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PMC:7113610 / 9900-12504 JSONTXT

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LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
333 36-41 Species denotes human Tax:9606
357 100-104 Gene denotes ORF1 Gene:55354
358 745-766 Gene denotes trypsin-like protease Gene:11012
359 768-771 Gene denotes HAT Gene:9407
360 789-820 Gene denotes transmembrane protease serine 2 Gene:7113
361 822-829 Gene denotes TMPRSS2 Gene:7113
362 846-851 Gene denotes spike Gene:43740568
363 939-961 Gene denotes dipeptidyl peptidase 4 Gene:1803
364 963-967 Gene denotes DPP4 Gene:1803
365 1015-1046 Gene denotes angiotensin-converting enzyme 2 Gene:59272
366 1048-1052 Gene denotes ACE2 Gene:59272
367 168-180 Gene denotes nucleocapsid Gene:43740575
368 60-73 Species denotes coronaviruses Tax:11118
369 256-269 Species denotes coronaviruses Tax:11118
370 484-497 Species denotes coronaviruses Tax:11118
371 579-584 Species denotes human Tax:9606
372 597-605 Species denotes SARS-CoV Tax:694009
373 610-618 Species denotes MERS-CoV Tax:1335626
374 673-684 Species denotes coronavirus Tax:11118
375 732-737 Species denotes human Tax:9606
376 914-930 Species denotes MERS-coronavirus Tax:1335626
377 976-985 Species denotes HCoV-NL63 Tax:277944
378 990-1006 Species denotes SARS-coronavirus Tax:694009
379 534-547 Chemical denotes carbohydrates MESH:D002241
389 1860-1864 Gene denotes ACE2 Gene:59272
390 2497-2501 Gene denotes ACE2 Gene:59272
391 2503-2534 Gene denotes angiotensin-converting enzyme 2 Gene:59272
392 1979-1987 Gene denotes membrane Gene:43740571
393 1949-1957 Gene denotes envelope Gene:43740570
394 1921-1922 Gene denotes S Gene:43740568
395 1819-1820 Gene denotes S Gene:43740568
396 1766-1776 Species denotes SARS-CoV-2 Tax:2697049
397 2024-2034 Species denotes SARS-CoV-2 Tax:2697049
410 1143-1148 Gene denotes spike Gene:43740568
411 1374-1379 Gene denotes spike Gene:43740568
412 1607-1611 Gene denotes ACE2 Gene:59272
413 1216-1224 Gene denotes membrane Gene:43740571
414 1083-1093 Species denotes SARS-CoV-2 Tax:2697049
415 1116-1127 Species denotes coronavirus Tax:11118
416 1391-1401 Species denotes SARS-CoV-2 Tax:2697049
417 1535-1545 Species denotes SARS-CoV-2 Tax:2697049
418 1601-1606 Species denotes human Tax:9606
419 1668-1678 Species denotes SARS-CoV-2 Tax:2697049
420 1496-1505 Chemical denotes glutamine MESH:D005973
421 1576-1582 Chemical denotes lysine MESH:D008239

LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T15 136-144 Body_part denotes proteins http://purl.org/sig/ont/fma/fma67257
T16 212-224 Body_part denotes glycoprotein http://purl.org/sig/ont/fma/fma62925
T17 336-341 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T18 534-547 Body_part denotes carbohydrates http://purl.org/sig/ont/fma/fma82737
T19 585-590 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T20 812-818 Body_part denotes serine http://purl.org/sig/ont/fma/fma82764
T21 852-859 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T22 1149-1156 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T23 1225-1233 Body_part denotes proteins http://purl.org/sig/ont/fma/fma67257
T24 1243-1246 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T25 1321-1333 Body_part denotes glycoprotein http://purl.org/sig/ont/fma/fma62925
T26 1349-1357 Body_part denotes proteins http://purl.org/sig/ont/fma/fma67257
T27 1380-1387 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T28 1496-1505 Body_part denotes glutamine http://purl.org/sig/ont/fma/fma82752
T29 1576-1582 Body_part denotes lysine http://purl.org/sig/ont/fma/fma82758
T30 1785-1790 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T31 1821-1828 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T32 1923-1930 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T33 1974-1987 Body_part denotes cell membrane http://purl.org/sig/ont/fma/fma63841
T34 1974-1978 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T35 2000-2009 Body_part denotes endosomal http://purl.org/sig/ont/fma/fma67180
T36 2044-2047 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T37 2062-2066 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T38 2068-2074 Body_part denotes Genome http://purl.org/sig/ont/fma/fma84116
T39 2075-2078 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T40 2333-2341 Body_part denotes proteins http://purl.org/sig/ont/fma/fma67257
T41 2349-2357 Body_part denotes proteins http://purl.org/sig/ont/fma/fma67257
T42 2362-2368 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T43 2369-2372 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T44 2491-2495 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T45 2540-2561 Body_part denotes endoplasmic reticulum http://purl.org/sig/ont/fma/fma63842
T46 2592-2603 Body_part denotes compartment http://purl.org/sig/ont/fma/fma76577

LitCovid_AGAC

Id Subject Object Predicate Lexical cue
p68720s13 1949-1964 MPA denotes envelope fusion

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T100 597-605 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T101 597-601 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T102 768-771 Disease denotes HAT http://purl.obolibrary.org/obo/MONDO_0018048
T103 990-1006 Disease denotes SARS-coronavirus http://purl.obolibrary.org/obo/MONDO_0005091
T104 990-994 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T105 1083-1091 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T106 1083-1087 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T107 1391-1399 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T108 1391-1395 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T109 1535-1543 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T110 1535-1539 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T111 1668-1676 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T112 1668-1672 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T113 1766-1774 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T114 1766-1770 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T115 2024-2032 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T116 2024-2028 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T101 36-41 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T102 91-96 http://purl.obolibrary.org/obo/OGG_0000000002 denotes genes
T103 322-327 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T104 336-341 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T105 412-417 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T106 434-439 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T107 473-475 http://purl.obolibrary.org/obo/CLO_0050509 denotes 27
T108 551-552 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T109 579-590 http://purl.obolibrary.org/obo/CLO_0053065 denotes human cells
T110 671-672 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T111 732-737 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T112 738-744 http://purl.obolibrary.org/obo/UBERON_0001005 denotes airway
T113 1057-1058 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T114 1216-1224 http://purl.obolibrary.org/obo/UBERON_0000158 denotes membrane
T115 1411-1414 http://purl.obolibrary.org/obo/CLO_0001577 denotes a 3
T116 1601-1606 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T117 1785-1790 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T118 1974-1978 http://purl.obolibrary.org/obo/GO_0005623 denotes cell
T119 1979-1987 http://purl.obolibrary.org/obo/UBERON_0000158 denotes membrane
T120 2062-2066 http://purl.obolibrary.org/obo/GO_0005623 denotes cell
T121 2230-2231 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T122 2491-2495 http://purl.obolibrary.org/obo/GO_0005623 denotes cell

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T18 136-144 Chemical denotes proteins http://purl.obolibrary.org/obo/CHEBI_36080
T19 212-224 Chemical denotes glycoprotein http://purl.obolibrary.org/obo/CHEBI_17089
T20 534-547 Chemical denotes carbohydrates http://purl.obolibrary.org/obo/CHEBI_16646
T21 812-818 Chemical denotes serine http://purl.obolibrary.org/obo/CHEBI_17822
T22 852-859 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T23 1015-1026 Chemical denotes angiotensin http://purl.obolibrary.org/obo/CHEBI_48433
T24 1149-1156 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T25 1225-1233 Chemical denotes proteins http://purl.obolibrary.org/obo/CHEBI_36080
T26 1321-1333 Chemical denotes glycoprotein http://purl.obolibrary.org/obo/CHEBI_17089
T27 1349-1357 Chemical denotes proteins http://purl.obolibrary.org/obo/CHEBI_36080
T28 1380-1387 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T29 1496-1513 Chemical denotes glutamine residue http://purl.obolibrary.org/obo/CHEBI_32677
T30 1496-1505 Chemical denotes glutamine http://purl.obolibrary.org/obo/CHEBI_28300
T31 1576-1582 Chemical denotes lysine http://purl.obolibrary.org/obo/CHEBI_18019|http://purl.obolibrary.org/obo/CHEBI_25094
T33 1821-1828 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T34 1923-1930 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T35 2333-2341 Chemical denotes proteins http://purl.obolibrary.org/obo/CHEBI_36080
T36 2349-2357 Chemical denotes proteins http://purl.obolibrary.org/obo/CHEBI_36080
T37 2503-2514 Chemical denotes angiotensin http://purl.obolibrary.org/obo/CHEBI_48433

LitCovid-PD-GO-BP

Id Subject Object Predicate Lexical cue
T6 149-166 http://purl.obolibrary.org/obo/GO_0019079 denotes viral replication
T7 149-166 http://purl.obolibrary.org/obo/GO_0019058 denotes viral replication
T8 192-201 http://purl.obolibrary.org/obo/GO_0009058 denotes formation
T9 1943-1964 http://purl.obolibrary.org/obo/GO_0098997 denotes viral envelope fusion
T10 1943-1964 http://purl.obolibrary.org/obo/GO_0019064 denotes viral envelope fusion
T11 2193-2204 http://purl.obolibrary.org/obo/GO_0004175 denotes proteinases
T12 2276-2289 http://purl.obolibrary.org/obo/GO_0006351 denotes transcription
T13 2442-2453 http://purl.obolibrary.org/obo/GO_0006810 denotes transported

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T79 0-55 Sentence denotes Key features and entry mechanism of human coronaviruses
T80 56-207 Sentence denotes All coronaviruses contain specific genes in ORF1 downstream regions that encode proteins for viral replication, nucleocapsid and spikes formation [25].
T81 208-351 Sentence denotes The glycoprotein spikes on the outer surface of coronaviruses are responsible for the attachment and entry of the virus to host cells (Fig. 1).
T82 352-477 Sentence denotes The receptor-binding domain (RBD) is loosely attached among virus, therefore, the virus may infect multiple hosts [26], [27].
T83 478-647 Sentence denotes Other coronaviruses mostly recognize aminopeptidases or carbohydrates as a key receptor for entry to human cells while SARS-CoV and MERS-CoV recognize exopeptidases [2].
T84 648-913 Sentence denotes The entry mechanism of a coronavirus depends upon cellular proteases which include, human airway trypsin-like protease (HAT), cathepsins and transmembrane protease serine 2 (TMPRSS2) that split the spike protein and establish further penetration changes [28], [29].
T85 914-1082 Sentence denotes MERS-coronavirus employs dipeptidyl peptidase 4 (DPP4), while HCoV-NL63 and SARS-coronavirus require angiotensin-converting enzyme 2 (ACE2) as a key receptor [2], [26].
T86 1083-1369 Sentence denotes SARS-CoV-2 possesses the typical coronavirus structure with spike protein and also expressed other polyproteins, nucleoproteins, and membrane proteins, such as RNA polymerase, 3-chymotrypsin-like protease, papain-like protease, helicase, glycoprotein, and accessory proteins [30], [31].
T87 1370-1487 Sentence denotes The spike protein of SARS-CoV-2 contains a 3-D structure in the RBD region to maintain the van der Waals forces [32].
T88 1488-1626 Sentence denotes The 394 glutamine residue in the RBD region of SARS-CoV-2 is recognized by the critical lysine 31 residue on the human ACE2 receptor [33].
T89 1627-1740 Sentence denotes The entire mechanism of pathogenicity of SARS-CoV-2, from attachment to replication is well mentioned in Fig. 3 .
T90 1741-1865 Sentence denotes Fig. 3 The life cycle of SARS-CoV-2 in host cells; begins its life cycle when S protein binds to the cellular receptor ACE2.
T91 1866-2018 Sentence denotes After receptor binding, the conformation change in the S protein facilitates viral envelope fusion with the cell membrane through the endosomal pathway.
T92 2019-2067 Sentence denotes Then SARS-CoV-2 releases RNA into the host cell.
T93 2068-2205 Sentence denotes Genome RNA is translated into viral replicase polyproteins pp1a and 1ab, which are then cleaved into small products by viral proteinases.
T94 2206-2342 Sentence denotes The polymerase produces a series of subgenomic mRNAs by discontinuous transcription and finally translated into relevant viral proteins.
T95 2343-2496 Sentence denotes Viral proteins and genome RNA are subsequently assembled into virions in the ER and Golgi and then transported via vesicles and released out of the cell.
T96 2497-2604 Sentence denotes ACE2, angiotensin-converting enzyme 2; ER, endoplasmic reticulum; ERGIC, ER–Golgi intermediate compartment.

LitCovid-PMC-OGER-BB

Id Subject Object Predicate Lexical cue
T247 36-41 SP_6;NCBITaxon:9606 denotes human
T248 42-55 NCBITaxon:11118 denotes coronaviruses
T249 60-73 NCBITaxon:11118 denotes coronaviruses
T250 91-96 SO:0000704 denotes genes
T251 149-154 NCBITaxon:10239;GO:0006260 denotes viral
T252 155-166 GO:0006260 denotes replication
T253 212-224 CHEBI:17089;BV_11;CHEBI:17089 denotes glycoprotein
T254 245-252 GO:0009986 denotes surface
T255 256-269 NCBITaxon:11118 denotes coronaviruses
T256 322-327 NCBITaxon:10239 denotes virus
T257 373-379 SO:0000417 denotes domain
T258 412-417 NCBITaxon:10239 denotes virus
T259 434-439 NCBITaxon:10239 denotes virus
T260 484-497 NCBITaxon:11118 denotes coronaviruses
T261 534-547 CHEBI:16646;CHEBI:16646 denotes carbohydrates
T262 579-584 SP_6;NCBITaxon:9606 denotes human
T263 597-605 SP_10 denotes SARS-CoV
T264 610-618 SP_9 denotes MERS-CoV
T265 673-684 NCBITaxon:11118 denotes coronavirus
T266 732-737 SP_6;NCBITaxon:9606 denotes human
T267 738-744 UBERON:0001005 denotes airway
T268 745-752 PR:000016450 denotes trypsin
T269 789-802 GO:0016020;PG_8 denotes transmembrane
T270 803-820 PG_8 denotes protease serine 2
T271 822-829 PR:000016456;G_2 denotes TMPRSS2
T272 914-918 SP_9 denotes MERS
T273 919-930 NCBITaxon:11118 denotes coronavirus
T274 950-961 PR:000012546 denotes peptidase 4
T275 963-967 PR:000001341;PG_7 denotes DPP4
T276 990-994 SP_10 denotes SARS
T277 995-1006 NCBITaxon:11118 denotes coronavirus
T278 1015-1046 PR:000003622;PG_10 denotes angiotensin-converting enzyme 2
T279 1048-1052 PR:000003622;G_3;PG_10 denotes ACE2
T280 1083-1093 SP_7 denotes SARS-CoV-2
T281 1116-1127 NCBITaxon:11118 denotes coronavirus
T282 1166-1175 GO:0010467 denotes expressed
T283 1216-1224 GO:0016020 denotes membrane
T284 1321-1333 CHEBI:17089;BV_11;CHEBI:17089 denotes glycoprotein
T285 1391-1401 SP_7 denotes SARS-CoV-2
T286 1535-1545 SP_7 denotes SARS-CoV-2
T287 1601-1606 SP_6;NCBITaxon:9606;PG_10 denotes human
T288 1607-1611 PG_10;PR:000003622 denotes ACE2
T289 1651-1664 BV_19 denotes pathogenicity
T290 1668-1678 SP_7 denotes SARS-CoV-2
T291 1699-1710 GO:0006260 denotes replication
T292 1766-1776 SP_7 denotes SARS-CoV-2
T293 1803-1807 UBERON:0000104 denotes life
T294 1819-1828 PG_1 denotes S protein
T295 1860-1864 G_3;PG_10;PR:000003622 denotes ACE2
T296 1921-1930 PG_1 denotes S protein
T297 1943-1948 NCBITaxon:10239;GO:0019031 denotes viral
T298 1949-1957 GO:0019031;GO:0061025 denotes envelope
T299 1958-1969 GO:0061025 denotes fusion with
T300 1974-1987 GO:0005886 denotes cell membrane
T301 2000-2009 GO:0005768 denotes endosomal
T302 2024-2034 SP_7 denotes SARS-CoV-2
T303 2068-2074 SO:0001026 denotes Genome
T304 2082-2092 GO:0006412 denotes translated
T305 2098-2103 NCBITaxon:10239 denotes viral
T306 2104-2113 GO:0006260 denotes replicase
T307 2127-2131 PG_16;PR:000003209 denotes pp1a
T308 2156-2163 MOP:0000780 denotes cleaved
T309 2187-2192 NCBITaxon:10239 denotes viral
T310 2242-2252 SO:0001026 denotes subgenomic
T311 2302-2312 GO:0006412 denotes translated
T312 2327-2332 NCBITaxon:10239 denotes viral
T313 2362-2368 SO:0001026 denotes genome
T314 2405-2412 GO:0019012 denotes virions
T315 2420-2422 GO:0005783 denotes ER
T316 2427-2432 GO:0005801 denotes Golgi
T317 2458-2466 GO:0031982 denotes vesicles
T318 2497-2501 G_3;PG_10;PR:000003622 denotes ACE2
T319 2503-2534 PG_10;PR:000003622 denotes angiotensin-converting enzyme 2
T320 2536-2538 GO:0005783 denotes ER
T321 2540-2561 GO:0005783 denotes endoplasmic reticulum
T322 2563-2568 GO:0005793 denotes ERGIC
T323 2570-2578 GO:0005793 denotes ER–Golgi

2_test

Id Subject Object Predicate Lexical cue
32257431-23170002-54950093 203-205 23170002 denotes 25
32257431-23486063-54950094 467-469 23486063 denotes 26
32257431-19430490-54950095 473-475 19430490 denotes 27
32257431-23835475-54950096 644-645 23835475 denotes 2
32257431-21325420-54950097 903-905 21325420 denotes 28
32257431-21994442-54950098 909-911 21994442 denotes 29
32257431-23835475-54950099 1073-1074 23835475 denotes 2
32257431-23486063-54950100 1078-1080 23486063 denotes 26
32257431-32009228-54950101 1483-1485 32009228 denotes 32