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LitCovid-PMC-OGER-BB

Id Subject Object Predicate Lexical cue
T35 14-27 NCBITaxon:11118 denotes Coronaviruses
T36 71-82 NCBITaxon:11118 denotes coronavirus
T37 84-94 SP_7 denotes SARS-CoV-2
T38 96-108 SP_7 denotes severe acute
T39 109-120 SP_7;UBERON:0001004 denotes respiratory
T40 121-143 SP_7 denotes syndrome coronavirus 2
T41 200-207 NCBITaxon:7742 denotes Viruses
T42 290-298 SP_7 denotes COVID-19
T43 309-319 SP_7 denotes SARS-CoV-2
T44 337-352 SP_8;NCBITaxon:694002 denotes Betacoronavirus
T45 366-377 NCBITaxon:11118 denotes coronavirus
T46 393-400 NCBITaxon:10239 denotes viruses
T47 427-440 NCBITaxon:11118 denotes Coronaviridae
T48 485-501 NCBITaxon:7656 denotes Alphacoronavirus
T49 503-518 SP_8;NCBITaxon:694002 denotes Betacoronavirus
T50 520-536 NCBITaxon:86599 denotes Gammacoronavirus
T51 542-558 NCBITaxon:99883 denotes Deltacoronavirus
T52 596-603 NCBITaxon:40674 denotes mammals
T53 605-623 NCBITaxon:86599 denotes gammacoronaviruses
T54 631-636 NCBITaxon:8782 denotes avian
T55 637-644 NCBITaxon:species denotes species
T56 650-668 NCBITaxon:99883 denotes deltacoronaviruses
T57 681-690 NCBITaxon:40674 denotes mammalian
T58 695-700 NCBITaxon:8782 denotes avian
T59 701-708 NCBITaxon:species denotes species
T60 721-734 NCBITaxon:11118 denotes Coronaviruses
T61 776-783 NCBITaxon:10239 denotes viruses
T62 809-824 SO:0000984 denotes single-stranded
T63 829-836 SO:0001026 denotes genomes
T64 859-865 SO:0001026 denotes genome
T65 880-887 NCBITaxon:10239 denotes viruses
T66 929-935 SO:0001026 denotes genome
T67 955-962 SO:0001114 denotes helical
T68 984-1004 PG_4 denotes nucleocapsid protein
T69 1039-1047 GO:0031975 denotes envelope
T70 1069-1080 CL:0000134;UBERON:0003104 denotes Mesenchymal
T71 1081-1091 CL:0000034 denotes stem cells
T72 1102-1110 GO:0046903 denotes secreted
T73 1111-1133 GO:1903561 denotes extracellular vesicles
T74 1186-1190 UBERON:0002048;GO:0030324 denotes lung
T75 1191-1203 GO:0031099 denotes regeneration
T76 1266-1274 SP_7 denotes COVID-19
T77 1276-1289 NCBITaxon:11118 denotes Coronaviruses
T78 1384-1401 GO:0043234 denotes protein complexes
T79 1407-1412 NCBITaxon:10239 denotes virus
T80 1507-1515 GO:0016020 denotes membrane
T81 1549-1554 NCBITaxon:10239 denotes virus
T82 1570-1575 SP_6;NCBITaxon:9606 denotes human
T83 1576-1589 GO:0005886 denotes cell membrane
T84 1604-1610 SO:0001026 denotes genome
T85 1618-1623 NCBITaxon:10239 denotes virus
T86 1652-1663 GO:0006260 denotes replication
T87 1686-1692 SO:0000417 denotes domain
T88 1696-1706 SP_7 denotes SARS-CoV-2
T89 1746-1750 SP_10 denotes SARS
T90 1793-1797 SP_10 denotes SARS
T91 1860-1870 SP_7 denotes SARS-CoV-2
T92 1880-1885 SP_6;NCBITaxon:9606 denotes human
T93 1886-1899 PR:000036008 denotes angiotensin I
T94 1921-1925 PR:000003622;G_3;PG_10 denotes ACE2
T95 1940-1950 GO:0035376 denotes cell entry
T96 2005-2010 SP_6;NCBITaxon:9606 denotes human
T97 2014-2019 SP_6;NCBITaxon:9606 denotes human
T98 2059-2064 NCBITaxon:10239 denotes virus
T99 2119-2124 NCBITaxon:10239 denotes viral
T100 2140-2146 UBERON:0000479 denotes tissue
T101 2175-2181 UBERON:0002405;GO:0006955 denotes immune
T102 2182-2191 GO:0006955 denotes responses
T103 2203-2207 G_3;PG_10;PR:000003622 denotes ACE2
T104 2246-2251 SP_6;NCBITaxon:9606 denotes human
T105 2252-2260 CL:0002063;UBERON:0003215 denotes alveolar
T106 2261-2274 CL:0002212 denotes type II cells
T107 2279-2300 UBERON:0001915 denotes capillary endothelium
T108 2325-2330 UBERON:0000170 denotes lungs
T109 2479-2484 UBERON:0000170 denotes lungs
T110 2579-2583 UBERON:0002048 denotes lung
T111 2656-2664 SP_7 denotes COVID-19
T112 2770-2775 UBERON:0000170 denotes lungs
T113 2847-2852 NCBITaxon:10239 denotes virus
T114 2874-2880 UBERON:0002405;GO:0006955 denotes immune
T115 2881-2889 GO:0006955 denotes response
T116 2936-2941 UBERON:0000170 denotes lungs
T117 2947-2961 GO:0010467 denotes overexpression
T118 2983-2987 PR:000001379 denotes IL-2
T119 2989-2993 PR:000001393 denotes IL-6
T120 2995-2999 PR:000001317 denotes IL-7
T121 3007-3011 PR:000006064 denotes IP10
T122 3013-3017 PR:000002122 denotes MCP1
T123 3019-3024 PR:000002123 denotes MIP1A
T124 3071-3086 GO:0007585 denotes oxygen exchange
T125 3110-3121 UBERON:0001004 denotes respiratory
T126 3171-3178 UBERON:0000948 denotes cardiac
T127 3233-3238 GO:0016265 denotes death
T128 3299-3307 SP_7 denotes COVID-19
T129 3327-3337 CL:0000034 denotes stem cells
T130 3342-3364 GO:1903561 denotes extracellular vesicles
T131 3384-3388 UBERON:0002048 denotes lung
T132 3469-3477 SP_7 denotes COVID-19
T133 3546-3551 UBERON:0000178 denotes blood
T134 3552-3563 GO:0015671 denotes oxygenation
T135 3622-3630 SP_7 denotes COVID-19
T136 3684-3688 GO:0016265 denotes died
T137 3796-3804 SP_7 denotes COVID-19
T138 4014-4023 UBERON:0002048 denotes pulmonary
T139 4050-4059 UBERON:0002048 denotes pulmonary
T140 4153-4171 UBERON:0001004 denotes respiratory system
T141 4258-4266 SP_7 denotes COVID-19
T142 4275-4279 UBERON:0002048 denotes lung
T143 4543-4554 CL:0000134;UBERON:0003104 denotes Mesenchymal
T144 4555-4559 CL:0002540 denotes stem
T145 4560-4567 UBERON:0003891;CL:0000499 denotes stromal
T146 4568-4573 CL:0000499 denotes cells
T147 4575-4579 DG_47 denotes MSCs
T148 4781-4789 SP_7 denotes COVID-19
T149 4852-4856 DG_47 denotes MSCs
T150 4873-4882 GO:0031099 denotes repair of
T151 4891-4897 UBERON:0000479 denotes tissue
T152 4929-4933 UBERON:0002048 denotes lung
T153 4954-4962 SP_7 denotes COVID-19
T154 4977-4981 DG_47 denotes MSCs
T155 5011-5022 UBERON:0001986 denotes endothelial
T156 5023-5028 UBERON:0006314 denotes fluid
T157 5050-5058 UBERON:0003215 denotes alveolar
T158 5059-5068 UBERON:0001982 denotes capillary
T159 5125-5129 UBERON:0002048 denotes lung
T160 5200-5212 UBERON:0005169 denotes interstitial
T161 5213-5217 UBERON:0002048 denotes lung
T57925 14-27 NCBITaxon:11118 denotes Coronaviruses
T75127 71-82 NCBITaxon:11118 denotes coronavirus
T75197 84-94 SP_7 denotes SARS-CoV-2
T42446 96-108 SP_7 denotes severe acute
T60904 109-120 SP_7;UBERON:0001004 denotes respiratory
T45940 121-143 SP_7 denotes syndrome coronavirus 2
T99103 200-207 NCBITaxon:7742 denotes Viruses
T55634 290-298 SP_7 denotes COVID-19
T14423 309-319 SP_7 denotes SARS-CoV-2
T90257 337-352 SP_8;NCBITaxon:694002 denotes Betacoronavirus
T19578 366-377 NCBITaxon:11118 denotes coronavirus
T80839 393-400 NCBITaxon:10239 denotes viruses
T43226 427-440 NCBITaxon:11118 denotes Coronaviridae
T2116 485-501 NCBITaxon:7656 denotes Alphacoronavirus
T78490 503-518 SP_8;NCBITaxon:694002 denotes Betacoronavirus
T70150 520-536 NCBITaxon:86599 denotes Gammacoronavirus
T95904 542-558 NCBITaxon:99883 denotes Deltacoronavirus
T51695 596-603 NCBITaxon:40674 denotes mammals
T58366 605-623 NCBITaxon:86599 denotes gammacoronaviruses
T92179 631-636 NCBITaxon:8782 denotes avian
T16494 637-644 NCBITaxon:species denotes species
T36564 650-668 NCBITaxon:99883 denotes deltacoronaviruses
T46781 681-690 NCBITaxon:40674 denotes mammalian
T92738 695-700 NCBITaxon:8782 denotes avian
T77692 701-708 NCBITaxon:species denotes species
T7936 721-734 NCBITaxon:11118 denotes Coronaviruses
T3297 776-783 NCBITaxon:10239 denotes viruses
T40228 809-824 SO:0000984 denotes single-stranded
T88332 829-836 SO:0001026 denotes genomes
T73059 859-865 SO:0001026 denotes genome
T59045 880-887 NCBITaxon:10239 denotes viruses
T65134 929-935 SO:0001026 denotes genome
T25336 955-962 SO:0001114 denotes helical
T29731 984-1004 PG_4 denotes nucleocapsid protein
T63502 1039-1047 GO:0031975 denotes envelope
T5606 1069-1080 CL:0000134;UBERON:0003104 denotes Mesenchymal
T74927 1081-1091 CL:0000034 denotes stem cells
T49166 1102-1110 GO:0046903 denotes secreted
T6343 1111-1133 GO:1903561 denotes extracellular vesicles
T1350 1186-1190 UBERON:0002048;GO:0030324 denotes lung
T24404 1191-1203 GO:0031099 denotes regeneration
T16334 1266-1274 SP_7 denotes COVID-19
T44924 1276-1289 NCBITaxon:11118 denotes Coronaviruses
T10237 1384-1401 GO:0043234 denotes protein complexes
T32355 1407-1412 NCBITaxon:10239 denotes virus
T79544 1507-1515 GO:0016020 denotes membrane
T42758 1549-1554 NCBITaxon:10239 denotes virus
T20161 1570-1575 SP_6;NCBITaxon:9606 denotes human
T43896 1576-1589 GO:0005886 denotes cell membrane
T99730 1604-1610 SO:0001026 denotes genome
T26328 1618-1623 NCBITaxon:10239 denotes virus
T27949 1652-1663 GO:0006260 denotes replication
T60357 1686-1692 SO:0000417 denotes domain
T78293 1696-1706 SP_7 denotes SARS-CoV-2
T17634 1746-1750 SP_10 denotes SARS
T54334 1793-1797 SP_10 denotes SARS
T61458 1860-1870 SP_7 denotes SARS-CoV-2
T705 1880-1885 SP_6;NCBITaxon:9606 denotes human
T20113 1886-1899 PR:000036008 denotes angiotensin I
T25995 1921-1925 PR:000003622;G_3;PG_10 denotes ACE2
T34070 1940-1950 GO:0035376 denotes cell entry
T67183 2005-2010 SP_6;NCBITaxon:9606 denotes human
T16190 2014-2019 SP_6;NCBITaxon:9606 denotes human
T40790 2059-2064 NCBITaxon:10239 denotes virus
T15515 2119-2124 NCBITaxon:10239 denotes viral
T4842 2140-2146 UBERON:0000479 denotes tissue
T9679 2175-2181 UBERON:0002405;GO:0006955 denotes immune
T78484 2182-2191 GO:0006955 denotes responses
T30809 2203-2207 G_3;PG_10;PR:000003622 denotes ACE2
T97298 2246-2251 SP_6;NCBITaxon:9606 denotes human
T55295 2252-2260 CL:0002063;UBERON:0003215 denotes alveolar
T7750 2261-2274 CL:0002212 denotes type II cells
T74117 2279-2300 UBERON:0001915 denotes capillary endothelium
T40199 2325-2330 UBERON:0000170 denotes lungs
T69024 2479-2484 UBERON:0000170 denotes lungs
T86020 2579-2583 UBERON:0002048 denotes lung
T20769 2656-2664 SP_7 denotes COVID-19
T47662 2770-2775 UBERON:0000170 denotes lungs
T48306 2847-2852 NCBITaxon:10239 denotes virus
T26745 2874-2880 UBERON:0002405;GO:0006955 denotes immune
T72026 2881-2889 GO:0006955 denotes response
T54286 2936-2941 UBERON:0000170 denotes lungs
T22843 2947-2961 GO:0010467 denotes overexpression
T95415 2983-2987 PR:000001379 denotes IL-2
T48684 2989-2993 PR:000001393 denotes IL-6
T83111 2995-2999 PR:000001317 denotes IL-7
T45959 3007-3011 PR:000006064 denotes IP10
T86663 3013-3017 PR:000002122 denotes MCP1
T6284 3019-3024 PR:000002123 denotes MIP1A
T28421 3071-3086 GO:0007585 denotes oxygen exchange
T50042 3110-3121 UBERON:0001004 denotes respiratory
T92829 3171-3178 UBERON:0000948 denotes cardiac
T80403 3233-3238 GO:0016265 denotes death
T94715 3299-3307 SP_7 denotes COVID-19
T87782 3327-3337 CL:0000034 denotes stem cells
T42131 3342-3364 GO:1903561 denotes extracellular vesicles
T57081 3384-3388 UBERON:0002048 denotes lung
T28437 3469-3477 SP_7 denotes COVID-19
T49654 3546-3551 UBERON:0000178 denotes blood
T63679 3552-3563 GO:0015671 denotes oxygenation
T71296 3622-3630 SP_7 denotes COVID-19
T66430 3684-3688 GO:0016265 denotes died
T68590 3796-3804 SP_7 denotes COVID-19
T64230 4014-4023 UBERON:0002048 denotes pulmonary
T56111 4050-4059 UBERON:0002048 denotes pulmonary
T21714 4153-4171 UBERON:0001004 denotes respiratory system
T48220 4258-4266 SP_7 denotes COVID-19
T56905 4275-4279 UBERON:0002048 denotes lung
T30281 4543-4554 CL:0000134;UBERON:0003104 denotes Mesenchymal
T10978 4555-4559 CL:0002540 denotes stem
T21305 4560-4567 UBERON:0003891;CL:0000499 denotes stromal
T23170 4568-4573 CL:0000499 denotes cells
T35757 4575-4579 DG_47 denotes MSCs
T70073 4781-4789 SP_7 denotes COVID-19
T48957 4852-4856 DG_47 denotes MSCs
T93296 4873-4882 GO:0031099 denotes repair of
T14032 4891-4897 UBERON:0000479 denotes tissue
T80276 4929-4933 UBERON:0002048 denotes lung
T1242 4954-4962 SP_7 denotes COVID-19
T59975 4977-4981 DG_47 denotes MSCs
T55870 5011-5022 UBERON:0001986 denotes endothelial
T91136 5023-5028 UBERON:0006314 denotes fluid
T70634 5050-5058 UBERON:0003215 denotes alveolar
T25609 5059-5068 UBERON:0001982 denotes capillary
T95816 5125-5129 UBERON:0002048 denotes lung
T61228 5200-5212 UBERON:0005169 denotes interstitial
T66457 5213-5217 UBERON:0002048 denotes lung

LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
33 14-27 Species denotes Coronaviruses Tax:11118
47 984-996 Gene denotes nucleocapsid Gene:43740575
48 71-82 Species denotes coronavirus Tax:11118
49 84-94 Species denotes SARS-CoV-2 Tax:2697049
50 96-143 Species denotes severe acute respiratory syndrome coronavirus 2 Tax:2697049
51 309-319 Species denotes SARS-CoV-2 Tax:2697049
52 337-352 Species denotes Betacoronavirus Tax:694002
53 366-377 Species denotes coronavirus Tax:11118
54 427-440 Species denotes Coronaviridae Tax:11118
55 503-518 Species denotes Betacoronavirus Tax:694002
56 571-588 Species denotes betacoronaviruses Tax:694002
57 681-690 Species denotes mammalian Tax:9606
58 721-734 Species denotes Coronaviruses Tax:11118
59 290-298 Disease denotes COVID-19 MESH:C000657245
63 1239-1247 Species denotes patients Tax:9606
64 1160-1172 Disease denotes inflammation MESH:D007249
65 1266-1274 Disease denotes COVID-19 MESH:C000657245
78 1886-1919 Gene denotes angiotensin I converting enzyme 2 Gene:59272
79 1921-1925 Gene denotes ACE2 Gene:59272
80 1276-1289 Species denotes Coronaviruses Tax:11118
81 1310-1315 Species denotes clove Tax:219868
82 1570-1575 Species denotes human Tax:9606
83 1696-1706 Species denotes SARS-CoV-2 Tax:2697049
84 1746-1755 Species denotes SARS-CoVs Tax:694009
85 1803-1807 Species denotes CoVs Tax:11118
86 1860-1870 Species denotes SARS-CoV-2 Tax:2697049
87 1880-1885 Species denotes human Tax:9606
88 2005-2010 Species denotes human Tax:9606
89 2014-2019 Species denotes human Tax:9606
109 2203-2207 Gene denotes ACE2 Gene:59272
110 2983-2987 Gene denotes IL-2 Gene:3558
111 2989-2993 Gene denotes IL-6 Gene:3569
112 2995-2999 Gene denotes IL-7 Gene:3574
113 3007-3011 Gene denotes IP10 Gene:3627
114 3013-3017 Gene denotes MCP1 Gene:6347
115 3019-3024 Gene denotes MIP1A Gene:6348
116 3030-3034 Gene denotes TNFα Gene:7124
117 2246-2251 Species denotes human Tax:9606
118 2633-2640 Species denotes patient Tax:9606
119 3071-3077 Chemical denotes oxygen MESH:D010100
120 2372-2388 Disease denotes CoV-2 infections MESH:C000657245
121 2656-2664 Disease denotes COVID-19 MESH:C000657245
122 3050-3055 Disease denotes edema MESH:D004487
123 3104-3139 Disease denotes acute respiratory distress syndrome MESH:D012128
124 3141-3145 Disease denotes ARDS MESH:D012128
125 3171-3185 Disease denotes cardiac injury MESH:D006331
126 3187-3206 Disease denotes secondary infection MESH:D060085
127 3233-3238 Disease denotes death MESH:D003643
129 3299-3307 Disease denotes COVID-19 MESH:C000657245
141 3631-3639 Species denotes patients Tax:9606
142 3805-3813 Species denotes patients Tax:9606
143 3469-3477 Disease denotes COVID-19 MESH:C000657245
144 3499-3508 Disease denotes pneumonia MESH:D011014
145 3512-3516 Disease denotes ARDS MESH:D012128
146 3622-3630 Disease denotes COVID-19 MESH:C000657245
147 3684-3688 Disease denotes died MESH:D003643
148 3796-3804 Disease denotes COVID-19 MESH:C000657245
149 4014-4032 Disease denotes pulmonary sickness MESH:D008171
150 4050-4065 Disease denotes pulmonary edema MESH:D011654
151 4109-4118 Disease denotes hypoxemia MESH:D000860
155 4204-4216 Disease denotes inflammation MESH:D007249
156 4258-4266 Disease denotes COVID-19 MESH:C000657245
157 4275-4286 Disease denotes lung damage MESH:D008171
163 4781-4789 Disease denotes COVID-19 MESH:C000657245
164 4929-4940 Disease denotes lung damage MESH:D008171
165 4954-4962 Disease denotes COVID-19 MESH:C000657245
166 5150-5162 Disease denotes inflammation MESH:D007249
167 5200-5223 Disease denotes interstitial lung edema MESH:D017563

LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T16 825-828 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T17 829-836 Body_part denotes genomes http://purl.org/sig/ont/fma/fma84116
T18 859-865 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T19 876-879 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T20 929-935 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T21 997-1004 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T22 1069-1091 Body_part denotes Mesenchymal stem cells http://purl.org/sig/ont/fma/fma0326143
T23 1086-1091 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T24 1186-1190 Body_part denotes lung http://purl.org/sig/ont/fma/fma7195
T25 1384-1401 Body_part denotes protein complexes http://purl.org/sig/ont/fma/fma67906
T26 1384-1391 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T27 1498-1503 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T28 1576-1589 Body_part denotes cell membrane http://purl.org/sig/ont/fma/fma63841
T29 1576-1580 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T30 1604-1610 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T31 1637-1641 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T32 1768-1778 Body_part denotes amino acid http://purl.org/sig/ont/fma/fma82739
T33 1820-1830 Body_part denotes amino acid http://purl.org/sig/ont/fma/fma82739
T34 1940-1944 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T35 2140-2146 Body_part denotes tissue http://purl.org/sig/ont/fma/fma9637
T36 2252-2274 Body_part denotes alveolar type II cells http://purl.org/sig/ont/fma/fma62501
T37 2269-2274 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T38 2279-2300 Body_part denotes capillary endothelium http://purl.org/sig/ont/fma/fma62114
T39 2325-2330 Body_part denotes lungs http://purl.org/sig/ont/fma/fma68877
T40 2479-2484 Body_part denotes lungs http://purl.org/sig/ont/fma/fma68877
T41 2579-2583 Body_part denotes lung http://purl.org/sig/ont/fma/fma7195
T42 2770-2775 Body_part denotes lungs http://purl.org/sig/ont/fma/fma68877
T43 2914-2922 Body_part denotes cytokine http://purl.org/sig/ont/fma/fma84050
T44 2936-2941 Body_part denotes lungs http://purl.org/sig/ont/fma/fma68877
T45 2965-2974 Body_part denotes cytokines http://purl.org/sig/ont/fma/fma84050
T46 2983-2987 Body_part denotes IL-2 http://purl.org/sig/ont/fma/fma84051
T47 3327-3337 Body_part denotes stem cells http://purl.org/sig/ont/fma/fma63368
T48 3332-3337 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T49 3384-3388 Body_part denotes lung http://purl.org/sig/ont/fma/fma7195
T50 3546-3551 Body_part denotes blood http://purl.org/sig/ont/fma/fma9670
T51 4153-4171 Body_part denotes respiratory system http://purl.org/sig/ont/fma/fma7158
T52 4190-4199 Body_part denotes cytokines http://purl.org/sig/ont/fma/fma84050
T53 4275-4279 Body_part denotes lung http://purl.org/sig/ont/fma/fma7195
T54 4335-4343 Body_part denotes cytokine http://purl.org/sig/ont/fma/fma84050
T55 4568-4573 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T56 4891-4897 Body_part denotes tissue http://purl.org/sig/ont/fma/fma9637
T57 4929-4933 Body_part denotes lung http://purl.org/sig/ont/fma/fma7195
T58 5050-5058 Body_part denotes alveolar http://purl.org/sig/ont/fma/fma264783
T59 5059-5068 Body_part denotes capillary http://purl.org/sig/ont/fma/fma63194
T60 5125-5129 Body_part denotes lung http://purl.org/sig/ont/fma/fma7195
T61 5213-5217 Body_part denotes lung http://purl.org/sig/ont/fma/fma7195

LitCovid-PD-UBERON

Id Subject Object Predicate Lexical cue uberon_id
T5 1186-1190 Body_part denotes lung http://purl.obolibrary.org/obo/UBERON_0002048
T6 2140-2146 Body_part denotes tissue http://purl.obolibrary.org/obo/UBERON_0000479
T7 2279-2288 Body_part denotes capillary http://purl.obolibrary.org/obo/UBERON_0001982
T8 2289-2300 Body_part denotes endothelium http://purl.obolibrary.org/obo/UBERON_0001986
T9 2579-2583 Body_part denotes lung http://purl.obolibrary.org/obo/UBERON_0002048
T10 3384-3388 Body_part denotes lung http://purl.obolibrary.org/obo/UBERON_0002048
T11 3546-3551 Body_part denotes blood http://purl.obolibrary.org/obo/UBERON_0000178
T12 4153-4171 Body_part denotes respiratory system http://purl.obolibrary.org/obo/UBERON_0001004
T13 4275-4279 Body_part denotes lung http://purl.obolibrary.org/obo/UBERON_0002048
T14 4891-4897 Body_part denotes tissue http://purl.obolibrary.org/obo/UBERON_0000479
T15 4929-4933 Body_part denotes lung http://purl.obolibrary.org/obo/UBERON_0002048
T16 5059-5068 Body_part denotes capillary http://purl.obolibrary.org/obo/UBERON_0001982
T17 5125-5129 Body_part denotes lung http://purl.obolibrary.org/obo/UBERON_0002048
T18 5213-5217 Body_part denotes lung http://purl.obolibrary.org/obo/UBERON_0002048

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T13 84-92 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T14 84-88 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T15 96-143 Disease denotes severe acute respiratory syndrome coronavirus 2 http://purl.obolibrary.org/obo/MONDO_0100096
T16 96-129 Disease denotes severe acute respiratory syndrome http://purl.obolibrary.org/obo/MONDO_0005091
T17 290-298 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T18 309-317 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T19 309-313 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T20 1160-1172 Disease denotes inflammation http://purl.obolibrary.org/obo/MONDO_0021166
T21 1266-1274 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T22 1696-1704 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T23 1696-1700 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T24 1746-1750 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T25 1793-1797 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T26 1860-1868 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T27 1860-1864 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T28 2378-2388 Disease denotes infections http://purl.obolibrary.org/obo/MONDO_0005550
T29 2656-2664 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T30 3104-3139 Disease denotes acute respiratory distress syndrome http://purl.obolibrary.org/obo/MONDO_0006502
T31 3110-3139 Disease denotes respiratory distress syndrome http://purl.obolibrary.org/obo/MONDO_0009971
T32 3141-3145 Disease denotes ARDS http://purl.obolibrary.org/obo/MONDO_0006502
T33 3179-3185 Disease denotes injury http://purl.obolibrary.org/obo/MONDO_0021178
T34 3197-3206 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T35 3299-3307 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T36 3469-3477 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T37 3499-3508 Disease denotes pneumonia http://purl.obolibrary.org/obo/MONDO_0005249
T38 3512-3516 Disease denotes ARDS http://purl.obolibrary.org/obo/MONDO_0006502
T39 3622-3630 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T40 3796-3804 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T41 3965-3982 Disease denotes altitude sickness http://purl.obolibrary.org/obo/MONDO_0006625|http://purl.obolibrary.org/obo/MONDO_0021811
T43 4036-4065 Disease denotes high-altitude pulmonary edema http://purl.obolibrary.org/obo/MONDO_0021811
T44 4050-4065 Disease denotes pulmonary edema http://purl.obolibrary.org/obo/MONDO_0006932
T45 4067-4071 Disease denotes HAPE http://purl.obolibrary.org/obo/MONDO_0021811
T46 4204-4216 Disease denotes inflammation http://purl.obolibrary.org/obo/MONDO_0021166
T47 4258-4266 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T48 4781-4789 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T49 4954-4962 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T50 5150-5162 Disease denotes inflammation http://purl.obolibrary.org/obo/MONDO_0021166

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T17 55-56 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T18 200-207 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes Viruses
T19 255-258 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T20 266-267 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T21 393-400 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes viruses
T22 710-712 http://purl.obolibrary.org/obo/CLO_0001022 denotes Li
T23 710-712 http://purl.obolibrary.org/obo/CLO_0007314 denotes Li
T24 776-783 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes viruses
T25 880-887 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes viruses
T26 912-914 http://purl.obolibrary.org/obo/CLO_0050509 denotes 27
T27 921-923 http://purl.obolibrary.org/obo/CLO_0007074 denotes kb
T28 921-923 http://purl.obolibrary.org/obo/CLO_0051988 denotes kb
T29 953-954 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T30 1069-1091 http://purl.obolibrary.org/obo/CL_0000134 denotes Mesenchymal stem cells
T31 1186-1190 http://purl.obolibrary.org/obo/UBERON_0002048 denotes lung
T32 1186-1190 http://www.ebi.ac.uk/efo/EFO_0000934 denotes lung
T33 1384-1401 http://purl.obolibrary.org/obo/GO_0043234 denotes protein complexes
T34 1407-1412 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T35 1429-1430 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T36 1466-1468 http://purl.obolibrary.org/obo/CLO_0050050 denotes S1
T37 1498-1503 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T38 1505-1506 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T39 1507-1515 http://purl.obolibrary.org/obo/UBERON_0000158 denotes membrane
T40 1531-1533 http://purl.obolibrary.org/obo/CLO_0008922 denotes S2
T41 1531-1533 http://purl.obolibrary.org/obo/CLO_0050052 denotes S2
T42 1549-1554 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T43 1570-1580 http://purl.obolibrary.org/obo/CLO_0053065 denotes human cell
T44 1581-1589 http://purl.obolibrary.org/obo/UBERON_0000158 denotes membrane
T45 1618-1623 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T46 1637-1641 http://purl.obolibrary.org/obo/GO_0005623 denotes cell
T47 1880-1885 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T48 1940-1944 http://purl.obolibrary.org/obo/GO_0005623 denotes cell
T49 2005-2010 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T50 2014-2019 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T51 2059-2064 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T52 2093-2094 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T53 2159-2160 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T54 2246-2251 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T55 2269-2274 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T56 2289-2300 http://purl.obolibrary.org/obo/UBERON_0001986 denotes endothelium
T57 2325-2330 http://www.ebi.ac.uk/efo/EFO_0000934 denotes lungs
T58 2456-2457 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T59 2479-2484 http://www.ebi.ac.uk/efo/EFO_0000934 denotes lungs
T60 2579-2583 http://purl.obolibrary.org/obo/UBERON_0002048 denotes lung
T61 2579-2583 http://www.ebi.ac.uk/efo/EFO_0000934 denotes lung
T62 2614-2615 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T63 2628-2632 http://purl.obolibrary.org/obo/UBERON_0003101 denotes male
T64 2628-2632 http://www.ebi.ac.uk/efo/EFO_0000970 denotes male
T65 2770-2775 http://www.ebi.ac.uk/efo/EFO_0000934 denotes lungs
T66 2847-2852 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T67 2936-2941 http://www.ebi.ac.uk/efo/EFO_0000934 denotes lungs
T68 2983-2987 http://purl.obolibrary.org/obo/PR_000001379 denotes IL-2
T69 3327-3337 http://purl.obolibrary.org/obo/CL_0000034 denotes stem cells
T70 3384-3388 http://purl.obolibrary.org/obo/UBERON_0002048 denotes lung
T71 3384-3388 http://www.ebi.ac.uk/efo/EFO_0000934 denotes lung
T72 3489-3490 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T73 3529-3530 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T74 3546-3551 http://purl.obolibrary.org/obo/UBERON_0000178 denotes blood
T75 3546-3551 http://www.ebi.ac.uk/efo/EFO_0000296 denotes blood
T76 3911-3912 http://purl.obolibrary.org/obo/CLO_0001021 denotes b
T77 4153-4171 http://purl.obolibrary.org/obo/UBERON_0001004 denotes respiratory system
T78 4275-4279 http://purl.obolibrary.org/obo/UBERON_0002048 denotes lung
T79 4275-4279 http://www.ebi.ac.uk/efo/EFO_0000934 denotes lung
T80 4517-4518 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T81 4560-4573 http://purl.obolibrary.org/obo/CL_0000499 denotes stromal cells
T82 4929-4933 http://purl.obolibrary.org/obo/UBERON_0002048 denotes lung
T83 4929-4933 http://www.ebi.ac.uk/efo/EFO_0000934 denotes lung
T84 5125-5129 http://purl.obolibrary.org/obo/UBERON_0002048 denotes lung
T85 5125-5129 http://www.ebi.ac.uk/efo/EFO_0000934 denotes lung
T86 5213-5217 http://purl.obolibrary.org/obo/UBERON_0002048 denotes lung
T87 5213-5217 http://www.ebi.ac.uk/efo/EFO_0000934 denotes lung

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T3 710-712 Chemical denotes Li http://purl.obolibrary.org/obo/CHEBI_30145
T4 997-1004 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T5 1331-1337 Chemical denotes corona http://purl.obolibrary.org/obo/CHEBI_37409
T6 1384-1391 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T7 1531-1533 Chemical denotes S2 http://purl.obolibrary.org/obo/CHEBI_29387
T8 1768-1778 Chemical denotes amino acid http://purl.obolibrary.org/obo/CHEBI_33709
T9 1768-1773 Chemical denotes amino http://purl.obolibrary.org/obo/CHEBI_46882
T10 1774-1778 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527
T11 1820-1830 Chemical denotes amino acid http://purl.obolibrary.org/obo/CHEBI_33709
T12 1820-1825 Chemical denotes amino http://purl.obolibrary.org/obo/CHEBI_46882
T13 1826-1830 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527
T14 1886-1897 Chemical denotes angiotensin http://purl.obolibrary.org/obo/CHEBI_48433
T15 1952-1954 Chemical denotes Lu http://purl.obolibrary.org/obo/CHEBI_33382
T16 2266-2268 Chemical denotes II http://purl.obolibrary.org/obo/CHEBI_74067
T17 2628-2632 Chemical denotes male http://purl.obolibrary.org/obo/CHEBI_30780
T18 2983-2985 Chemical denotes IL http://purl.obolibrary.org/obo/CHEBI_63895|http://purl.obolibrary.org/obo/CHEBI_74072
T20 2989-2991 Chemical denotes IL http://purl.obolibrary.org/obo/CHEBI_63895|http://purl.obolibrary.org/obo/CHEBI_74072
T22 2995-2997 Chemical denotes IL http://purl.obolibrary.org/obo/CHEBI_63895|http://purl.obolibrary.org/obo/CHEBI_74072
T24 3071-3077 Chemical denotes oxygen http://purl.obolibrary.org/obo/CHEBI_25805

LitCovid-PD-GO-BP

Id Subject Object Predicate Lexical cue
T2 1160-1172 http://purl.obolibrary.org/obo/GO_0006954 denotes inflammation
T3 1191-1203 http://purl.obolibrary.org/obo/GO_0031099 denotes regeneration
T4 1482-1497 http://purl.obolibrary.org/obo/GO_0044409 denotes entry into host
T5 1507-1522 http://purl.obolibrary.org/obo/GO_0061025 denotes membrane-fusion
T6 2147-2154 http://purl.obolibrary.org/obo/GO_0009606 denotes tropism
T7 2175-2191 http://purl.obolibrary.org/obo/GO_0006955 denotes immune responses
T8 2874-2889 http://purl.obolibrary.org/obo/GO_0006955 denotes immune response
T9 3078-3086 http://purl.obolibrary.org/obo/GO_0015297 denotes exchange
T10 4204-4216 http://purl.obolibrary.org/obo/GO_0006954 denotes inflammation
T11 5150-5162 http://purl.obolibrary.org/obo/GO_0006954 denotes inflammation

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T11 0-54 Sentence denotes Understanding Coronaviruses and Their Impact on Health
T12 55-308 Sentence denotes A new strain of coronavirus, SARS-CoV-2 (severe acute respiratory syndrome coronavirus 2, as named by the International Committee on Taxonomy of Viruses) discovered in Wuhan, China, in December 2019, has caused a global disruption and COVID-19 pandemic.
T13 309-353 Sentence denotes SARS-CoV-2 is classified as Betacoronavirus.
T14 354-441 Sentence denotes In general, coronavirus is the name of viruses that belong to the family Coronaviridae.
T15 442-484 Sentence denotes These are classified into four categories:
T16 485-559 Sentence denotes Alphacoronavirus, Betacoronavirus, Gammacoronavirus, and Deltacoronavirus.
T17 560-720 Sentence denotes Alpha- and betacoronaviruses infect mammals, gammacoronaviruses infect avian species, and deltacoronaviruses infect both mammalian and avian species (Li, 2016).
T18 721-924 Sentence denotes Coronaviruses are typically spherical, fatty enveloped viruses, which encapsulate large single-stranded RNA genomes, notably, the largest genome among all RNA viruses, typically ranging from 27 to 32 kb.
T19 925-1048 Sentence denotes The genome is packed inside a helical capsid formed by the nucleocapsid protein (N) and further surrounded by the envelope.
T20 1049-1275 Sentence denotes Graphical Abstract Mesenchymal stem cells and their secreted extracellular vesicles are capable of abrogating inflammation and inducing lung regeneration, which can improve recovery of the patients hospitalized with COVID-19.
T21 1276-1368 Sentence denotes Coronaviruses have characteristic clove-shape spikes (“corona”) protruding from the surface.
T22 1369-1535 Sentence denotes The spikes are protein complexes that virus uses to bind to a receptor (receptor-binding subunit S1) and mediate entry into host cells (a membrane-fusion subunit S2).
T23 1536-1664 Sentence denotes Upon binding virus fuses with the human cell membrane, allowing the genome of the virus to enter the cell and begin replication.
T24 1665-1859 Sentence denotes The receptor-binding domain of SARS-CoV-2 spikes are closely related to those of SARS-CoVs (73.8–74.9% amino acid identity) and SARS-like CoVs (75.9–76.9% amino acid identity) (Wu et al., 2020).
T25 1860-2033 Sentence denotes SARS-CoV-2 uses the human angiotensin I converting enzyme 2 (ACE2) receptor for cell entry (Lu et al., 2020), which could potentially facilitate human-to-human transmission.
T26 2034-2192 Sentence denotes In addition to mediating virus entry, the spike feature is a critical determinant of viral host range and tissue tropism and a cause of host immune responses.
T27 2193-2389 Sentence denotes Since the ACE2 receptor is widely distributed on the human alveolar type II cells and capillary endothelium (Hamming et al., 2004), lungs are particularly susceptible to the SARV-CoV-2 infections.
T28 2390-2593 Sentence denotes Indeed, recent studies demonstrated that the disease could affect a large portion of the lungs causing widespread damage (Figure 1), which subsequently may lead to permanent changes to the lung function.
T29 2594-2802 Sentence denotes Recent MRI study of a 59-year old male patient diagnosed with COVID-19 showed that the disease is not confined to any particular area, but that it can spread across the entire lungs (Figure 1; Mortman, 2020).
T30 2803-2942 Sentence denotes However, this is not caused directly by the virus, but rather the host immune response leading to overwhelming cytokine storm in the lungs.
T31 2943-3239 Sentence denotes The overexpression of cytokines such as IL-2, IL-6, IL-7, GSCF, IP10, MCP1, MIP1A, and TNFα is followed by edema, which impairs oxygen exchange, and may lead to acute respiratory distress syndrome (ARDS) causing potential acute cardiac injury, secondary infection (Huang et al., 2020), and death.
T32 3240-3398 Sentence denotes Figure 1 Widespread distribution of the areas affected by COVID-19 and the effects of stem cells and extracellular vesicles on the recovery of lung function.
T33 3399-3564 Sentence denotes Most recent observations suggest that the devastating complication of COVID-19 may not be a typical pneumonia or ARDS, but rather a dysfunction in blood oxygenation.
T34 3565-3703 Sentence denotes This statement is supported by the fact that over 80% of COVID-19 patients placed on ventilators in New York City have died (Baker, 2020).
T35 3704-3914 Sentence denotes According to Dr. Cameron Kyle-Sidell (Maimonides Medical Center, New York, March 31, 2020), COVID-19 patients show symptoms associated with high altitude without adaptation response (Gattinoni et al., 2020a,b).
T36 3915-4183 Sentence denotes Clinically these cases resemble more closely high-altitude sickness characterized by decompression pulmonary sickness or high-altitude pulmonary edema (HAPE) with distinctive features of severe hypoxemia often associated with near normal respiratory system compliance.
T37 4184-4383 Sentence denotes Since cytokines and inflammation play dominant role in the development of COVID-19-induced lung damage, immunological therapies capable of attenuating cytokine storm may be the key treatment options.
T38 4384-4542 Sentence denotes However, traditional immunomodulatory capacity of common immunotherapeutics are targeted at one or two factors, which may not induce a strong enough response.
T39 4543-4703 Sentence denotes Mesenchymal stem/stromal cells (MSCs) have demonstrated potent and broad immunomodulatory and anti-inflammatory capacity (Abdi et al., 2008; Wada et al., 2013).
T40 4704-4790 Sentence denotes Therefore, MSC-based therapy could potentially be an effective treatment for COVID-19.
T41 4791-4963 Sentence denotes Notably, due to their regenerative properties (Mahla, 2016), MSCs can promote the repair of damaged tissue, in order to prevent long-term lung damage inflicted by COVID-19.
T42 4964-5257 Sentence denotes Importantly, MSCs have been shown to stabilize endothelial fluid leakage and maintain alveolar-capillary barrier function, which is vital to sustain or decrease lung permeability due to inflammation, thus attenuating the development of interstitial lung edema (Bhattacharya and Matthay, 2013).

LitCovid-PD-HP

Id Subject Object Predicate Lexical cue hp_id
T2 2914-2928 Phenotype denotes cytokine storm http://purl.obolibrary.org/obo/HP_0033041
T3 3050-3055 Phenotype denotes edema http://purl.obolibrary.org/obo/HP_0000969
T4 3110-3130 Phenotype denotes respiratory distress http://purl.obolibrary.org/obo/HP_0002098
T5 3499-3508 Phenotype denotes pneumonia http://purl.obolibrary.org/obo/HP_0002090
T6 4050-4065 Phenotype denotes pulmonary edema http://purl.obolibrary.org/obo/HP_0100598
T7 4109-4118 Phenotype denotes hypoxemia http://purl.obolibrary.org/obo/HP_0012418
T8 4335-4349 Phenotype denotes cytokine storm http://purl.obolibrary.org/obo/HP_0033041
T9 5213-5223 Phenotype denotes lung edema http://purl.obolibrary.org/obo/HP_0100598

2_test

Id Subject Object Predicate Lexical cue
32574317-27578435-31466288 714-718 27578435 denotes 2016
32574317-32015508-31466289 1853-1857 32015508 denotes 2020
32574317-32007145-31466290 1963-1967 32007145 denotes 2020
32574317-15141377-31466291 2318-2322 15141377 denotes 2004
32574317-31986264-31466292 3222-3226 31986264 denotes 2020
32574317-18586907-31466294 4678-4682 18586907 denotes 2008
32574317-23931061-31466295 4697-4701 23931061 denotes 2013
32574317-27516776-31466296 4845-4849 27516776 denotes 2016
32574317-23398155-31466297 5251-5255 23398155 denotes 2013

MyTest

Id Subject Object Predicate Lexical cue
32574317-27578435-31466288 714-718 27578435 denotes 2016
32574317-32015508-31466289 1853-1857 32015508 denotes 2020
32574317-32007145-31466290 1963-1967 32007145 denotes 2020
32574317-15141377-31466291 2318-2322 15141377 denotes 2004
32574317-31986264-31466292 3222-3226 31986264 denotes 2020
32574317-18586907-31466294 4678-4682 18586907 denotes 2008
32574317-23931061-31466295 4697-4701 23931061 denotes 2013
32574317-27516776-31466296 4845-4849 27516776 denotes 2016
32574317-23398155-31466297 5251-5255 23398155 denotes 2013