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PMC:7060195 / 446-9466 JSONTXT

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LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
30 15-37 Species denotes 2019-novel coronavirus Tax:2697049
31 39-49 Species denotes SARS-CoV-2 Tax:2697049
32 475-481 Species denotes people Tax:9606
33 531-536 Species denotes human Tax:9606
34 540-545 Species denotes human Tax:9606
35 794-804 Species denotes SARS-CoV-2 Tax:2697049
36 940-948 Species denotes patients Tax:9606
37 1149-1159 Species denotes SARS-CoV-2 Tax:2697049
38 72-81 Disease denotes pneumonia MESH:D011014
39 83-91 Disease denotes COVID-19 MESH:C000657245
40 391-412 Disease denotes SARS-CoV-2 infections MESH:C000657245
41 487-491 Disease denotes died MESH:D003643
42 503-511 Disease denotes COVID-19 MESH:C000657245
43 669-678 Disease denotes pneumonia MESH:D011014
44 862-867 Disease denotes Fever MESH:D005334
45 869-878 Disease denotes dry cough MESH:D003371
46 884-891 Disease denotes fatigue MESH:D005221
47 924-932 Disease denotes COVID-19 MESH:C000657245
48 954-965 Disease denotes lymphopenia MESH:D008231
49 1119-1132 Disease denotes viral disease MESH:D001102
52 3238-3244 Species denotes humans Tax:9606
53 3271-3279 Disease denotes toxicity MESH:D064420
64 1454-1458 Gene denotes Hu-1 Gene:3215
65 1436-1446 Species denotes SARS-CoV-2 Tax:2697049
66 1617-1627 Species denotes SARS-CoV-2 Tax:2697049
67 1933-1943 Species denotes SARS-CoV-2 Tax:2697049
68 2336-2346 Species denotes SARS-CoV-2 Tax:2697049
69 1405-1414 Species denotes influenza Tax:11320
70 1788-1800 Chemical denotes formaldehyde MESH:D005557
71 1806-1821 Chemical denotes β-propiolactone MESH:D011420
72 1994-2005 Disease denotes lung injury MESH:D055370
73 1567-1577 CellLine denotes MN908947.3 CVCL:U508
99 4101-4102 Gene denotes E Gene:43740570
100 4105-4113 Gene denotes membrane Gene:43740571
101 4115-4116 Gene denotes M Gene:43740571
102 4133-4134 Gene denotes N Gene:43740575
103 4141-4146 Gene denotes spike Gene:43740568
104 4148-4149 Gene denotes S Gene:43740568
105 4245-4248 Gene denotes CD4 Gene:920
106 4250-4253 Gene denotes CD8 Gene:925
107 4119-4131 Gene denotes nucleocapsid Gene:43740575
108 3449-3459 Species denotes SARS-CoV-2 Tax:2697049
109 3698-3708 Species denotes SARS-CoV-2 Tax:2697049
110 3730-3738 Species denotes SARS-CoV Tax:694009
111 3743-3798 Species denotes Middle East respiratory syndrome coronavirus (MERS-CoV) Tax:1335626
112 4042-4052 Species denotes SARS-CoV-2 Tax:2697049
113 4402-4411 Disease denotes hepatitis MESH:D056486
114 3502-3512 CellLine denotes MN908947.3 CVCL:U508
115 3514-3524 CellLine denotes MN975262.1 CVCL:U508
116 3539-3549 CellLine denotes MN997409.1 CVCL:U508
117 3551-3561 CellLine denotes MN985325.1 CVCL:U508
118 3563-3573 CellLine denotes MN988669.1 CVCL:U508
119 3575-3585 CellLine denotes MN988668.1 CVCL:U508
120 3587-3597 CellLine denotes MN994468.1 CVCL:U508
121 3599-3609 CellLine denotes MN994467.1 CVCL:U508
122 3611-3621 CellLine denotes MN988713.1 CVCL:U508
123 3627-3637 CellLine denotes MN938384.1 CVCL:U508
152 6285-6316 Gene denotes angiotensin-converting enzyme 2 Gene:59272
153 6318-6322 Gene denotes ACE2 Gene:59272
154 5606-5607 Gene denotes S Gene:43740568
155 5540-5541 Gene denotes S Gene:43740568
156 4925-4936 Species denotes coronavirus Tax:11118
157 5045-5049 Species denotes CoVs Tax:11118
158 5114-5122 Species denotes SARS-CoV Tax:694009
159 5126-5134 Species denotes MERS-CoV Tax:1335626
160 5281-5289 Species denotes SARS-CoV Tax:694009
161 5333-5336 Species denotes CoV Tax:11118
162 5459-5469 Species denotes SARS-CoV-2 Tax:2697049
163 5545-5555 Species denotes SARS-CoV-2 Tax:2697049
164 5629-5639 Species denotes SARS-CoV-2 Tax:2697049
165 5755-5765 Species denotes SARS-CoV-2 Tax:2697049
166 5815-5824 Species denotes SARS-CoVs Tax:694009
167 6124-6141 Species denotes influenza A virus Tax:11320
168 6354-6363 Species denotes 2019-nCoV Tax:2697049
169 6403-6408 Species denotes human Tax:9606
170 6409-6418 Species denotes SARS-CoVs Tax:694009
171 6891-6900 Species denotes SARS-CoVs Tax:694009
172 6950-6971 Species denotes African green monkeys Tax:9534
173 7006-7014 Species denotes SARS-CoV Tax:694009
174 7059-7067 Species denotes SARS-CoV Tax:694009
175 7097-7105 Species denotes SARS-CoV Tax:694009
176 7290-7300 Species denotes SARS-CoV-2 Tax:2697049
177 6004-6013 Species denotes influenza Tax:11320
178 5501-5510 Disease denotes infection MESH:D007239
179 6693-6708 Disease denotes viral infection MESH:D001102
184 7987-7995 Gene denotes membrane Gene:43740571
185 7644-7654 Species denotes SARS-CoV-2 Tax:2697049
186 7786-7796 Species denotes SARS-CoV-2 Tax:2697049
187 7577-7604 Disease denotes respiratory tract infection MESH:D012141
193 8314-8316 Gene denotes S1
194 8519-8522 Gene denotes GSK
195 8351-8361 Species denotes SARS-CoV-2 Tax:2697049
196 8927-8937 Species denotes SARS-CoV-2 Tax:2697049
197 8178-8186 Disease denotes COVID-19 MESH:C000657245

LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T1 1012-1017 Body_part denotes chest http://purl.org/sig/ont/fma/fma9576
T2 1994-1998 Body_part denotes lung http://purl.org/sig/ont/fma/fma7195
T3 2026-2036 Body_part denotes neutrophil http://purl.org/sig/ont/fma/fma62860
T4 2077-2085 Body_part denotes cytokine http://purl.org/sig/ont/fma/fma84050
T5 3133-3136 Body_part denotes DNA http://purl.org/sig/ont/fma/fma74412
T6 3283-3287 Body_part denotes mRNA http://purl.org/sig/ont/fma/fma67122
T7 3460-3467 Body_part denotes genomes http://purl.org/sig/ont/fma/fma84116
T8 3847-3850 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T9 3864-3870 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T10 3889-3900 Body_part denotes nucleotides http://purl.org/sig/ont/fma/fma82740
T11 4073-4081 Body_part denotes proteins http://purl.org/sig/ont/fma/fma67257
T12 4164-4172 Body_part denotes proteins http://purl.org/sig/ont/fma/fma67257
T13 4257-4261 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T14 4516-4519 Body_part denotes DNA http://purl.org/sig/ont/fma/fma74412
T15 4524-4528 Body_part denotes mRNA http://purl.org/sig/ont/fma/fma67122
T16 4864-4872 Body_part denotes proteins http://purl.org/sig/ont/fma/fma67257
T17 4948-4955 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T18 4979-4982 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T19 5010-5017 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T20 5152-5159 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T21 5200-5207 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T22 5253-5260 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T23 5261-5264 Body_part denotes DNA http://purl.org/sig/ont/fma/fma74412
T24 5318-5325 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T25 5448-5455 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T26 5527-5539 Body_part denotes glycoprotein http://purl.org/sig/ont/fma/fma62925
T27 5618-5625 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T28 5723-5730 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T29 5863-5870 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T30 5956-5966 Body_part denotes Antibodies http://purl.org/sig/ont/fma/fma62871
T31 6262-6267 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T32 6343-6350 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T33 6456-6467 Body_part denotes amino acids http://purl.org/sig/ont/fma/fma82739
T34 6782-6789 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T35 6818-6826 Body_part denotes antibody http://purl.org/sig/ont/fma/fma62871
T36 6995-7002 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T37 7110-7118 Body_part denotes proteins http://purl.org/sig/ont/fma/fma67257
T38 7577-7594 Body_part denotes respiratory tract http://purl.org/sig/ont/fma/fma265130
T39 7826-7829 Body_part denotes DNA http://purl.org/sig/ont/fma/fma74412
T40 7856-7859 Body_part denotes DNA http://purl.org/sig/ont/fma/fma74412
T41 8317-8324 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T42 8957-8961 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402

LitCovid-PD-UBERON

Id Subject Object Predicate Lexical cue uberon_id
T1 1012-1017 Body_part denotes chest http://purl.obolibrary.org/obo/UBERON_0001443
T2 1600-1605 Body_part denotes scale http://purl.obolibrary.org/obo/UBERON_0002542
T3 1994-1998 Body_part denotes lung http://purl.obolibrary.org/obo/UBERON_0002048
T4 7577-7594 Body_part denotes respiratory tract http://purl.obolibrary.org/obo/UBERON_0000065

LitCovid-PD-HP

Id Subject Object Predicate Lexical cue hp_id
T2 72-81 Phenotype denotes pneumonia http://purl.obolibrary.org/obo/HP_0002090
T3 669-678 Phenotype denotes pneumonia http://purl.obolibrary.org/obo/HP_0002090
T4 862-867 Phenotype denotes Fever http://purl.obolibrary.org/obo/HP_0001945
T5 869-878 Phenotype denotes dry cough http://purl.obolibrary.org/obo/HP_0031246
T6 884-891 Phenotype denotes fatigue http://purl.obolibrary.org/obo/HP_0012378
T7 954-965 Phenotype denotes lymphopenia http://purl.obolibrary.org/obo/HP_0001888
T8 4402-4411 Phenotype denotes hepatitis http://purl.obolibrary.org/obo/HP_0012115
T9 7577-7604 Phenotype denotes respiratory tract infection http://purl.obolibrary.org/obo/HP_0011947

LitCovid_AGAC

Id Subject Object Predicate Lexical cue
p10944s31 2007-2017 NegReg denotes diminished
p10944s33 2026-2043 CPA denotes neutrophil influx
p10944s41 2077-2097 MPA denotes cytokine expressions
p10963s4 5018-5027 NegReg denotes abrogated
p10963s6 5032-5041 MPA denotes virulence

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T6 39-47 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T7 72-81 Disease denotes pneumonia http://purl.obolibrary.org/obo/MONDO_0005249
T8 83-91 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T9 391-399 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T10 402-412 Disease denotes infections http://purl.obolibrary.org/obo/MONDO_0005550
T11 503-511 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T12 669-678 Disease denotes pneumonia http://purl.obolibrary.org/obo/MONDO_0005249
T13 794-802 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T14 954-965 Disease denotes lymphopenia http://purl.obolibrary.org/obo/MONDO_0003783
T15 1119-1132 Disease denotes viral disease http://purl.obolibrary.org/obo/MONDO_0005108
T16 1149-1157 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T17 1405-1414 Disease denotes influenza http://purl.obolibrary.org/obo/MONDO_0005812
T18 1436-1444 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T19 1617-1625 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T20 1933-1941 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T21 1999-2005 Disease denotes injury http://purl.obolibrary.org/obo/MONDO_0021178
T22 2336-2344 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T23 3449-3457 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T24 3698-3706 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T25 3730-3738 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T26 4042-4050 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T27 4402-4413 Disease denotes hepatitis B http://purl.obolibrary.org/obo/MONDO_0005344
T28 4402-4411 Disease denotes hepatitis http://purl.obolibrary.org/obo/MONDO_0002251
T29 5114-5122 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T30 5281-5289 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T31 5459-5467 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T32 5545-5553 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T33 5629-5637 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T34 5755-5763 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T35 5815-5819 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T36 6004-6013 Disease denotes influenza http://purl.obolibrary.org/obo/MONDO_0005812
T37 6124-6133 Disease denotes influenza http://purl.obolibrary.org/obo/MONDO_0005812
T38 6409-6413 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T39 6693-6708 Disease denotes viral infection http://purl.obolibrary.org/obo/MONDO_0005108
T40 6699-6708 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T41 6719-6723 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T42 6891-6895 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T43 7006-7014 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T44 7059-7067 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T45 7097-7105 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T46 7290-7298 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T47 7577-7604 Disease denotes respiratory tract infection http://purl.obolibrary.org/obo/MONDO_0024355
T48 7595-7604 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T49 7644-7652 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T50 7786-7794 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T51 8178-8186 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T52 8351-8359 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T53 8927-8935 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T4 93-96 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T5 140-143 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T6 362-363 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T7 528-536 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes by human
T8 540-545 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T9 564-565 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T10 853-854 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T11 1012-1017 http://www.ebi.ac.uk/efo/EFO_0000965 denotes chest
T12 1104-1105 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T13 1208-1213 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T14 1291-1296 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T15 1670-1675 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T16 1854-1859 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T17 1994-1998 http://purl.obolibrary.org/obo/UBERON_0002048 denotes lung
T18 1994-1998 http://www.ebi.ac.uk/efo/EFO_0000934 denotes lung
T19 2166-2171 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T20 2314-2322 http://purl.obolibrary.org/obo/PR_000018263 denotes peptides
T21 2504-2509 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T22 2657-2662 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T23 3238-3244 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes humans
T24 3668-3673 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T25 3851-3856 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T26 3862-3863 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T27 4033-4034 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T28 4053-4056 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T29 4105-4113 http://purl.obolibrary.org/obo/UBERON_0000158 denotes membrane
T30 4245-4248 http://purl.obolibrary.org/obo/PR_000001004 denotes CD4
T31 4250-4253 http://purl.obolibrary.org/obo/CLO_0053438 denotes CD8
T32 4255-4261 http://purl.obolibrary.org/obo/CL_0000084 denotes T-cell
T33 4412-4413 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T34 4491-4497 http://purl.obolibrary.org/obo/UBERON_0000473 denotes tested
T35 4923-4924 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T36 5140-5141 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T37 5369-5370 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T38 5575-5580 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T39 5676-5678 http://purl.obolibrary.org/obo/CLO_0050050 denotes S1
T40 5684-5686 http://purl.obolibrary.org/obo/CLO_0001627 denotes aa
T41 5692-5694 http://purl.obolibrary.org/obo/CLO_0008922 denotes S2
T42 5692-5694 http://purl.obolibrary.org/obo/CLO_0050052 denotes S2
T43 5700-5702 http://purl.obolibrary.org/obo/CLO_0001627 denotes aa
T44 5720-5722 http://purl.obolibrary.org/obo/CLO_0008922 denotes S2
T45 5720-5722 http://purl.obolibrary.org/obo/CLO_0050052 denotes S2
T46 5766-5773 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes viruses
T47 5811-5814 http://purl.obolibrary.org/obo/NCBITaxon_9397 denotes bat
T48 5860-5862 http://purl.obolibrary.org/obo/CLO_0008922 denotes S2
T49 5860-5862 http://purl.obolibrary.org/obo/CLO_0050052 denotes S2
T50 5930-5937 http://purl.obolibrary.org/obo/UBERON_0000473 denotes testing
T51 5941-5947 http://purl.obolibrary.org/obo/NCBITaxon_33208 denotes animal
T52 6134-6135 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T53 6162-6164 http://purl.obolibrary.org/obo/CLO_0050050 denotes S1
T54 6235-6240 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T55 6262-6267 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T56 6340-6342 http://purl.obolibrary.org/obo/CLO_0050050 denotes S1
T57 6403-6408 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T58 6573-6578 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T59 6633-6634 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T60 6635-6640 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T61 6656-6657 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T62 6852-6853 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T63 6964-6971 http://purl.obolibrary.org/obo/NCBITaxon_9479 denotes monkeys
T64 7024-7031 http://purl.obolibrary.org/obo/NCBITaxon_9479 denotes monkeys
T65 7210-7216 http://purl.obolibrary.org/obo/NCBITaxon_33208 denotes animal
T66 7276-7278 http://purl.obolibrary.org/obo/CLO_0050050 denotes S1
T67 7369-7375 http://purl.obolibrary.org/obo/UBERON_0000473 denotes tested
T68 7566-7567 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T69 7819-7820 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T70 7886-7891 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T71 7960-7968 http://purl.obolibrary.org/obo/NCBITaxon_2 denotes bacteria
T72 7987-7995 http://purl.obolibrary.org/obo/UBERON_0000158 denotes membrane
T73 8121-8126 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T74 8214-8219 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T75 8314-8316 http://purl.obolibrary.org/obo/CLO_0050050 denotes S1
T76 8560-8561 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T77 8705-8706 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T78 8921-8922 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T79 8957-8961 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene
T80 8983-8990 http://purl.obolibrary.org/obo/UBERON_0000473 denotes testing

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T3 1043-1052 Chemical denotes antiviral http://purl.obolibrary.org/obo/CHEBI_22587
T4 1788-1800 Chemical denotes formaldehyde http://purl.obolibrary.org/obo/CHEBI_16842
T5 2306-2313 Chemical denotes antigen http://purl.obolibrary.org/obo/CHEBI_59132
T6 2314-2322 Chemical denotes peptides http://purl.obolibrary.org/obo/CHEBI_16670
T7 2994-3003 Chemical denotes adjuvants http://purl.obolibrary.org/obo/CHEBI_60809
T8 3133-3136 Chemical denotes DNA http://purl.obolibrary.org/obo/CHEBI_16991
T9 3889-3900 Chemical denotes nucleotides http://purl.obolibrary.org/obo/CHEBI_36976
T10 4073-4081 Chemical denotes proteins http://purl.obolibrary.org/obo/CHEBI_36080
T11 4164-4172 Chemical denotes proteins http://purl.obolibrary.org/obo/CHEBI_36080
T12 4186-4194 Chemical denotes antigens http://purl.obolibrary.org/obo/CHEBI_59132
T13 4346-4355 Chemical denotes adjuvants http://purl.obolibrary.org/obo/CHEBI_60809
T14 4422-4429 Chemical denotes antigen http://purl.obolibrary.org/obo/CHEBI_59132
T15 4516-4519 Chemical denotes DNA http://purl.obolibrary.org/obo/CHEBI_16991
T16 4789-4797 Chemical denotes antigens http://purl.obolibrary.org/obo/CHEBI_59132
T17 4864-4872 Chemical denotes proteins http://purl.obolibrary.org/obo/CHEBI_36080
T18 4948-4955 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T19 5010-5017 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T20 5152-5159 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T21 5200-5207 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T22 5253-5260 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T23 5261-5264 Chemical denotes DNA http://purl.obolibrary.org/obo/CHEBI_16991
T24 5318-5325 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T25 5448-5455 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T26 5527-5539 Chemical denotes glycoprotein http://purl.obolibrary.org/obo/CHEBI_17089
T27 5618-5625 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T28 5692-5694 Chemical denotes S2 http://purl.obolibrary.org/obo/CHEBI_29387
T29 5720-5722 Chemical denotes S2 http://purl.obolibrary.org/obo/CHEBI_29387
T30 5723-5730 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T31 5860-5862 Chemical denotes S2 http://purl.obolibrary.org/obo/CHEBI_29387
T32 5863-5870 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T33 5900-5909 Chemical denotes antiviral http://purl.obolibrary.org/obo/CHEBI_22587
T34 6285-6296 Chemical denotes angiotensin http://purl.obolibrary.org/obo/CHEBI_48433
T35 6343-6350 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T36 6456-6467 Chemical denotes amino acids http://purl.obolibrary.org/obo/CHEBI_33709
T37 6456-6461 Chemical denotes amino http://purl.obolibrary.org/obo/CHEBI_46882
T38 6462-6467 Chemical denotes acids http://purl.obolibrary.org/obo/CHEBI_37527
T39 6782-6789 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T40 6995-7002 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T41 7110-7118 Chemical denotes proteins http://purl.obolibrary.org/obo/CHEBI_36080
T42 7543-7552 Chemical denotes antiviral http://purl.obolibrary.org/obo/CHEBI_22587
T43 7826-7829 Chemical denotes DNA http://purl.obolibrary.org/obo/CHEBI_16991
T44 7856-7859 Chemical denotes DNA http://purl.obolibrary.org/obo/CHEBI_16991
T45 8317-8324 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T46 8460-8469 Chemical denotes adjuvants http://purl.obolibrary.org/obo/CHEBI_60809
T47 8478-8482 Chemical denotes alum http://purl.obolibrary.org/obo/CHEBI_74768
T48 8497-8506 Chemical denotes adjuvants http://purl.obolibrary.org/obo/CHEBI_60809
T49 8536-8545 Chemical denotes adjuvants http://purl.obolibrary.org/obo/CHEBI_60809

LitCovid-PD-GO-BP

Id Subject Object Predicate Lexical cue
T1 1957-1969 http://purl.obolibrary.org/obo/GO_0009405 denotes pathogenesis
T2 2703-2719 http://purl.obolibrary.org/obo/GO_0006955 denotes immune responses
T3 2873-2897 http://purl.obolibrary.org/obo/GO_0006959 denotes humoral immune responses
T4 3066-3090 http://purl.obolibrary.org/obo/GO_0006959 denotes humoral immune responses
T5 3218-3234 http://purl.obolibrary.org/obo/GO_0006955 denotes immune responses
T6 3358-3374 http://purl.obolibrary.org/obo/GO_0006955 denotes immune responses
T7 3971-3980 http://purl.obolibrary.org/obo/GO_0009058 denotes synthesis
T8 4905-4919 http://purl.obolibrary.org/obo/GO_0019068 denotes viral assembly
T9 5032-5041 http://purl.obolibrary.org/obo/GO_0016032 denotes virulence
T10 5032-5041 http://purl.obolibrary.org/obo/GO_0009405 denotes virulence
T11 5224-5239 http://purl.obolibrary.org/obo/GO_0006955 denotes immune response
T12 6693-6708 http://purl.obolibrary.org/obo/GO_0016032 denotes viral infection
T13 7735-7759 http://purl.obolibrary.org/obo/GO_0002385 denotes mucosal immune responses
T14 8821-8837 http://purl.obolibrary.org/obo/GO_0006955 denotes immune responses

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T5 0-187 Sentence denotes An outbreak of 2019-novel coronavirus (SARS-CoV-2) that causes atypical pneumonia (COVID-19) has raged in China since mid-December 2019 and has spread to 26 countries (February 20, 2020).
T6 188-361 Sentence denotes The epidemic was identified by the first four cases confirmed on December 29, 2019 and was traced to the Huanan Seafood Wholesale Market, Wuhan city, Hubei Province, China1.
T7 362-502 Sentence denotes A total of 75,465 cases with SARS-CoV-2 infections have been confirmed up to date (February 20, 2020), and 2,236 people have died in China2.
T8 503-712 Sentence denotes COVID-19 spreads rapidly by human-to-human transmission with a median incubation period of 3.0 days (range, 0 to 24.0), and the time from symptom onset to developing pneumonia is 4.0 days (range, 2.0 to 7.0)3.
T9 713-861 Sentence denotes Respiratory droplets and direct contact are conventional transmission routes for SARS-CoV-2, and fecal-to-oral transmission might also have a role3.
T10 862-934 Sentence denotes Fever, dry cough, and fatigue are common symptoms at onset of COVID-194.
T11 935-1030 Sentence denotes Most patients have lymphopenia and bilateral ground-glass opacity changes on chest CT scans4,5.
T12 1031-1133 Sentence denotes No specific antiviral treatments or vaccines are available because it is a new emerging viral disease.
T13 1134-1196 Sentence denotes Development of SARS-CoV-2-based vaccines is urgently required.
T14 1197-1425 Sentence denotes The entire virus particle-based preparation of vaccines, including inactivated and attenuated virus vaccines is advisable, because it is based on previous studies about the prevention and control of seasonal influenza vaccines6.
T15 1426-1566 Sentence denotes The first SARS-CoV-2 (Wuhan-Hu-1) was successfully sequenced and its genomic sequence submitted to GenBank on January 5, 2020 (Accession no.
T16 1567-1580 Sentence denotes MN908947.3)7.
T17 1581-1823 Sentence denotes Subsequently large-scale culture of SARS-CoV-2 was quickly performed, and an inactivated virus vaccine could be prepared through the employment of established physical and chemical methods such as UV light, formaldehyde, and β-propiolactone8.
T18 1824-2133 Sentence denotes The development of attenuated-virus vaccines is also possible by carefully screening the serially propagated SARS-CoV-2 with reduced pathogenesis such as induced minimal lung injury, diminished limited neutrophil influx, and increased anti-inflammatory cytokine expressions compared with the wild-type virus9.
T19 2134-2237 Sentence denotes Both inactivated and attenuated virus vaccines have their own disadvantages and side effects (Table 1).
T20 2238-2368 Sentence denotes Alternatively, new vaccine designs based on the putative protective antigen/peptides derived from SARS-CoV-2 should be considered.
T21 2369-2438 Sentence denotes Table 1 Advantages and disadvantages of different vaccine strategies.
T22 2439-2491 Sentence denotes Vaccine strategy Advantages Disadvantages References
T23 2492-2645 Sentence denotes Inactivated virus vaccines Easy to prepare; safety; high-titer neutralizing antibodies Potential inappropriate for highly immunosuppressed individuals 25
T24 2646-2795 Sentence denotes Attenuated virus vaccines Rapid development; induce high immune responses Phenotypic or genotypic reversion possible; can still cause some disease 25
T25 2796-3009 Sentence denotes Subunit vaccines High safety; consistent production; can induce cellular and humoral immune responses; high-titer neutralizing antibodies High cost; lower immunogenicity; require repeated doses and adjuvants 12,14
T26 3010-3132 Sentence denotes Viral vector vaccines Safety; induces high cellular and humoral immune responses Possibly present pre-existing immunity 12
T27 3133-3282 Sentence denotes DNA vaccines Easier to design; high safety; high-titer neutralizing antibodies Lower immune responses in humans; repeated doses may cause toxicity 23
T28 3283-3424 Sentence denotes mRNA vaccines Easier to design; high degree of adaptability; induce strong immune responses Highly unstable under physiological conditions 23
T29 3425-3697 Sentence denotes Accumulated releases of SARS-CoV-2 genomes such as GenBank accession numbers MN908947.3, MN975262.1, NC_045512.2, MN997409.1, MN985325.1, MN988669.1, MN988668.1, MN994468.1, MN994467.1, MN988713.1, and MN938384.1 facilitate the development of virus-based subunit vaccines.
T30 3698-4032 Sentence denotes SARS-CoV-2, which is similar to SARS-CoV and Middle East respiratory syndrome coronavirus (MERS-CoV), is an enveloped, single- and positive-stranded RNA virus with a genome comprising 29,891 nucleotides, which encode the 12 putative open reading frames responsible for the synthesis of viral structural and nonstructural proteins7,10.
T31 4033-4153 Sentence denotes A mature SARS-CoV-2 has four structural proteins, namely, envelope (E), membrane (M), nucleocapsid (N), and spike (S)10.
T32 4154-4275 Sentence denotes All these proteins may serve as antigens to stimulate neutralizing antibodies and increase CD4+/CD8+ T-cell responses8,9.
T33 4276-4511 Sentence denotes However, subunit vaccines require multiple booster shots and suitable adjuvants to work, and certain subunit vaccines such as hepatitis B surface antigen, PreS1, and PreS2 may fail to yield protective response when tested clinically11.
T34 4512-4630 Sentence denotes The DNA and mRNA vaccines that are easier to design and proceed into clinical trials very quickly remain experimental.
T35 4631-4728 Sentence denotes The viral vector-based vaccines could also be quickly constructed and used without an adjuvant12.
T36 4729-4851 Sentence denotes However, development of such vaccines might not start until antigens containing the neutralizing epitopes are identified8.
T37 4852-4995 Sentence denotes The E and M proteins have important functions in the viral assembly of a coronavirus, and the N protein is necessary for viral RNA synthesis13.
T38 4996-5193 Sentence denotes Deletion of E protein abrogated the virulence of CoVs, and several studies have explored the potential of recombinant SARS-CoV or MERS-CoV with a mutated E protein as live attenuated vaccines13,14.
T39 5194-5513 Sentence denotes The M protein can augment the immune response induced by N protein DNA vaccine against SARS-CoV;15 however, the conserved N protein across CoV families implies that it is not a suitable candidate for vaccine development, and the antibodies against the N protein of SARS-CoV-2 do not provide immunity to the infection16.
T40 5514-5601 Sentence denotes The critical glycoprotein S of SARS-CoV-2 is responsible for virus binding and entry16.
T41 5602-5715 Sentence denotes The S precursor protein of SARS-CoV-2 can be proteolytically cleaved into S1 (685 aa) and S2 (588 aa) subunits10.
T42 5716-5827 Sentence denotes The S2 protein is well conserved among SARS-CoV-2 viruses and shares 99% identity with that of bat SARS-CoVs10.
T43 5828-5955 Sentence denotes The vaccine design based on the S2 protein may boost the broad-spectrum antiviral effect and is worth testing in animal models.
T44 5956-6144 Sentence denotes Antibodies against the conserved stem region of influenza hemagglutinin have been found to exhibit broadly cross-reactive immunity, but are less potent in neutralizing influenza A virus17.
T45 6145-6335 Sentence denotes In contrast, the S1 subunit consists of the receptor-binding domain (RBD), which mediates virus entry into sensitive cells through the host angiotensin-converting enzyme 2 (ACE2) receptor18.
T46 6336-6419 Sentence denotes The S1 protein of 2019-nCoV shares about 70% identity with that of human SARS-CoVs.
T47 6420-6602 Sentence denotes The highest number of variations of amino acids in the RBD is located in the external subdomain, which is responsible for the direct interaction between virus and host receptor10,18.
T48 6603-6709 Sentence denotes Blocking the initial entry of a virus is proposed as a successful strategy in controlling viral infection.
T49 6710-6903 Sentence denotes Based on SARS vaccine development, most vaccine candidates target the S protein, which induces neutralizing antibody responses and stimulates a protective cellular immunity against SARS-CoVs12.
T50 6904-7078 Sentence denotes Bukreyev et al.19 showed that immunization of African green monkeys with the full-length S protein of SARS-CoV protects monkeys from subsequent homologous SARS-CoV challenge.
T51 7079-7226 Sentence denotes Administration of SARS-CoV RBD proteins can also induce highly potent neutralizing antibodies and long-term protective immunity in animal models20.
T52 7227-7428 Sentence denotes Thus, the generation of antibodies targeting the S1 subunit of SARS-CoV-2 would be an important preventive and treatment strategy that can be tested further in suitable models before clinical trials10.
T53 7429-7562 Sentence denotes Vaccine delivery modality and immunization strategy are important issues to be considered for achieving effective antiviral immunity.
T54 7563-7818 Sentence denotes As a cause of respiratory tract infection and as demonstrated by the findings of SARS-CoV-2 in stools1,21, administration of vaccines by oral or aerosol routes will induce mucosal immune responses and are possible modes of SARS-CoV-2 vaccine immunization.
T55 7819-8101 Sentence denotes A safe DNA vector for preparation of DNA vaccines22, an attenuated virus strain for design of chimeric viral vaccines23, and engineered safe bacteria for production of membrane vesicle-vaccines24 could be explored for vaccine delivery and are worth investigating in the near future.
T56 8102-8187 Sentence denotes We can assume that virus-based vaccines should prove valuable in combatting COVID-19.
T57 8188-8408 Sentence denotes In addition to the entire virus particle-associated inactivated or attenuated viral vaccines, the subunit candidates, such as S1 protein and/or the RBD element of SARS-CoV-2, are also valuable targets for vaccine design.
T58 8409-8701 Sentence denotes Combining subunit vaccines with established or new adjuvants such as alum versus modern adjuvants such as the GSK AS series of adjuvants may represent a faster and safer strategy to move through early clinical development with the caveat that the protective efficacy may not be strong enough.
T59 8702-8859 Sentence denotes As a result, immunizing the subunit vaccines with proper delivery platforms and immunization strategies to enhance the immune responses should be considered.
T60 8860-9020 Sentence denotes We expect researchers who are racing against time will bring a new SARS-CoV-2-based vaccine from gene sequence to clinical testing in approximately 16–20 weeks.