARS-CoV-2 Tax:2697049
329 13221-13231 Species denotes SARS-CoV-2 Tax:2697049
330 13316-13326 Species denotes SARS-CoV-2 Tax:2697049
331 13207-13215 Disease denotes infected MESH:D007239
332 13302-13310 Disease denotes infected MESH:D007239
333 13367-13376 Disease denotes infection MESH:D007239
339 13526-13536 Species denotes SARS-CoV-2 Tax:2697049
340 13714-13724 Species denotes SARS-CoV-2 Tax:2697049
341 13735-13748 Species denotes coronaviruses Tax:11118
342 13771-13781 Species denotes SARS-CoV-2 Tax:2697049
343 13786-13793 Species denotes BetaCoV Tax:694002

LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T1 517-540 Body_part denotes lower respiratory tract http://purl.org/sig/ont/fma/fma45662
T2 617-622 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T3 650-656 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T4 763-768 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T5 812-818 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T6 852-858 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T7 1181-1186 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T8 1399-1402 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T9 1454-1457 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T10 1655-1662 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T11 2967-2973 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T12 3090-3094 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T13 3215-3218 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T14 3272-3278 Body_part denotes sputum http://purl.org/sig/ont/fma/fma312401
T15 3394-3397 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T16 3454-3457 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T17 3850-3853 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T18 3919-3922 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T19 3933-3936 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T20 3948-3952 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402
T21 4165-4169 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402
T22 4388-4391 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T23 5280-5285 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T24 5303-5308 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T25 5421-5426 Body_part denotes serum http://purl.org/sig/ont/fma/fma63083
T26 5531-5535 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402
T27 5796-5802 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T28 5858-5861 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T29 5890-5894 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T30 6129-6132 Body_part denotes DNA http://purl.org/sig/ont/fma/fma74412
T31 6303-6309 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T32 6335-6339 Body_part denotes Gene http://purl.org/sig/ont/fma/fma74402
T33 6824-6829 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T34 6972-6977 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T35 7897-7902 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T36 7933-7938 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T37 8129-8134 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T38 8191-8196 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T39 8287-8290 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T40 8310-8314 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T41 8724-8728 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T42 8852-8861 Body_part denotes cytoplasm http://purl.org/sig/ont/fma/fma66835
T43 8888-8893 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T44 9089-9099 Body_part denotes organelles http://purl.org/sig/ont/fma/fma63832
T45 9141-9147 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T46 9192-9197 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T47 9249-9252 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T48 9293-9297 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T49 9318-9321 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T50 9365-9369 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402
T51 9489-9493 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402
T52 9508-9512 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402
T53 10030-10034 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402
T54 10461-10467 Body_part denotes sputum http://purl.org/sig/ont/fma/fma312401
T55 10557-10562 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T56 10584-10589 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T57 10612-10617 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T58 10711-10727 Body_part denotes epithelial cells http://purl.org/sig/ont/fma/fma66768
T59 10722-10727 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T60 10825-10841 Body_part denotes epithelial cells http://purl.org/sig/ont/fma/fma66768
T61 10836-10841 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T62 10904-10914 Body_part denotes epithelium http://purl.org/sig/ont/fma/fma9639
T63 10995-11000 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T64 11012-11017 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T65 11090-11094 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T66 12552-12556 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402
T67 13083-13088 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T68 13110-13115 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T69 13142-13147 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T70 13201-13206 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T71 13296-13301 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T72 13328-13333 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T73 13551-13557 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T74 13558-13568 Body_part denotes nucleotide http://purl.org/sig/ont/fma/fma82740
T75 13697-13701 Body_part denotes Gene http://purl.org/sig/ont/fma/fma74402
T76 13754-13758 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402

LitCovid-PD-UBERON

Id Subject Object Predicate Lexical cue uberon_id
T1 517-540 Body_part denotes lower respiratory tract http://purl.obolibrary.org/obo/UBERON_0001558
T2 523-540 Body_part denotes respiratory tract http://purl.obolibrary.org/obo/UBERON_0000065
T3 1987-1993 Body_part denotes organs http://purl.obolibrary.org/obo/UBERON_0000062
T4 3272-3278 Body_part denotes sputum http://purl.obolibrary.org/obo/UBERON_0007311
T5 5421-5426 Body_part denotes serum http://purl.obolibrary.org/obo/UBERON_0001977
T6 10461-10467 Body_part denotes sputum http://purl.obolibrary.org/obo/UBERON_0007311
T7 10904-10914 Body_part denotes epithelium http://purl.obolibrary.org/obo/UBERON_0000483

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T1 68-76 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T2 145-154 Disease denotes pneumonia http://purl.obolibrary.org/obo/MONDO_0005249
T3 251-259 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T4 313-321 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T5 379-387 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T6 587-595 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T7 911-919 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T8 1018-1026 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T9 1034-1042 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T10 1200-1208 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T11 1264-1273 Disease denotes pneumonia http://purl.obolibrary.org/obo/MONDO_0005249
T12 2054-2063 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T13 2176-2209 Disease denotes severe acute respiratory syndrome http://purl.obolibrary.org/obo/MONDO_0005091
T14 2223-2231 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T15 2325-2345 Disease denotes respiratory diseases http://purl.obolibrary.org/obo/MONDO_0005087
T16 2354-2363 Disease denotes pneumonia http://purl.obolibrary.org/obo/MONDO_0005249
T17 2426-2435 Disease denotes pneumonia http://purl.obolibrary.org/obo/MONDO_0005249
T18 2598-2607 Disease denotes pneumonia http://purl.obolibrary.org/obo/MONDO_0005249
T19 2862-2870 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T20 2988-2996 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T21 3058-3066 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T22 3117-3125 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T23 3338-3346 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T24 3690-3698 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T25 3869-3877 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T26 5022-5030 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T27 5589-5597 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T28 6118-6126 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T29 6371-6374 Disease denotes CLC http://purl.obolibrary.org/obo/MONDO_0004315
T30 6513-6522 Disease denotes Influenza http://purl.obolibrary.org/obo/MONDO_0005812
T31 9699-9707 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T32 9721-9725 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T33 9746-9754 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T34 9865-9873 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T35 9941-9949 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T36 10163-10171 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T37 10274-10282 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T38 10521-10529 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T39 10646-10654 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T40 10790-10799 Disease denotes pneumonia http://purl.obolibrary.org/obo/MONDO_0005249
T41 10973-10981 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T42 11255-11263 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T43 11316-11324 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T44 11520-11528 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T45 11785-11793 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T46 12124-12132 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T47 12173-12182 Disease denotes pneumonia http://purl.obolibrary.org/obo/MONDO_0005249
T48 12240-12248 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T49 12396-12404 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T50 12484-12492 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T51 12531-12539 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T52 13064-13072 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T53 13120-13128 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T54 13221-13229 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T55 13316-13324 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T56 13367-13376 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T57 13526-13534 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T58 13714-13722 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T59 13771-13779 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T1 44-45 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T2 87-97 http://purl.obolibrary.org/obo/BFO_0000030 denotes Objectives
T3 342-354 http://purl.obolibrary.org/obo/OBI_0000245 denotes Organization
T4 517-540 http://purl.obolibrary.org/obo/UBERON_0001558 denotes lower respiratory tract
T5 617-622 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T6 638-643 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T7 718-723 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T8 738-743 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T9 758-762 http://purl.obolibrary.org/obo/CLO_0009524 denotes Vero
T10 758-762 http://purl.obolibrary.org/obo/CLO_0050515 denotes Vero
T11 763-768 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T12 846-851 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T13 1161-1166 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T14 1176-1180 http://purl.obolibrary.org/obo/CLO_0009524 denotes Vero
T15 1176-1180 http://purl.obolibrary.org/obo/CLO_0050515 denotes Vero
T16 1181-1186 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T17 1324-1329 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T18 1403-1408 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T19 1475-1477 http://purl.obolibrary.org/obo/CLO_0050509 denotes 27
T20 1481-1483 http://purl.obolibrary.org/obo/CLO_0007074 denotes kb
T21 1481-1483 http://purl.obolibrary.org/obo/CLO_0051988 denotes kb
T22 1672-1673 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T23 1755-1760 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T24 1780-1781 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T25 1812-1818 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes humans
T26 1979-1993 http://purl.obolibrary.org/obo/UBERON_0003133 denotes genital organs
T27 2067-2073 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes humans
T28 2467-2468 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T29 2571-2572 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T30 2889-2890 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T31 2934-2936 http://purl.obolibrary.org/obo/CLO_0053733 denotes 11
T32 3090-3094 http://purl.obolibrary.org/obo/GO_0005623 denotes cell
T33 3439-3440 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T34 3569-3570 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T35 3799-3800 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T36 3948-3952 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene
T37 4165-4169 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene
T38 4338-4339 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T39 4880-4890 http://purl.obolibrary.org/obo/OBI_0000968 denotes instrument
T40 4923-4928 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes Virus
T41 4943-4948 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T42 5186-5189 http://purl.obolibrary.org/obo/CLO_0053733 denotes 1:1
T43 5200-5204 http://purl.obolibrary.org/obo/CLO_0001757 denotes at 1
T44 5241-5244 http://purl.obolibrary.org/obo/CLO_0001387 denotes 4°C
T45 5275-5279 http://purl.obolibrary.org/obo/CLO_0009524 denotes Vero
T46 5275-5279 http://purl.obolibrary.org/obo/CLO_0050515 denotes Vero
T47 5280-5285 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T48 5298-5302 http://purl.obolibrary.org/obo/CLO_0009524 denotes Vero
T49 5298-5302 http://purl.obolibrary.org/obo/CLO_0050515 denotes Vero
T50 5303-5308 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T51 5329-5333 http://purl.obolibrary.org/obo/CLO_0002131 denotes C, 5
T52 5456-5461 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes Virus
T53 5531-5535 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene
T54 5617-5618 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T55 5881-5894 http://purl.obolibrary.org/obo/CL_0000010 denotes cultured cell
T56 5915-5920 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T57 5937-5938 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T58 6029-6034 http://purl.obolibrary.org/obo/OGG_0000000002 denotes genes
T59 6289-6290 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T60 6335-6339 http://purl.obolibrary.org/obo/OGG_0000000002 denotes Gene
T61 6371-6374 http://purl.obolibrary.org/obo/CLO_0002494 denotes CLC
T62 6427-6432 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T63 6437-6443 http://purl.obolibrary.org/obo/NCBITaxon_33208 denotes animal
T64 6824-6829 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T65 6972-6977 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T66 6992-6997 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T67 7231-7233 http://purl.obolibrary.org/obo/CLO_0037161 denotes en
T68 7538-7540 http://purl.obolibrary.org/obo/CLO_0001382 denotes 48
T69 7646-7647 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T70 7745-7746 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T71 7871-7876 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes Virus
T72 7892-7896 http://purl.obolibrary.org/obo/CLO_0009524 denotes Vero
T73 7892-7896 http://purl.obolibrary.org/obo/CLO_0050515 denotes Vero
T74 7897-7902 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T75 7928-7932 http://purl.obolibrary.org/obo/CLO_0009524 denotes Vero
T76 7928-7932 http://purl.obolibrary.org/obo/CLO_0050515 denotes Vero
T77 7933-7938 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T78 8129-8134 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T79 8191-8196 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T80 8227-8232 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes Virus
T81 8310-8314 http://purl.obolibrary.org/obo/GO_0005623 denotes cell
T82 8548-8553 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T83 8724-8728 http://purl.obolibrary.org/obo/GO_0005623 denotes cell
T84 8788-8793 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T85 8839-8844 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T86 8888-8893 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T87 8988-8993 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes Virus
T88 9037-9042 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T89 9059-9060 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T90 9075-9099 http://purl.obolibrary.org/obo/GO_0043229 denotes intracellular organelles
T91 9192-9197 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T92 9276-9281 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T93 9293-9297 http://purl.obolibrary.org/obo/GO_0005623 denotes cell
T94 9365-9369 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene
T95 9489-9493 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene
T96 9508-9512 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene
T97 9534-9539 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T98 9544-9550 http://purl.obolibrary.org/obo/NCBITaxon_33208 denotes animal
T99 9587-9589 http://purl.obolibrary.org/obo/CLO_0003622 denotes HB
T100 9634-9637 http://purl.obolibrary.org/obo/CLO_0001053 denotes 121
T101 9710-9715 http://purl.obolibrary.org/obo/OGG_0000000002 denotes genes
T102 9740-9745 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T103 9967-9972 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T104 10030-10034 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene
T105 10233-10234 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T106 10303-10304 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T107 10557-10562 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T108 10564-10568 http://purl.obolibrary.org/obo/CLO_0009524 denotes Vero
T109 10564-10568 http://purl.obolibrary.org/obo/CLO_0050515 denotes Vero
T110 10584-10589 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T111 10607-10611 http://purl.obolibrary.org/obo/CLO_0009524 denotes Vero
T112 10607-10611 http://purl.obolibrary.org/obo/CLO_0050515 denotes Vero
T113 10612-10617 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T114 10698-10703 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T115 10704-10710 http://purl.obolibrary.org/obo/UBERON_0001005 denotes airway
T116 10711-10721 http://purl.obolibrary.org/obo/CL_0000066 denotes epithelial
T117 10722-10727 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T118 10775-10776 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T119 10812-10817 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T120 10818-10824 http://purl.obolibrary.org/obo/UBERON_0001005 denotes airway
T121 10825-10835 http://purl.obolibrary.org/obo/CL_0000066 denotes epithelial
T122 10836-10841 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T123 10904-10914 http://purl.obolibrary.org/obo/UBERON_0000483 denotes epithelium
T124 10990-10994 http://purl.obolibrary.org/obo/CLO_0009524 denotes Vero
T125 10990-10994 http://purl.obolibrary.org/obo/CLO_0050515 denotes Vero
T126 10995-11000 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T127 11012-11017 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T128 11090-11100 http://purl.obolibrary.org/obo/CLO_0000031 denotes cell lines
T129 11114-11119 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T130 11278-11283 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T131 11405-11406 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T132 11696-11698 http://purl.obolibrary.org/obo/CLO_0003622 denotes HB
T133 11759-11762 http://purl.obolibrary.org/obo/NCBITaxon_9397 denotes bat
T134 11768-11771 http://purl.obolibrary.org/obo/NCBITaxon_9397 denotes bat
T135 12031-12034 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T136 12200-12203 http://purl.obolibrary.org/obo/NCBITaxon_9596 denotes pan
T137 12265-12268 http://purl.obolibrary.org/obo/NCBITaxon_9596 denotes Pan
T138 12292-12297 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T139 12316-12322 http://purl.obolibrary.org/obo/NCBITaxon_33208 denotes animal
T140 12417-12418 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T141 12443-12446 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T142 12552-12556 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene
T143 12659-12664 http://purl.obolibrary.org/obo/UBERON_0000473 denotes tests
T144 12686-12691 http://purl.obolibrary.org/obo/UBERON_0000473 denotes tests
T145 12707-12712 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T146 12890-12892 http://purl.obolibrary.org/obo/CLO_0007860 denotes Mr
T147 12915-12918 http://purl.obolibrary.org/obo/CL_0000990 denotes CDC
T148 13078-13082 http://purl.obolibrary.org/obo/CLO_0009524 denotes Vero
T149 13078-13082 http://purl.obolibrary.org/obo/CLO_0050515 denotes Vero
T150 13083-13088 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T151 13091-13092 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T152 13110-13115 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T153 13117-13118 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T154 13142-13147 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T155 13196-13200 http://purl.obolibrary.org/obo/CLO_0009524 denotes Vero
T156 13196-13200 http://purl.obolibrary.org/obo/CLO_0050515 denotes Vero
T157 13201-13206 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T158 13291-13295 http://purl.obolibrary.org/obo/CLO_0009524 denotes Vero
T159 13291-13295 http://purl.obolibrary.org/obo/CLO_0050515 denotes Vero
T160 13296-13301 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T161 13328-13333 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T162 13352-13354 http://purl.obolibrary.org/obo/CLO_0001382 denotes 48
T163 13694-13695 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T164 13697-13701 http://purl.obolibrary.org/obo/OGG_0000000002 denotes Gene
T165 13751-13752 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T166 13754-13758 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T1 672-680 Chemical denotes electron http://purl.obolibrary.org/obo/CHEBI_10545
T2 1138-1146 Chemical denotes electron http://purl.obolibrary.org/obo/CHEBI_10545
T3 1552-1557 Chemical denotes alpha http://purl.obolibrary.org/obo/CHEBI_30216
T4 1559-1563 Chemical denotes beta http://purl.obolibrary.org/obo/CHEBI_10545
T5 1576-1581 Chemical denotes gamma http://purl.obolibrary.org/obo/CHEBI_30212
T6 1655-1662 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T7 1689-1694 Chemical denotes crown http://purl.obolibrary.org/obo/CHEBI_37409
T8 1724-1732 Chemical denotes electron http://purl.obolibrary.org/obo/CHEBI_10545
T9 3894-3899 Chemical denotes probe http://purl.obolibrary.org/obo/CHEBI_50406
T10 4098-4103 Chemical denotes 5-FAM http://purl.obolibrary.org/obo/CHEBI_51617
T11 4138-4143 Chemical denotes probe http://purl.obolibrary.org/obo/CHEBI_50406
T12 4316-4321 Chemical denotes 5-FAM http://purl.obolibrary.org/obo/CHEBI_51617
T13 4417-4423 Chemical denotes buffer http://purl.obolibrary.org/obo/CHEBI_35225
T14 4537-4544 Chemical denotes mixture http://purl.obolibrary.org/obo/CHEBI_60004
T15 4611-4616 Chemical denotes probe http://purl.obolibrary.org/obo/CHEBI_50406
T16 5139-5150 Chemical denotes antibiotics http://purl.obolibrary.org/obo/CHEBI_33281
T17 5162-5172 Chemical denotes penicillin http://purl.obolibrary.org/obo/CHEBI_17334|http://purl.obolibrary.org/obo/CHEBI_51356
T19 5173-5185 Chemical denotes streptomycin http://purl.obolibrary.org/obo/CHEBI_17076|http://purl.obolibrary.org/obo/CHEBI_58007
T21 5335-5338 Chemical denotes CO2 http://purl.obolibrary.org/obo/CHEBI_16526
T22 5431-5441 Chemical denotes penicillin http://purl.obolibrary.org/obo/CHEBI_17334|http://purl.obolibrary.org/obo/CHEBI_51356
T24 5442-5454 Chemical denotes streptomycin http://purl.obolibrary.org/obo/CHEBI_17076|http://purl.obolibrary.org/obo/CHEBI_58007
T26 5551-5559 Chemical denotes electron http://purl.obolibrary.org/obo/CHEBI_10545
T27 6129-6132 Chemical denotes DNA http://purl.obolibrary.org/obo/CHEBI_16991
T28 6205-6207 Chemical denotes PE http://purl.obolibrary.org/obo/CHEBI_16038|http://purl.obolibrary.org/obo/CHEBI_17553|http://purl.obolibrary.org/obo/CHEBI_74762
T31 6751-6759 Chemical denotes electron http://purl.obolibrary.org/obo/CHEBI_10545
T32 6788-6796 Chemical denotes electron http://purl.obolibrary.org/obo/CHEBI_10545
T33 6890-6904 Chemical denotes glutaraldehyde http://purl.obolibrary.org/obo/CHEBI_64276
T34 6914-6923 Chemical denotes phosphate http://purl.obolibrary.org/obo/CHEBI_18367|http://purl.obolibrary.org/obo/CHEBI_26020|http://purl.obolibrary.org/obo/CHEBI_35780|http://purl.obolibrary.org/obo/CHEBI_43474
T38 6924-6930 Chemical denotes buffer http://purl.obolibrary.org/obo/CHEBI_35225
T39 7111-7117 Chemical denotes buffer http://purl.obolibrary.org/obo/CHEBI_35225
T40 7128-7136 Chemical denotes fixative http://purl.obolibrary.org/obo/CHEBI_50913
T41 7137-7145 Chemical denotes solution http://purl.obolibrary.org/obo/CHEBI_75958
T42 7169-7185 Chemical denotes osmium tetroxide http://purl.obolibrary.org/obo/CHEBI_88215
T43 7169-7175 Chemical denotes osmium http://purl.obolibrary.org/obo/CHEBI_30687
T44 7224-7229 Chemical denotes water http://purl.obolibrary.org/obo/CHEBI_15377
T45 7231-7233 Chemical denotes en http://purl.obolibrary.org/obo/CHEBI_30347
T46 7280-7287 Chemical denotes acetate http://purl.obolibrary.org/obo/CHEBI_30089|http://purl.obolibrary.org/obo/CHEBI_47622
T48 7335-7342 Chemical denotes ethanol http://purl.obolibrary.org/obo/CHEBI_16236
T49 7437-7452 Chemical denotes propylene oxide http://purl.obolibrary.org/obo/CHEBI_38685
T50 7437-7446 Chemical denotes propylene http://purl.obolibrary.org/obo/CHEBI_16052
T51 7447-7452 Chemical denotes oxide http://purl.obolibrary.org/obo/CHEBI_25741|http://purl.obolibrary.org/obo/CHEBI_29356
T53 7657-7663 Chemical denotes nickel http://purl.obolibrary.org/obo/CHEBI_28112
T54 7704-7711 Chemical denotes acetate http://purl.obolibrary.org/obo/CHEBI_30089|http://purl.obolibrary.org/obo/CHEBI_47622
T56 7760-7768 Chemical denotes electron http://purl.obolibrary.org/obo/CHEBI_10545
T57 8797-8805 Chemical denotes electron http://purl.obolibrary.org/obo/CHEBI_10545
T58 8910-8918 Chemical denotes electron http://purl.obolibrary.org/obo/CHEBI_10545
T59 9615-9617 Chemical denotes ID http://purl.obolibrary.org/obo/CHEBI_141439
T60 10091-10093 Chemical denotes ID http://purl.obolibrary.org/obo/CHEBI_141439
T61 10581-10583 Chemical denotes II http://purl.obolibrary.org/obo/CHEBI_74067
T62 11009-11011 Chemical denotes II http://purl.obolibrary.org/obo/CHEBI_74067
T63 11724-11726 Chemical denotes ID http://purl.obolibrary.org/obo/CHEBI_141439
T64 11772-11774 Chemical denotes SL http://purl.obolibrary.org/obo/CHEBI_74815
T65 13172-13180 Chemical denotes electron http://purl.obolibrary.org/obo/CHEBI_10545
T66 13396-13404 Chemical denotes electron http://purl.obolibrary.org/obo/CHEBI_10545
T67 13558-13568 Chemical denotes nucleotide http://purl.obolibrary.org/obo/CHEBI_36976

LitCovid-PD-GO-BP

Id Subject Object Predicate Lexical cue
T1 541-550 http://purl.obolibrary.org/obo/GO_0046903 denotes secretion
T2 3370-3383 http://purl.obolibrary.org/obo/GO_0003968 denotes transcriptase
T3 3370-3383 http://purl.obolibrary.org/obo/GO_0003899 denotes transcriptase
T4 4627-4648 http://purl.obolibrary.org/obo/GO_0001171 denotes Reverse transcription
T5 4635-4648 http://purl.obolibrary.org/obo/GO_0006351 denotes transcription
T6 4727-4740 http://purl.obolibrary.org/obo/GO_0003968 denotes transcriptase
T7 4727-4740 http://purl.obolibrary.org/obo/GO_0003899 denotes transcriptase
T8 5817-5830 http://purl.obolibrary.org/obo/GO_0003968 denotes transcriptase
T9 5817-5830 http://purl.obolibrary.org/obo/GO_0003899 denotes transcriptase
T10 6955-6964 http://purl.obolibrary.org/obo/GO_0097264 denotes autolysis
T11 6955-6964 http://purl.obolibrary.org/obo/GO_0001896 denotes autolysis

2_test

Id Subject Object Predicate Lexical cue
32149036-30531947-81764444 1597-1598 30531947 denotes 1
32149036-24737708-81764445 1745-1746 24737708 denotes 3
32149036-31522710-81764446 1747-1748 31522710 denotes 4
32149036-30531947-81764447 1995-1996 30531947 denotes 1
32149036-29551135-81764448 2375-2376 29551135 denotes 5
32149036-27344959-81764449 2377-2378 27344959 denotes 6
32149036-32004758-81764450 2540-2541 32004758 denotes 7
32149036-31953166-81764451 2791-2792 31953166 denotes 8
32149036-32035511-81764451 2791-2792 32035511 denotes 8
32149036-26235643-81764452 7850-7852 26235643 denotes 13
32149036-19844604-81764452 7850-7852 19844604 denotes 13
32149036-31978945-81764453 10801-10803 31978945 denotes 16

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T1 0-76 Sentence denotes Identification of Coronavirus Isolated from a Patient in Korea with COVID-19
T2 78-86 Sentence denotes Abstract
T3 87-97 Sentence denotes Objectives
T4 98-355 Sentence denotes Following reports of patients with unexplained pneumonia at the end of December 2019 in Wuhan, China, the causative agent was identified as coronavirus (SARS-CoV-2), and the 2019 novel coronavirus disease was named COVID-19 by the World Health Organization.
T5 356-497 Sentence denotes Putative patients with COVID-19 have been identified in South Korea, and attempts have been made to isolate the pathogen from these patients.
T6 499-506 Sentence denotes Methods
T7 507-644 Sentence denotes Upper and lower respiratory tract secretion samples from putative patients with COVID-19 were inoculated onto cells to isolate the virus.
T8 645-724 Sentence denotes Full genome sequencing and electron microscopy were used to identify the virus.
T9 726-733 Sentence denotes Results
T10 734-806 Sentence denotes The virus replicated in Vero cells and cytopathic effects were observed.
T11 807-996 Sentence denotes Full genome sequencing showed that the virus genome exhibited sequence homology of more than 99.9% with SARS-CoV-2 which was isolated from patients from other countries, for instance China.
T12 997-1089 Sentence denotes Sequence homology of SARS-CoV-2 with SARS-CoV, and MERS-CoV was 77.5% and 50%, respectively.
T13 1090-1187 Sentence denotes Coronavirus-specific morphology was observed by electron microscopy in virus-infected Vero cells.
T14 1189-1199 Sentence denotes Conclusion
T15 1200-1310 Sentence denotes SARS-CoV-2 was isolated from putative patients with unexplained pneumonia and intermittent coughing and fever.
T16 1311-1366 Sentence denotes The isolated virus was named BetaCoV/Korea/KCDC03/2020.
T17 1368-1380 Sentence denotes Introduction
T18 1381-1484 Sentence denotes Coronavirus is an RNA virus consisting of positive-sense single-stranded RNA of approximately 27–32 kb.
T19 1485-1602 Sentence denotes Coronavirus belong to the family Coronaviridae, which comprises of alpha, beta, delta, and gamma coronaviruses [1,2].
T20 1603-1750 Sentence denotes As the name indicates, the spherical external spike protein displays a characteristic crown shape when observed under an electron microscope [3,4].
T21 1751-1845 Sentence denotes The virus is known to infect a wide range of hosts including humans, other mammals, and birds.
T22 1846-2000 Sentence denotes Infected hosts exhibit different clinical courses, ranging from asymptomatic to severe symptoms in their respiratory, digestive, and genital organs [1,2].
T23 2001-2074 Sentence denotes There are 6 known coronaviruses that typically cause infection in humans.
T24 2075-2380 Sentence denotes Among these, coronavirus 229E, OC43, NL63, and HKU1 generally cause mild cold-like symptoms, whereas severe acute respiratory syndrome-coronavirus (SARS-CoV) in 2003, and Middle East respiratory syndrome-coronavirus (MERS-CoV) in 2012, caused severe respiratory diseases such as pneumonia and death [5,6].
T25 2381-2543 Sentence denotes Following the first outbreaks of unexplained pneumonia in Wuhan, China, in late 2019, a new coronavirus was identified as the causative agent in January 2020 [7].
T26 2544-2663 Sentence denotes As of February 11th, 2020, a total of 45,000 cases of pneumonia, have been reported from 26 countries, including China.
T27 2664-2797 Sentence denotes Approximately 96.8% of all cases have been reported in China, and patients in the Hubei province account for 75% of all cases [8–10].
T28 2798-2938 Sentence denotes In Korea, the first case was reported on January 20, 2020, when SARS-CoV-2 was detected in a traveler entering Korea from Wuhan, China [11].
T29 2939-3103 Sentence denotes This study reports the full genome sequencing of SARS-CoV-2 isolated from putative the 2019 novel coronavirus disease (COVID-19) patients in Korea, by cell culture.
T30 3104-3164 Sentence denotes The isolated SARS-CoV-2 was named BetaCoV/Korea/KCDC03/2020.
T31 3166-3187 Sentence denotes Materials and Methods
T32 3189-3191 Sentence denotes 1.
T33 3192-3229 Sentence denotes Clinical specimens and RNA extraction
T34 3230-3393 Sentence denotes Nasopharyngeal and oropharyngeal swab and sputum samples were collected from symptomatic patients to detect SARS-CoV-2 by real-time reverse transcriptase (RT)-PCR.
T35 3394-3535 Sentence denotes RNA was extracted from clinical samples with a QIAamp viral RNA mini kit (QIAGEN, Hilden, Germany) following the manufacturer’s instructions.
T36 3536-3699 Sentence denotes All specimens were handled under a biosafety cabinet according to laboratory biosafety guidelines of Korea Centers for Disease Control and Prevention for COVID-19.
T37 3701-3703 Sentence denotes 2.
T38 3704-3720 Sentence denotes Real-time RT-PCR
T39 3721-3878 Sentence denotes The optimal concentration of primers and probes, which were synthesized using a published sequence [12], was determined with the RNA transcripts of SARS-CoV.
T40 3879-3968 Sentence denotes The primer and probe sequences used for RNA-dependent RNA polymerase gene detection were:
T41 3969-4185 Sentence denotes 5′-GTGARATGGTCATGTGTGGCGG-3′ (Forward), 5′-CARATGTTAAASACACTATTAGCATA-3′ (Reverse) and 5′-CAGGTGGAACCTCATCAGGAGATGC-3′ (Probe in 5-FAM/3′-BHQ format) and the primer and probe sequences used for E gene detection were:
T42 4186-4337 Sentence denotes 5′-ACAGGTACGTTAATAGTTAATAGCGT-3′ (Forward), 5′-ATATTGCAGCAGTACGCACACA-3′ (Reverse) and 5′-ACACTAGCCATCCTTACTGCGCTTCG-3′ (Probe in 5-FAM/3′-BHQ format).
T43 4338-4626 Sentence denotes A 25-μL reaction was setup that contained 5 μL of RNA, 12.5 μL of 2 × reaction buffer provided with the Agpath IDTM 1 step RT-PCR system (Thermo Fisher Scientific, Waltham, USA), 1 μL of 25 × enzyme mixture, 1 μL of forward and reverse primers at 10 pM, and 0.5 μL of each probe at 10 pM.
T44 4627-4764 Sentence denotes Reverse transcription was performed at 50°C for 30 minutes, followed by inactivation of the reverse transcriptase at 95°C for 10 minutes.
T45 4765-4918 Sentence denotes PCR amplification was performed with 40 cycles at 95°C for 15 seconds and 60°C for 1 minute using an ABI 7500 Fast instrument (Thermo Fisher Scientific).
T46 4920-4922 Sentence denotes 3.
T47 4923-4938 Sentence denotes Virus isolation
T48 4939-5040 Sentence denotes The virus was isolated from nasopharyngeal and oropharyngeal samples from putative COVID-19 patients.
T49 5041-5286 Sentence denotes Oropharyngeal samples were diluted with viral transfer medium containing nasopharyngeal swabs and antibiotics (Nystadin, penicillin-streptomycin 1:1 dilution) at 1:4 ratio and incubated for 1 hour at 4°C, before being inoculated onto Vero cells.
T50 5287-5455 Sentence denotes Inoculated Vero cells were cultured at 37°C, 5% CO2 in 1× Dulbecco’s modified Eagle’s medium (DMEM) supplemented with 2% fetal bovine serum and penicillin-streptomycin.
T51 5456-5571 Sentence denotes Virus replication and isolation were confirmed through cytopathic effects, gene detection, and electron microscopy.
T52 5572-5743 Sentence denotes Viral culture of SARS-CoV-2 was conducted in a biosafety Level-3 facility according to laboratory biosafety guidelines of Korea Centers for Disease Control and Prevention.
T53 5745-5747 Sentence denotes 4.
T54 5748-5802 Sentence denotes Next generation sequencing of viral full-length genome
T55 5803-5936 Sentence denotes Using reverse transcriptase, cDNA was synthesized from RNA extracted from the cultured cell medium in which the virus was replicated.
T56 5937-6142 Sentence denotes A next generation sequencing (NGS) library was constructed after amplifying the full-length genes of the isolates using the synthesized cDNA and primers designed based on published SARS-CoV-2 DNA sequence.
T57 6143-6208 Sentence denotes The prepared library was purified and analyzed with Miseq 150 PE.
T58 6209-6310 Sentence denotes De novo assembly was performed on the sequenced product using Megahit to secure a full-length genome.
T59 6312-6314 Sentence denotes 5.
T60 6315-6334 Sentence denotes Sequencing analysis
T61 6335-6396 Sentence denotes Gene sequencing was performed using CLC Main Workbench 7.9.1.
T62 6397-6554 Sentence denotes Alignment was conducted using human and animal coronavirus sequences registered in Global Initiative on Sharing All Influenza Data (GISAID) and NCBI GenBank.
T63 6555-6733 Sentence denotes The phylogenetic tree was analyzed using MEGA6 with the neighbor-joining method, maximum composite likelihood-parameter distance matrix, and bootstrap values of 1,000 replicates.
T64 6735-6737 Sentence denotes 6.
T65 6738-6770 Sentence denotes Transmission electron microscopy
T66 6771-6998 Sentence denotes For transmission electron microscopy, the inoculated cells were prefixed by incubating in 2% paraformaldehyde and 2.5% glutaraldehyde in 0.1 M phosphate buffer (pH 7.4) to prevent the autolysis of the cells infected with virus.
T67 6999-7186 Sentence denotes To minimize the chemical reaction between pre- and post-fixation, the slides were washed 3 times using the same buffer as in the fixative solution and post-fixed with 1% osmium tetroxide.
T68 7187-7288 Sentence denotes After washing 3 times with deionized water, en bloc staining was performed using 0.5% uranyl acetate.
T69 7289-7453 Sentence denotes Thereafter, 30%, 50%, 70%, 80%, 90%, and 100% ethanol were used sequentially in ascending concentration for dehydration, which was substituted with propylene oxide.
T70 7454-7547 Sentence denotes The slides were then embedded in Epon812 plastic resin, and polymerized at 70°C for 48 hours.
T71 7548-7712 Sentence denotes The prepared plastic block was cut to 70-nm thick sections using an ultramicrotome and mounted on a 100-mesh nickel grid, and electrostained with 5% uranyl acetate.
T72 7713-7857 Sentence denotes The sections were observed with a transmission electron microscope (Libra120, Carl Zeiss, Germany) at an acceleration voltage of 120 kV [13–15].
T73 7859-7866 Sentence denotes Results
T74 7868-7870 Sentence denotes 1.
T75 7871-7902 Sentence denotes Virus isolation from Vero cells
T76 7903-8113 Sentence denotes Following inoculation of Vero cells with the nasopharyngeal and oropharyngeal samples, they were observed at 24-hour intervals, and the cytopathic effects were observed from 3 days after inoculation (Figure 1).
T77 8114-8226 Sentence denotes The inoculated cells were harvested on the 4th day when more than 80% of the cells exhibited cytopathic effects.
T78 8227-8330 Sentence denotes Virus replication was confirmed using real-time RT-PCR with RNA extracted from the cell culture medium.
T79 8331-8533 Sentence denotes The Ct values were 14.40 and 18.26 for the nasopharyngeal and oropharyngeal samples, respectively, which were lower than the cycle threshold (Ct) values of 20.85 and 21.85 in the pre-inoculated samples.
T80 8534-8750 Sentence denotes The number of virus copies in the samples before inoculation was 7.6 × 108 and 3.9 × 108 copy/mL, respectively, and increased by 10–70-fold to 5.4 × 1010 and 4.2 × 109, respectively, in the cell culture supernatants.
T81 8752-8754 Sentence denotes 2.
T82 8755-8817 Sentence denotes Analysis of the structure of the virus by electron micrographs
T83 8818-8941 Sentence denotes The structure of the virus in the cytoplasm of 3-day post-inoculation cells was examined by electron microscopy (Figure 2).
T84 8942-8987 Sentence denotes Coronavirus-specific morphology was observed.
T85 8988-9124 Sentence denotes Virus particle size ranged from 70–90 nm and the virus was observed in a wide range of intracellular organelles, especially in vesicles.
T86 9126-9128 Sentence denotes 3.
T87 9129-9173 Sentence denotes Full-length genome and phylogenetic analysis
T88 9174-9313 Sentence denotes After inoculating cells with the nasopharyngeal and oropharyngeal samples, RNA was extracted from the virus-replicated cell culture medium.
T89 9314-9414 Sentence denotes The RNA was amplified with primers for full-length gene analysis, and NGS was performed using Miseq.
T90 9415-9494 Sentence denotes De novo assembly of the NGS sequence secured 28,818 bp of the full-length gene.
T91 9495-9766 Sentence denotes The acquired gene was compared with 57 human and animal coronaviruses, including Wuhan/IVDC-HB-01/2019(GISAID accession ID: EPI_ISL_402119~121), which was first reported in Wuhan, 54 reported full-length SARS-CoV-2 genes, Bat-SARS-like CoV, and human SARS-CoV (Figure 3).
T92 9767-9962 Sentence denotes The analysis showed that the sequence was included in the same cluster as the previously reported SARS-CoV-2 sequence and showed high homology of > 99.5% with other isolated SARS-CoV-2 sequences.
T93 9963-10111 Sentence denotes The virus was named BetaCoV/Korea/KCDC03/2020, and its full-length gene sequence was registered in WHO GISAID (GISAID accession ID: EPI_ISL_407193).
T94 10113-10123 Sentence denotes Discussion
T95 10124-10269 Sentence denotes As of February 12th, 2020, 28 cases of COVID-19 have been reported in Korea, with the first case observed in a traveler residing in Wuhan, China.
T96 10270-10405 Sentence denotes The SARS-CoV-2 was isolated from a Korean patient who had self-administered antipyretics for initial symptoms such as chills and fever.
T97 10406-10516 Sentence denotes The patient had experienced intermittent coughing with sputum 3 days after the administration of antipyretics.
T98 10517-10635 Sentence denotes The SARS-CoV-2 could replicate in other cells (Vero E6 and Caco-II cells), in addition to Vero cells (data not shown).
T99 10636-10805 Sentence denotes The first SARS-CoV-2 was successfully isolated by inoculating human airway epithelial cells with bronchoalveolar-lavage fluid samples from a patient with pneumonia [16].
T100 10806-11037 Sentence denotes Since human airway epithelial cells (because of their resemblance to pseudostratified mucociliary epithelium) require 4–6 weeks to differentiate in vivo, isolation of SARS-CoV-2 using Vero cells or Caco-II cells is more convenient.
T101 11038-11158 Sentence denotes Further studies are needed to select more sensitive cell lines suitable for virus isolation from low viral load samples.
T102 11159-11438 Sentence denotes The sequence of the suspected novel coronavirus (KCDC03) was analyzed using the sequences of 54 SARS-CoV-2 including 6 human coronaviruses, Bat-CoVs, and 51 SARS-CoV-2 that have been registered in GISAID by several countries including China, and a phylogenetic tree was produced.
T103 11439-11565 Sentence denotes Results show that the isolate from Korea was clustered with the new coronavirus, SARS-CoV-2 and classified as betacoronavirus.
T104 11566-11744 Sentence denotes High homology (99.94%–99.99%) was confirmed with the viral sequences reported from other countries, such as those from Wuhan/IVDC-HB-01/2019(GISAID accession ID: EPI_ISL_402119).
T105 11745-11869 Sentence denotes Homology with bat CoV (bat-SL-CoVZC45), SARS-CoV (AY278741) and MERS-CoV (JX869059) was 89.1%, 77.5%, and 50%, respectively.
T106 11870-12096 Sentence denotes However, the lowest homology of 99.5% was observed with BetaCoV/Wuwhan/IVDCHB-04/2020, which could be because of the inaccurate sequence of IVDCHB-04, Hence, it has been excluded from the comparative analysis in other studies.
T107 12097-12260 Sentence denotes Prior to identification of SARS-CoV-2 as the causative agent of the unknown pneumonia in Wuhan, China, pan-CoV RT-PCR was being used to detect SARS-CoV-2 in Korea.
T108 12261-12370 Sentence denotes The Pan-CoV RT-PCR detects all human coronaviruses and animal-derived coronaviruses (personal communication).
T109 12371-12502 Sentence denotes Since the release of the SARS-CoV-2 sequence, a real-time RT-PCR method has been established in the diagnosis of COVID-19 patients.
T110 12503-12588 Sentence denotes Currently, the diagnosis of COVID-19 is based on gene detection via real-time RT-PCR.
T111 12589-12740 Sentence denotes With the isolation of the causative agent, development of serological tests and rapid diagnostic tests in addition to virus detection will be required.
T112 12742-12757 Sentence denotes Acknowledgments
T113 12758-12837 Sentence denotes This study was funded by Korea Centers for Disease Control and Prevention (no.:
T114 12838-12871 Sentence denotes 4800-4837-301 and 4800-4834-303).
T115 12872-12955 Sentence denotes The authors thank Mr. Jun Sub Kim of Korea CDC for his help in sequencing analysis.
T116 12956-12977 Sentence denotes Conflicts of Interest
T117 12978-13031 Sentence denotes The authors have no conflicts of interest to declare.
T118 13033-13148 Sentence denotes Figure 1 Cytopathic effect of SARS-CoV-2 on Vero cells. (A) Mock inoculated cells (B) SARS-CoV-2 inoculated cells.
T119 13149-13232 Sentence denotes Figure 2 Thin section electron micrographs of Vero cells infected with SARS-CoV-2.
T120 13233-13416 Sentence denotes Electron micrographs show representative thin sections of Vero cells infected with SARS-CoV-2; cells were collected at 48 hours after infection for examination by electron microscopy.
T121 13417-13485 Sentence denotes White arrows point to aggregates of assembled intracellular virions.
T122 13486-13611 Sentence denotes Figure 3 Phylogenetic tree analysis of SARS-CoV-2 based on full genome nucleotide sequences using the neighbor-joining tree.
T123 13612-13812 Sentence denotes Values on branches are shown as percentages based on 1,000 bootstrap replicates. (A) Gene analysis of SARS-CoV-2 and other coronaviruses, (B) gene analysis of SARS-CoV-2 and BetaCoV/Korea/KCDC03/2020.

LitCovid-PD-HP

Id Subject Object Predicate Lexical cue hp_id
T1 145-154 Phenotype denotes pneumonia http://purl.obolibrary.org/obo/HP_0002090
T2 1264-1273 Phenotype denotes pneumonia http://purl.obolibrary.org/obo/HP_0002090
T3 1291-1299 Phenotype denotes coughing http://purl.obolibrary.org/obo/HP_0012735
T4 1304-1309 Phenotype denotes fever http://purl.obolibrary.org/obo/HP_0001945
T5 2354-2363 Phenotype denotes pneumonia http://purl.obolibrary.org/obo/HP_0002090
T6 2426-2435 Phenotype denotes pneumonia http://purl.obolibrary.org/obo/HP_0002090
T7 2598-2607 Phenotype denotes pneumonia http://purl.obolibrary.org/obo/HP_0002090
T8 7397-7408 Phenotype denotes dehydration http://purl.obolibrary.org/obo/HP_0001944
T9 10388-10394 Phenotype denotes chills http://purl.obolibrary.org/obo/HP_0025143
T10 10399-10404 Phenotype denotes fever http://purl.obolibrary.org/obo/HP_0001945
T11 10447-10455 Phenotype denotes coughing http://purl.obolibrary.org/obo/HP_0012735
T12 10790-10799 Phenotype denotes pneumonia http://purl.obolibrary.org/obo/HP_0002090
T13 12173-12182 Phenotype denotes pneumonia http://purl.obolibrary.org/obo/HP_0002090