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LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
7 256-262 Species denotes people Tax:9606
8 318-341 Species denotes human coronavirus, SARS Tax:694009
9 342-347 Species denotes CoV-2 Tax:2697049
10 502-519 Species denotes novel-coronavirus Tax:2697049
11 186-205 Disease denotes respiratory disease MESH:D012140
12 422-441 Disease denotes coronavirus disease MESH:D018352
13 462-470 Disease denotes COVID-19 MESH:C000657245
19 705-713 Species denotes SARS-CoV Tax:694009
20 719-729 Species denotes SARS-CoV-2 Tax:2697049
21 774-782 Species denotes SARS-CoV Tax:694009
22 819-837 Species denotes beta-coronaviruses Tax:694002
23 582-592 Disease denotes COVID-2019 MESH:C000657245
47 955-965 Species denotes SARS-CoV-2 Tax:2697049
48 996-1002 Species denotes people Tax:9606
49 1025-1030 Species denotes human Tax:9606
50 1031-1041 Species denotes SARS-CoV-2 Tax:2697049
51 1101-1104 Species denotes CoV Tax:11118
52 1173-1183 Species denotes SARS-CoV-2 Tax:2697049
53 1214-1219 Species denotes human Tax:9606
54 1220-1228 Species denotes SARS-CoV Tax:694009
55 1272-1275 Species denotes CoV Tax:11118
56 1461-1466 Species denotes human Tax:9606
57 1467-1477 Species denotes SARS-CoV-2 Tax:2697049
58 1497-1500 Species denotes CoV Tax:11118
59 1637-1641 Species denotes CoVs Tax:11118
60 1677-1680 Species denotes CoV Tax:11118
61 1708-1718 Species denotes SARS-CoV-2 Tax:2697049
62 1873-1883 Species denotes SARS-CoV-2 Tax:2697049
63 1972-1978 Species denotes humans Tax:9606
64 2008-2012 Species denotes CoVs Tax:11118
65 2037-2042 Species denotes human Tax:9606
66 2043-2053 Species denotes SARS-CoV-2 Tax:2697049
67 2103-2107 Species denotes CoVs Tax:11118
68 2127-2137 Species denotes SARS-CoV-2 Tax:2697049
69 1338-1340 Chemical denotes nt
76 2388-2391 Species denotes CoV Tax:11118
77 2403-2406 Species denotes CoV Tax:11118
78 2444-2452 Species denotes SARS CoV Tax:694009
79 2480-2484 Species denotes mice Tax:10090
80 2520-2525 Species denotes human Tax:9606
81 2696-2706 Species denotes SARS-CoV-2 Tax:2697049
93 2733-2738 Species denotes mouse Tax:10090
94 2747-2757 Species denotes SARS virus Tax:694009
95 2827-2835 Species denotes SARS CoV Tax:694009
96 2877-2881 Species denotes mice Tax:10090
97 2904-2908 Species denotes mice Tax:10090
98 2914-2922 Species denotes SARS-CoV Tax:694009
99 2981-2985 Species denotes mice Tax:10090
100 3051-3056 Species denotes mouse Tax:10090
101 3129-3134 Species denotes human Tax:9606
102 3144-3152 Species denotes patients Tax:9606
103 3164-3169 Species denotes mouse Tax:10090
135 3320-3324 Gene denotes ACE2 Gene:59272
136 3632-3636 Gene denotes ACE2 Gene:59272
137 3748-3752 Gene denotes ACE2 Gene:59272
138 3826-3830 Gene denotes ACE2 Gene:59272
139 4260-4264 Gene denotes ACE2 Gene:59272
140 3231-3234 Species denotes CoV Tax:11118
141 3253-3258 Species denotes human Tax:9606
142 3259-3267 Species denotes patients Tax:9606
143 3314-3319 Species denotes human Tax:9606
144 3354-3359 Species denotes human Tax:9606
145 3434-3438 Species denotes CoVs Tax:11118
146 3461-3469 Species denotes SARS CoV Tax:694009
147 3473-3479 Species denotes humans Tax:9606
148 3523-3536 Species denotes coronaviruses Tax:11118
149 3564-3578 Species denotes horseshoe bats Tax:49442
150 3607-3610 Species denotes CoV Tax:11118
151 3642-3648 Species denotes humans Tax:9606
152 3669-3683 Species denotes horseshoe bats Tax:49442
153 3820-3825 Species denotes human Tax:9606
154 3857-3865 Species denotes SARS CoV Tax:694009
155 3956-3960 Species denotes CoVs Tax:11118
156 3992-3997 Species denotes human Tax:9606
157 4065-4080 Species denotes bat coronavirus Tax:1508220
158 4152-4157 Species denotes mouse Tax:10090
159 4171-4179 Species denotes SARS-CoV Tax:694009
160 4254-4259 Species denotes human Tax:9606
161 4290-4295 Species denotes human Tax:9606
162 4350-4358 Species denotes SARS-CoV Tax:694009
163 4425-4430 Species denotes mouse Tax:10090
164 4587-4591 Species denotes mice Tax:10090
165 4438-4447 Disease denotes infection MESH:D007239
172 4721-4726 Species denotes human Tax:9606
173 4742-4746 Species denotes mice Tax:10090
174 5197-5201 Species denotes CoVs Tax:11118
175 5319-5329 Species denotes SARS-CoV-2 Tax:2697049
176 5517-5527 Species denotes SARS-CoV-2 Tax:2697049
177 5029-5039 Disease denotes COVID-2019 MESH:C000657245
184 5611-5621 Species denotes SARS-CoV-2 Tax:2697049
185 5666-5672 Species denotes humans Tax:9606
186 5816-5826 Species denotes SARS-CoV-2 Tax:2697049
187 5929-5934 Species denotes HIV-1 Tax:11676
188 6077-6087 Species denotes SARS-CoV-2 Tax:2697049
189 6095-6100 Species denotes HIV-1 Tax:11676
200 6343-6363 Species denotes synthetic constructs Tax:32630
201 6546-6549 Species denotes CoV Tax:11118
202 6637-6647 Species denotes SARS-CoV-2 Tax:2697049
203 6688-6691 Species denotes CoV Tax:11118
204 6716-6726 Species denotes SARS-CoV-2 Tax:2697049
205 6744-6747 Species denotes CoV Tax:11118
206 6782-6785 Species denotes CoV Tax:11118
207 6798-6809 Species denotes coronavirus Tax:11118
208 6928-6938 Species denotes SARS-CoV-2 Tax:2697049
209 6975-6985 Species denotes SARS-CoV-2 Tax:2697049

LitCovid-PMC-OGER-BB

Id Subject Object Predicate Lexical cue
T193 1708-1718 SP_7 denotes SARS-CoV-2
T192 1773-1778 NCBITaxon:10239 denotes viral
T266 186-197 UBERON:0001004 denotes respiratory
T265 256-262 NCBITaxon:9606 denotes people
T264 318-323 SP_6;NCBITaxon:9606 denotes human
T263 324-335 NCBITaxon:11118 denotes coronavirus
T262 337-341 PR:000014459;SP_7 denotes SARS
T261 341-347 SP_7 denotes -CoV-2
T260 422-433 NCBITaxon:11118 denotes coronavirus
T259 462-470 SP_7 denotes COVID-19
T258 508-519 NCBITaxon:11118 denotes coronavirus
T257 520-528 SP_7 denotes covid-19
T256 667-678 UBERON:0001004 denotes respiratory
T255 689-693 SP_10 denotes SARS
T254 705-713 SP_10 denotes SARS-CoV
T253 719-729 SP_7 denotes SARS-CoV-2
T214 730-736 SO:0001026 denotes genome
T213 774-782 SP_10 denotes SARS-CoV
T212 815-818 SP_2 denotes bat
T211 824-837 NCBITaxon:11118 denotes coronaviruses
T210 955-965 SP_7 denotes SARS-CoV-2
T209 996-1002 NCBITaxon:9606 denotes people
T208 1025-1030 SP_6;NCBITaxon:9606 denotes human
T207 1031-1041 SP_7 denotes SARS-CoV-2
T206 1097-1100 SP_2 denotes bat
T205 1155-1163 SO:0000853 denotes homology
T204 1173-1183 SP_7 denotes SARS-CoV-2
T203 1214-1219 SP_6;NCBITaxon:9606 denotes human
T202 1220-1228 SP_10 denotes SARS-CoV
T201 1251-1261 SP_5 denotes palm civet
T200 1262-1266 SP_10 denotes SARS
T199 1289-1297 SO:0000853 denotes homology
T198 1382-1388 SO:0001026 denotes genome
T197 1461-1466 SP_6;NCBITaxon:9606 denotes human
T196 1467-1477 SP_7 denotes SARS-CoV-2
T195 1486-1489 SP_2 denotes bat
T194 1543-1549 SO:0001026 denotes genome
T191 1824-1831 NCBITaxon:species denotes species
T190 1833-1837 SP_2;NCBITaxon:9397 denotes bats
T189 1873-1883 SP_7 denotes SARS-CoV-2
T188 1943-1949 NCBITaxon:33208 denotes animal
T187 1963-1967 SP_2;NCBITaxon:6960 denotes bats
T186 1972-1978 NCBITaxon:9606 denotes humans
T185 2001-2007 NCBITaxon:33208 denotes animal
T184 2037-2042 SP_6;NCBITaxon:9606 denotes human
T183 2043-2047 PR:000014459;SP_7 denotes SARS
T182 2047-2053 SP_7 denotes -CoV-2
T181 2081-2090 SP_1 denotes pangolins
T180 2127-2137 SP_7 denotes SARS-CoV-2
T179 2399-2402 SP_2 denotes bat
T178 2409-2413 SO:0000704 denotes gene
T177 2444-2452 SP_10 denotes SARS CoV
T176 2480-2484 NCBITaxon:10088 denotes mice
T175 2520-2525 SP_6;NCBITaxon:9606 denotes human
T174 2648-2655 SO:0000704 denotes genetic
T173 2696-2706 SP_7 denotes SARS-CoV-2
T172 2733-2738 NCBITaxon:10088 denotes mouse
T171 2747-2751 SP_10;NCBITaxon:10633 denotes SARS
T170 2752-2757 NCBITaxon:10239 denotes virus
T169 2827-2835 SP_10 denotes SARS CoV
T168 2849-2866 UBERON:0000065 denotes respiratory tract
T167 2877-2881 NCBITaxon:10088 denotes mice
T166 2904-2908 NCBITaxon:10088 denotes mice
T165 2914-2922 SP_10 denotes SARS-CoV
T164 2939-2950 GO:0006260 denotes replication
T163 2955-2959 UBERON:0002048 denotes lung
T162 2981-2985 NCBITaxon:10088 denotes mice
T161 3017-3024 SO:0000704 denotes genetic
T160 3051-3056 NCBITaxon:10088 denotes mouse
T159 3129-3134 SP_6;NCBITaxon:9606 denotes human
T158 3164-3169 NCBITaxon:10088 denotes mouse
T157 3209-3213 SO:0000704 denotes gene
T156 3219-3222 SP_2 denotes bat
T155 3253-3258 SP_6;NCBITaxon:9606 denotes human
T154 3287-3294 NCBITaxon:10239 denotes viruses
T153 3314-3319 SP_6;NCBITaxon:9606;PG_10 denotes human
T152 3320-3324 PG_10;PR:000003622 denotes ACE2
T151 3354-3359 SP_6;NCBITaxon:9606 denotes human
T150 3430-3433 SP_2 denotes bat
T149 3461-3469 SP_10 denotes SARS CoV
T148 3473-3479 NCBITaxon:9606 denotes humans
T147 3519-3522 SP_2 denotes bat
T146 3523-3536 NCBITaxon:11118 denotes coronaviruses
T145 3564-3578 SP_2 denotes horseshoe bats
T144 3587-3590 SP_2 denotes bat
T143 3591-3595 SP_10 denotes SARS
T142 3632-3636 G_3;PG_10;PR:000003622 denotes ACE2
T141 3642-3648 NCBITaxon:9606 denotes humans
T140 3669-3683 SP_2 denotes horseshoe bats
T139 3744-3747 SP_2 denotes bat
T138 3748-3752 G_3;PG_10;PR:000003622 denotes ACE2
T137 3753-3757 SO:0000704 denotes gene
T136 3799-3812 SO:0000409 denotes contact sites
T135 3820-3825 SP_6;NCBITaxon:9606;PG_10 denotes human
T134 3826-3830 PG_10;PR:000003622 denotes ACE2
T133 3831-3835 SO:0000704 denotes gene
T132 3857-3865 SP_10 denotes SARS CoV
T131 3949-3952 SP_2 denotes bat
T130 3992-3997 SP_6;NCBITaxon:9606 denotes human
T129 4055-4059 SO:0000704 denotes gene
T128 4065-4068 SP_2 denotes bat
T127 4069-4080 NCBITaxon:11118 denotes coronavirus
T126 4139-4144 NCBITaxon:10239 denotes virus
T125 4152-4157 NCBITaxon:10088 denotes mouse
T124 4171-4179 SP_10 denotes SARS-CoV
T123 4219-4224 NCBITaxon:10239 denotes virus
T122 4254-4259 SP_6;NCBITaxon:9606;PG_10 denotes human
T121 4260-4264 PG_10;PR:000003622 denotes ACE2
T120 4269-4278 GO:0006260 denotes replicate
T119 4290-4295 SP_6;NCBITaxon:9606 denotes human
T118 4296-4302 UBERON:0001005 denotes airway
T117 4350-4358 SP_10 denotes SARS-CoV
T116 4385-4394 GO:0006260 denotes replicate
T115 4425-4430 NCBITaxon:10088 denotes mouse
T114 4431-4436 UBERON:0000170 denotes lungs
T113 4473-4478 NCBITaxon:10239 denotes virus
T112 4479-4486 CHEBI:59132;CHEBI:59132 denotes antigen
T111 4506-4512 UBERON:0001005 denotes airway
T110 4513-4523 UBERON:0000483 denotes epithelium
T109 4539-4543 SP_10 denotes SARS
T108 4587-4591 NCBITaxon:10088 denotes mice
T107 4665-4670 NCBITaxon:10239 denotes virus
T106 4697-4702 NCBITaxon:10239 denotes virus
T105 4721-4726 SP_6;NCBITaxon:9606 denotes human
T104 4727-4731 SP_10;PR:000014459;PG_9 denotes SARS
T103 4732-4733 PG_9 denotes S
T102 4734-4738 SO:0000704 denotes gene
T101 4742-4746 NCBITaxon:10088 denotes mice
T100 4794-4799 NCBITaxon:10239 denotes virus
T99 5110-5117 NCBITaxon:10239 denotes viruses
T98 5193-5196 SP_2 denotes bat
T97 5319-5329 SP_7 denotes SARS-CoV-2
T96 5427-5433 SO:0001026 denotes genome
T95 5517-5527 SP_7 denotes SARS-CoV-2
T94 5572-5577 NCBITaxon:10239 denotes virus
T93 5611-5621 SP_7 denotes SARS-CoV-2
T92 5666-5672 NCBITaxon:9606 denotes humans
T91 5816-5826 SP_7 denotes SARS-CoV-2
T90 6077-6087 SP_7 denotes SARS-CoV-2
T89 6526-6533 NCBITaxon:10239 denotes viruses
T88 6542-6545 SP_2 denotes bat
T87 6637-6647 SP_7 denotes SARS-CoV-2
T86 6716-6726 SP_7 denotes SARS-CoV-2
T85 6778-6781 SP_2 denotes bat
T84 6798-6809 NCBITaxon:11118 denotes coronavirus
T83 6829-6835 NCBITaxon:33208 denotes animal
T82 6928-6938 SP_7 denotes SARS-CoV-2
T81 6975-6985 SP_7 denotes SARS-CoV-2
T80 7026-7033 NCBITaxon:10239 denotes viruses
T79 7133-7142 GO:0065007 denotes regulated
T1 72-82 SP_7 denotes SARS-CoV-2

LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T1 730-736 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T2 1251-1255 Body_part denotes palm http://purl.org/sig/ont/fma/fma24920
T3 1326-1336 Body_part denotes nucleotide http://purl.org/sig/ont/fma/fma82740
T4 1338-1340 Body_part denotes nt http://purl.org/sig/ont/fma/fma82740
T5 1382-1388 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T6 1434-1436 Body_part denotes nt http://purl.org/sig/ont/fma/fma82740
T7 1543-1549 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T8 2409-2413 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402
T9 2430-2438 Body_part denotes backbone http://purl.org/sig/ont/fma/fma13478
T10 2526-2531 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T11 2715-2726 Body_part denotes nucleotides http://purl.org/sig/ont/fma/fma82740
T12 2849-2866 Body_part denotes respiratory tract http://purl.org/sig/ont/fma/fma265130
T13 2955-2959 Body_part denotes lung http://purl.org/sig/ont/fma/fma7195
T14 3135-3140 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T15 3209-3213 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402
T16 3360-3365 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T17 3753-3757 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402
T18 3831-3835 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402
T19 4055-4059 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402
T20 4180-4188 Body_part denotes backbone http://purl.org/sig/ont/fma/fma13478
T21 4303-4308 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T22 4431-4436 Body_part denotes lungs http://purl.org/sig/ont/fma/fma68877
T23 4513-4523 Body_part denotes epithelium http://purl.org/sig/ont/fma/fma9639
T24 4734-4738 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402
T25 5387-5397 Body_part denotes nucleotide http://purl.org/sig/ont/fma/fma82740
T26 5427-5433 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T27 5831-5834 Body_part denotes HIV http://purl.org/sig/ont/fma/fma278683
T28 5929-5932 Body_part denotes HIV http://purl.org/sig/ont/fma/fma278683
T29 6053-6056 Body_part denotes HIV http://purl.org/sig/ont/fma/fma278683
T30 6095-6098 Body_part denotes HIV http://purl.org/sig/ont/fma/fma278683
T31 6392-6400 Body_part denotes backbone http://purl.org/sig/ont/fma/fma13478

LitCovid-PD-UBERON

Id Subject Object Predicate Lexical cue uberon_id
T1 2849-2866 Body_part denotes respiratory tract http://purl.obolibrary.org/obo/UBERON_0000065
T2 2955-2959 Body_part denotes lung http://purl.obolibrary.org/obo/UBERON_0002048
T3 4513-4523 Body_part denotes epithelium http://purl.obolibrary.org/obo/UBERON_0000483

LitCovid_AGAC

Id Subject Object Predicate Lexical cue
p9248s12 2939-2950 MPA denotes replication
p9257s3 4608-4616 PosReg denotes elevated
p9257s4 4617-4636 CPA denotes pathogenic activity

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T1 72-80 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T2 72-76 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T3 186-205 Disease denotes respiratory disease http://purl.obolibrary.org/obo/MONDO_0005087
T4 337-345 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T5 337-341 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T6 462-470 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T7 582-592 Disease denotes COVID-2019 http://purl.obolibrary.org/obo/MONDO_0100096
T8 654-687 Disease denotes severe acute respiratory syndrome http://purl.obolibrary.org/obo/MONDO_0005091
T9 689-693 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T10 705-713 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T11 705-709 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T12 719-727 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T13 719-723 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T14 774-782 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T15 774-778 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T16 955-963 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T17 955-959 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T18 1031-1039 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T19 1031-1035 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T20 1173-1181 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T21 1173-1177 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T22 1220-1228 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T23 1220-1224 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T24 1262-1266 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T25 1467-1475 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T26 1467-1471 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T27 1708-1716 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T28 1708-1712 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T29 1873-1881 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T30 1873-1877 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T31 2043-2051 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T32 2043-2047 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T33 2127-2135 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T34 2127-2131 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T35 2444-2448 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T36 2696-2704 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T37 2696-2700 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T38 2747-2751 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T39 2807-2817 Disease denotes infectious http://purl.obolibrary.org/obo/MONDO_0005550
T40 2827-2831 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T41 2914-2922 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T42 2914-2918 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T43 3461-3465 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T44 3591-3595 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T45 3857-3861 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T46 4171-4179 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T47 4171-4175 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T48 4350-4358 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T49 4350-4354 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T50 4438-4447 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T51 4539-4543 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T52 4727-4731 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T53 5029-5039 Disease denotes COVID-2019 http://purl.obolibrary.org/obo/MONDO_0100096
T54 5319-5327 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T55 5319-5323 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T56 5517-5525 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T57 5517-5521 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T58 5611-5619 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T59 5611-5615 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T60 5816-5824 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T61 5816-5820 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T62 6077-6085 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T63 6077-6081 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T64 6637-6645 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T65 6637-6641 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T66 6716-6724 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T67 6716-6720 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T68 6928-6936 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T69 6928-6932 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T70 6975-6983 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T71 6975-6979 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T1 161-162 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T2 223-226 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T3 312-313 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T4 318-323 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T5 557-560 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T6 751-754 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T7 815-818 http://purl.obolibrary.org/obo/NCBITaxon_9397 denotes bat
T8 1025-1030 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T9 1067-1068 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T10 1095-1096 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T11 1097-1100 http://purl.obolibrary.org/obo/NCBITaxon_9397 denotes bat
T12 1214-1219 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T13 1304-1305 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T14 1461-1466 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T15 1486-1489 http://purl.obolibrary.org/obo/NCBITaxon_9397 denotes bat
T16 1553-1554 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T17 1735-1736 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T18 1793-1794 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T19 1813-1814 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T20 1833-1837 http://purl.obolibrary.org/obo/NCBITaxon_9397 denotes bats
T21 1914-1915 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T22 1943-1949 http://purl.obolibrary.org/obo/NCBITaxon_33208 denotes animal
T23 1963-1967 http://purl.obolibrary.org/obo/NCBITaxon_9397 denotes bats
T24 1972-1978 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes humans
T25 2001-2007 http://purl.obolibrary.org/obo/NCBITaxon_33208 denotes animal
T26 2037-2042 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T27 2296-2297 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T28 2377-2378 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T29 2397-2398 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T30 2399-2402 http://purl.obolibrary.org/obo/NCBITaxon_9397 denotes bat
T31 2409-2413 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene
T32 2442-2443 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T33 2458-2461 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T34 2520-2531 http://purl.obolibrary.org/obo/CLO_0053065 denotes human cells
T35 2733-2738 http://purl.obolibrary.org/obo/CLO_0007836 denotes mouse
T36 2752-2757 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T37 2955-2959 http://purl.obolibrary.org/obo/UBERON_0002048 denotes lung
T38 2955-2959 http://www.ebi.ac.uk/efo/EFO_0000934 denotes lung
T39 2993-2996 http://purl.obolibrary.org/obo/CLO_0007461 denotes M15
T40 3051-3056 http://purl.obolibrary.org/obo/CLO_0007836 denotes mouse
T41 3129-3140 http://purl.obolibrary.org/obo/CLO_0053065 denotes human cells
T42 3164-3169 http://purl.obolibrary.org/obo/CLO_0007836 denotes mouse
T43 3209-3213 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene
T44 3219-3222 http://purl.obolibrary.org/obo/NCBITaxon_9397 denotes bat
T45 3253-3258 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T46 3287-3294 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes viruses
T47 3314-3319 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T48 3328-3329 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T49 3354-3365 http://purl.obolibrary.org/obo/CLO_0053065 denotes human cells
T50 3430-3433 http://purl.obolibrary.org/obo/NCBITaxon_9397 denotes bat
T51 3473-3479 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes humans
T52 3519-3522 http://purl.obolibrary.org/obo/NCBITaxon_9397 denotes bat
T53 3574-3578 http://purl.obolibrary.org/obo/NCBITaxon_9397 denotes bats
T54 3587-3590 http://purl.obolibrary.org/obo/NCBITaxon_9397 denotes bat
T55 3642-3648 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes humans
T56 3679-3683 http://purl.obolibrary.org/obo/NCBITaxon_9397 denotes bats
T57 3744-3747 http://purl.obolibrary.org/obo/NCBITaxon_9397 denotes bat
T58 3753-3757 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene
T59 3758-3761 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T60 3820-3825 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T61 3831-3835 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene
T62 3949-3952 http://purl.obolibrary.org/obo/NCBITaxon_9397 denotes bat
T63 3992-3997 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T64 4055-4059 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene
T65 4065-4068 http://purl.obolibrary.org/obo/NCBITaxon_9397 denotes bat
T66 4128-4129 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T67 4139-4144 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T68 4152-4157 http://purl.obolibrary.org/obo/CLO_0007836 denotes mouse
T69 4219-4224 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T70 4254-4259 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T71 4290-4295 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T72 4296-4302 http://purl.obolibrary.org/obo/UBERON_0001005 denotes airway
T73 4303-4308 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T74 4425-4430 http://purl.obolibrary.org/obo/CLO_0007836 denotes mouse
T75 4431-4436 http://www.ebi.ac.uk/efo/EFO_0000934 denotes lungs
T76 4473-4478 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T77 4506-4512 http://purl.obolibrary.org/obo/UBERON_0001005 denotes airway
T78 4513-4523 http://purl.obolibrary.org/obo/UBERON_0000483 denotes epithelium
T79 4628-4636 http://purl.obolibrary.org/obo/CLO_0001658 denotes activity
T80 4665-4670 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T81 4697-4702 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T82 4721-4726 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T83 4734-4738 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene
T84 4794-4799 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T85 5049-5052 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T86 5110-5117 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes viruses
T87 5193-5196 http://purl.obolibrary.org/obo/NCBITaxon_9397 denotes bat
T88 5572-5577 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T89 5666-5672 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes humans
T90 5749-5750 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T91 5788-5792 http://purl.obolibrary.org/obo/CLO_0008416 denotes peer
T92 5788-5792 http://purl.obolibrary.org/obo/CLO_0050081 denotes peer
T93 5827-5830 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T94 5902-5903 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T95 6384-6385 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T96 6526-6533 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes viruses
T97 6542-6545 http://purl.obolibrary.org/obo/NCBITaxon_9397 denotes bat
T98 6664-6665 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T99 6730-6731 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T100 6776-6777 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T101 6778-6781 http://purl.obolibrary.org/obo/NCBITaxon_9397 denotes bat
T102 6829-6835 http://purl.obolibrary.org/obo/NCBITaxon_33208 denotes animal
T103 7026-7033 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes viruses

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T1 819-823 Chemical denotes beta http://purl.obolibrary.org/obo/CHEBI_10545
T2 1326-1336 Chemical denotes nucleotide http://purl.obolibrary.org/obo/CHEBI_36976
T3 1338-1340 Chemical denotes nt http://purl.obolibrary.org/obo/CHEBI_36976
T4 1434-1436 Chemical denotes nt http://purl.obolibrary.org/obo/CHEBI_36976
T5 2715-2726 Chemical denotes nucleotides http://purl.obolibrary.org/obo/CHEBI_36976
T6 3604-3606 Chemical denotes SL http://purl.obolibrary.org/obo/CHEBI_74815
T7 3953-3955 Chemical denotes SL http://purl.obolibrary.org/obo/CHEBI_74815
T8 4081-4083 Chemical denotes SL http://purl.obolibrary.org/obo/CHEBI_74815
T9 4204-4206 Chemical denotes SL http://purl.obolibrary.org/obo/CHEBI_74815
T10 4366-4368 Chemical denotes SL http://purl.obolibrary.org/obo/CHEBI_74815
T11 4479-4486 Chemical denotes antigen http://purl.obolibrary.org/obo/CHEBI_59132
T12 4770-4772 Chemical denotes SL http://purl.obolibrary.org/obo/CHEBI_74815
T13 5359-5361 Chemical denotes SL http://purl.obolibrary.org/obo/CHEBI_74815
T14 5387-5397 Chemical denotes nucleotide http://purl.obolibrary.org/obo/CHEBI_36976
T15 5557-5559 Chemical denotes SL http://purl.obolibrary.org/obo/CHEBI_74815

LitCovid-PD-GO-BP

Id Subject Object Predicate Lexical cue
T1 2960-2972 http://purl.obolibrary.org/obo/GO_0009405 denotes pathogenesis

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T1 0-82 Sentence denotes No credible evidence supporting claims of the laboratory engineering of SARS-CoV-2
T2 83-113 Sentence denotes Emerging Microbes & Infections
T3 114-118 Sentence denotes S-L.
T4 119-129 Sentence denotes Liu et al.
T5 131-301 Sentence denotes The emergence and outbreak of a newly discovered acute respiratory disease in Wuhan, China, has affected greater than 40,000 people, and killed more than 1,000 as of Feb.
T6 302-311 Sentence denotes 10, 2020.
T7 312-538 Sentence denotes A new human coronavirus, SARS-CoV-2, was quickly identified, and the associated disease is now referred to as coronavirus disease discovered in 2019 (COVID-19) (https://globalbiodefense.com/novel-coronavirus-covid-19-portal/).
T8 539-714 Sentence denotes According to what has been reported [1–3], COVID-2019 seems to have similar clinical manifestations to that of the severe acute respiratory syndrome (SARS) caused by SARS-CoV.
T9 715-882 Sentence denotes The SARS-CoV-2 genome sequence also has ∼80% identity with SARS-CoV, but it is most similar to some bat beta-coronaviruses, with the highest being >96% identity [4,5].
T10 883-990 Sentence denotes Currently, there are speculations, rumours and conspiracy theories that SARS-CoV-2 is of laboratory origin.
T11 991-1188 Sentence denotes Some people have alleged that the human SARS-CoV-2 was leaked directly from a laboratory in Wuhan where a bat CoV (RaTG13) was recently reported, which shared ∼96% homology with the SARS-CoV-2 [4].
T12 1189-1393 Sentence denotes However, as we know, the human SARS-CoV and intermediate host palm civet SARS-like CoV shared 99.8% homology, with a total of 202 single-nucleotide (nt) variations (SNVs) identified across the genome [6].
T13 1394-1719 Sentence denotes Given that there are greater than 1,100 nt differences between the human SARS-CoV-2 and the bat RaTG13-CoV [4], which are distributed throughout the genome in a naturally occurring pattern following the evolutionary characteristics typical of CoVs, it is highly unlikely that RaTG13 CoV is the immediate source of SARS-CoV-2.
T14 1720-1913 Sentence denotes The absence of a logical targeted pattern in the new viral sequences and a close relative in a wildlife species (bats) are the most revealing signs that SARS-CoV-2 evolved by natural evolution.
T15 1914-2054 Sentence denotes A search for an intermediate animal host between bats and humans is needed to identify animal CoVs more closely related to human SARS-CoV-2.
T16 2055-2247 Sentence denotes There is speculation that pangolins might carry CoVs closely related to SARS-CoV-2, but the data to substantiate this is not yet published (https://www.nature.com/articles/d41586-020-00364-2).
T17 2248-2536 Sentence denotes Another claim in Chinese social media points to a Nature Medicine paper published in 2015 [7], which reports the construction of a chimeric CoV with a bat CoV S gene (SHC014) in the backbone of a SARS CoV that has adapted to infect mice (MA15) and is capable of infecting human cells [8].
T18 2537-2728 Sentence denotes However, this claim lacks any scientific basis and must be discounted because of significant divergence in the genetic sequence of this construct with the new SARS-CoV-2 (>5,000 nucleotides).
T19 2729-2882 Sentence denotes The mouse-adapted SARS virus (MA15) [9] was generated by serial passage of an infectious wildtype SARS CoV clone in the respiratory tract of BALB/c mice.
T20 2883-3068 Sentence denotes After 15 passages in mice, the SARS-CoV gained elevated replication and lung pathogenesis in aged mice (hence M15), due to six coding genetic mutations associated with mouse adaptation.
T21 3069-3181 Sentence denotes It is likely that MA15 is highly attenuated to replicate in human cells or patients due to the mouse adaptation.
T22 3182-3374 Sentence denotes It was proposed that the S gene from bat-derived CoV, unlike that from human patients- or civets-derived viruses, was unable to use human ACE2 as a receptor for entry into human cells [10,11].
T23 3375-3487 Sentence denotes Civets were proposed to be an intermediate host of the bat-CoVs, capable of spreading SARS CoV to humans [6,12].
T24 3488-3698 Sentence denotes However, in 2013 several novel bat coronaviruses were isolated from Chinese horseshoe bats and the bat SARS-like or SL-CoV-WIV1 was able to use ACE2 from humans, civets and Chinese horseshoe bats for entry [8].
T25 3699-4004 Sentence denotes Combined with evolutionary evidence that the bat ACE2 gene has been positively selected at the same contact sites as the human ACE2 gene for interacting with SARS CoV [13], it was proposed that an intermediate host may not be necessary and that some bat SL-CoVs may be able to directly infect human hosts.
T26 4005-4189 Sentence denotes To directly address this possibility, the exact S gene from bat coronavirus SL-SHC014 was synthesized and used to generate a chimeric virus in the mouse adapted MA15 SARS-CoV backbone.
T27 4190-4359 Sentence denotes The resultant SL-SHC014-MA15 virus could indeed efficiently use human ACE2 and replicate in primary human airway cells to similar titres as epidemic strains of SARS-CoV.
T28 4360-4596 Sentence denotes While SL-SHC014-MA15 can replicate efficiently in young and aged mouse lungs, infection was attenuated, and less virus antigen was present in the airway epithelium as compared to SARS MA15, which causes lethal outcomes in aged mice [7].
T29 4597-5016 Sentence denotes Due to the elevated pathogenic activity of the SHC014-MA15 chimeric virus relative to MA15 chimeric virus with the original human SARS S gene in mice, such experiments with SL-SHC014-MA15 chimeric virus were later restricted as gain of function (GOF) studies under the US government-mandated pause policy (https://www.nih.gov/about-nih/who-we-are/nih-director/statements/nih-lifts-funding-pause-gain-function-research).
T30 5017-5226 Sentence denotes The current COVID-2019 epidemic has restarted the debate over the risks of constructing such viruses that could have pandemic potential, irrespective of the finding that these bat CoVs already exist in nature.
T31 5227-5434 Sentence denotes Regardless, upon careful phylogenetic analyses by multiple international groups [5,14], the SARS-CoV-2 is undoubtedly distinct from SL-SHC014-MA15, with >6,000 nucleotide differences across the whole genome.
T32 5435-5578 Sentence denotes Therefore, once again there is no credible evidence to support the claim that the SARS-CoV-2 is derived from the chimeric SL-SHC014-MA15 virus.
T33 5579-5898 Sentence denotes There are also rumours that the SARS-CoV-2 was artificially, or intentionally, made by humans in the lab, and this is highlighted in one manuscript submitted to BioRxiv (a manuscript sharing site prior to any peer review), claiming that SARS-CoV-2 has HIV sequence in it and was thus likely generated in the laboratory.
T34 5899-6126 Sentence denotes In a rebuttal paper led by an HIV-1 virologist Dr. Feng Gao, they used careful bioinformatics analyses to demonstrate that the original claim of multiple HIV insertions into the SARS-CoV-2 is not HIV-1 specific but random [15].
T35 6127-6269 Sentence denotes Because of the many concerns raised by the international community, the authors who made the initial claim have already withdrawn this report.
T36 6270-6557 Sentence denotes Evolution is stepwise and accrues mutations gradually over time, whereas synthetic constructs would typically use a known backbone and introduce logical or targeted changes instead of the randomly occurring mutations that are present in naturally isolated viruses such as bat CoV RaTG13.
T37 6558-6692 Sentence denotes In our view, there is currently no credible evidence to support the claim that SARS-CoV-2 originated from a laboratory-engineered CoV.
T38 6693-6841 Sentence denotes It is more likely that SARS-CoV-2 is a recombinant CoV generated in nature between a bat CoV and another coronavirus in an intermediate animal host.
T39 6842-6939 Sentence denotes More studies are needed to explore this possibility and resolve the natural origin of SARS-CoV-2.
T40 6940-7187 Sentence denotes We should emphasize that, although SARS-CoV-2 shows no evidence of laboratory origin, viruses with such great public health threats must be handled properly in the laboratory and also properly regulated by the scientific community and governments.
T41 7189-7209 Sentence denotes Disclosure statement
T42 7210-7274 Sentence denotes No potential conflict of interest was reported by the author(s).
T43 7276-7281 Sentence denotes ORCID
T44 7282-7290 Sentence denotes Susan R.
T45 7291-7333 Sentence denotes Weiss http://orcid.org/0000-0002-8155-4528