> top > docs > PubMed:32571880 > annotations

PubMed:32571880 JSONTXT

Annnotations TAB JSON ListView MergeView

LitCovid-OGER-BB

Id Subject Object Predicate Lexical cue
T1 60-69 GO:0005840 denotes ribosomal
T2 70-87 SO:0001532 denotes frameshift signal
T3 91-95 SP_10 denotes SARS
T4 91-95 PR:000014459 denotes SARS
T5 96-107 NCBITaxon:11118 denotes coronavirus
T6 111-115 PR:000014459 denotes SARS
T7 111-121 SP_7 denotes SARS-CoV-2
T8 149-194 SP_10 denotes severe acute respiratory syndrome coronavirus
T9 162-173 UBERON:0001004 denotes respiratory
T10 196-204 SP_10 denotes SARS-CoV
T11 250-258 SP_7 denotes COVID-19
T12 278-282 SP_10 denotes SARS
T13 283-294 NCBITaxon:11118 denotes coronavirus
T14 298-308 SP_7 denotes SARS-CoV-2
T15 344-355 GO:0042995 denotes projections
T16 464-469 NCBITaxon:10239 denotes virus
T17 497-505 CHEBI:36357 denotes molecule
T18 497-505 CHEBI:36357 denotes molecule
T19 531-544 NCBITaxon:11118 denotes coronaviruses
T20 596-605 GO:0005840 denotes ribosomal
T21 629-636 GO:0065007 denotes control
T22 650-660 GO:0010467 denotes expression
T23 701-709 SP_10 denotes SARS-CoV
T24 856-859 GO:0035098 denotes PRF
T25 893-896 GO:0035098 denotes PRF
T26 914-919 NCBITaxon:10239 denotes virus
T27 914-919 GO:0006260 denotes virus
T28 920-931 GO:0006260 denotes replication
T29 1032-1040 SP_10 denotes SARS-CoV
T30 1045-1055 SP_7 denotes SARS-CoV-2
T31 1253-1263 SO:0000591 denotes pseudoknot
T32 1335-1342 SO:0000313 denotes hairpin
T33 1390-1397 NCBITaxon:10239 denotes viruses
T34 1516-1527 SO:0000591 denotes pseudoknots
T35 1531-1539 SP_10 denotes SARS-CoV
T36 1544-1554 SP_7 denotes SARS-CoV-2
T37 1600-1608 CHEBI:36357 denotes molecule
T38 1600-1608 CHEBI:36357 denotes molecule
T39 1638-1646 SP_10 denotes SARS-CoV
T40 1719-1729 SP_7 denotes SARS-CoV-2
T41 1763-1773 CHEBI:35222 denotes inhibitors
T42 1763-1773 CHEBI:35222 denotes inhibitors
T43 1796-1805 CHEBI:36357 denotes compounds
T44 1796-1805 CHEBI:36357 denotes compounds
T45 1828-1836 SP_7 denotes COVID-19

LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T1 60-69 Body_part denotes ribosomal http://purl.org/sig/ont/fma/fma66867
T2 596-605 Body_part denotes ribosomal http://purl.org/sig/ont/fma/fma66867
T3 670-678 Body_part denotes proteins http://purl.org/sig/ont/fma/fma67257
T4 776-780 Body_part denotes mRNA http://purl.org/sig/ont/fma/fma67122

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T1 91-95 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T2 111-119 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T3 149-182 Disease denotes severe acute respiratory syndrome http://purl.obolibrary.org/obo/MONDO_0005091
T4 196-204 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T5 250-258 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T6 278-282 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T7 298-306 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T8 701-709 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T9 1032-1040 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T10 1045-1053 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T11 1531-1539 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T12 1544-1552 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T13 1638-1646 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T14 1719-1727 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T15 1828-1836 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T1 81-87 http://purl.obolibrary.org/obo/SO_0000418 denotes signal
T2 239-249 http://purl.obolibrary.org/obo/UBERON_0001456 denotes facing the
T3 380-381 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T4 398-399 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T5 464-469 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T6 553-554 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T7 740-741 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T8 851-852 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T9 897-905 http://purl.obolibrary.org/obo/CLO_0001658 denotes activity
T10 914-919 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T11 954-962 http://purl.obolibrary.org/obo/CLO_0001658 denotes activity
T12 1067-1074 http://purl.obolibrary.org/obo/SO_0000418 denotes signals
T13 1287-1295 http://purl.obolibrary.org/obo/CLO_0001658 denotes activity
T14 1343-1351 http://purl.obolibrary.org/obo/CLO_0001658 denotes activity
T15 1390-1397 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes viruses
T16 1592-1593 http://purl.obolibrary.org/obo/CLO_0001020 denotes a

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T1 497-505 Chemical denotes molecule http://purl.obolibrary.org/obo/CHEBI_25367
T2 670-678 Chemical denotes proteins http://purl.obolibrary.org/obo/CHEBI_36080
T3 1600-1608 Chemical denotes molecule http://purl.obolibrary.org/obo/CHEBI_25367
T4 1763-1773 Chemical denotes inhibitors http://purl.obolibrary.org/obo/CHEBI_35222
T5 1791-1805 Chemical denotes lead compounds http://purl.obolibrary.org/obo/CHEBI_33585

LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
2 91-109 Species denotes SARS coronavirus 2 Tax:2697049
3 111-121 Species denotes SARS-CoV-2 Tax:2697049
18 149-194 Species denotes severe acute respiratory syndrome coronavirus Tax:694009
19 196-204 Species denotes SARS-CoV Tax:694009
20 250-258 Disease denotes COVID-19 MESH:C000657245
21 283-294 Species denotes coronavirus Tax:11118
22 298-308 Species denotes SARS-CoV-2 Tax:2697049
23 531-544 Species denotes coronaviruses Tax:11118
24 701-709 Species denotes SARS-CoV Tax:694009
25 1032-1040 Species denotes SARS-CoV Tax:694009
26 1045-1055 Species denotes SARS-CoV-2 Tax:2697049
27 1531-1539 Species denotes SARS-CoV Tax:694009
28 1544-1554 Species denotes SARS-CoV-2 Tax:2697049
29 1638-1646 Species denotes SARS-CoV Tax:694009
30 1719-1729 Species denotes SARS-CoV-2 Tax:2697049
31 1828-1836 Disease denotes COVID-19 MESH:C000657245

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T1 0-123 Sentence denotes Structural and functional conservation of the programmed -1 ribosomal frameshift signal of SARS coronavirus 2 (SARS-CoV-2).
T2 124-310 Sentence denotes About 17 years after the severe acute respiratory syndrome coronavirus (SARS-CoV) epidemic, the world is currently facing the COVID-19 pandemic caused by SARS coronavirus 2 (SARS-CoV-2).
T3 311-526 Sentence denotes According to the most optimistic projections, it will take more than a year to develop a vaccine, so the best short-term strategy may lie in identifying virus-specific targets for small molecule-based interventions.
T4 527-679 Sentence denotes All coronaviruses utilize a molecular mechanism called programmed -1 ribosomal frameshift (-1 PRF) to control the relative expression of their proteins.
T5 680-880 Sentence denotes Previous analyses of SARS-CoV have revealed that it employs a structurally unique three-stemmed mRNA pseudoknot that stimulates high -1 PRF rates and that it also harbors a -1 PRF attenuation element.
T6 881-995 Sentence denotes Altering -1 PRF activity impairs virus replication, suggesting that this activity may be therapeutically targeted.
T7 996-1075 Sentence denotes Here, we comparatively analyzed the SARS-CoV and SARS-CoV-2 frameshift signals.
T8 1076-1296 Sentence denotes Structural and functional analyses revealed that both elements promote similar -1 PRF rates and that silent coding mutations in the slippery sites and in all three stems of the pseudoknot strongly ablate -1 PRF activity.
T9 1297-1458 Sentence denotes We noted that the upstream attenuator hairpin activity is also functionally retained in both viruses, despite differences in the primary sequence in this region.
T10 1459-1582 Sentence denotes Small-angle X-ray scattering analyses indicated that the pseudoknots in SARS-CoV and SARS-CoV-2 have the same conformation.
T11 1583-1846 Sentence denotes Finally, a small molecule previously shown to bind the SARS-CoV pseudoknot and inhibit -1 PRF was similarly effective against -1 PRF in SARS-CoV-2, suggesting that such frameshift inhibitors may be promising lead compounds to combat the current COVID-19 pandemic.

LitCovid_AGAC_only

Id Subject Object Predicate Lexical cue
p40518s0 881-889 Var denotes Altering
p40518s5 906-913 NegReg denotes impairs
p40518s6 914-919 Protein denotes virus
p40518s7 920-931 MPA denotes replication

sentences

Id Subject Object Predicate Lexical cue
T1 0-123 Sentence denotes Structural and functional conservation of the programmed -1 ribosomal frameshift signal of SARS coronavirus 2 (SARS-CoV-2).
T2 124-310 Sentence denotes About 17 years after the severe acute respiratory syndrome coronavirus (SARS-CoV) epidemic, the world is currently facing the COVID-19 pandemic caused by SARS coronavirus 2 (SARS-CoV-2).
T3 311-526 Sentence denotes According to the most optimistic projections, it will take more than a year to develop a vaccine, so the best short-term strategy may lie in identifying virus-specific targets for small molecule-based interventions.
T4 527-679 Sentence denotes All coronaviruses utilize a molecular mechanism called programmed -1 ribosomal frameshift (-1 PRF) to control the relative expression of their proteins.
T5 680-880 Sentence denotes Previous analyses of SARS-CoV have revealed that it employs a structurally unique three-stemmed mRNA pseudoknot that stimulates high -1 PRF rates and that it also harbors a -1 PRF attenuation element.
T6 881-995 Sentence denotes Altering -1 PRF activity impairs virus replication, suggesting that this activity may be therapeutically targeted.
T7 996-1075 Sentence denotes Here, we comparatively analyzed the SARS-CoV and SARS-CoV-2 frameshift signals.
T8 1076-1296 Sentence denotes Structural and functional analyses revealed that both elements promote similar -1 PRF rates and that silent coding mutations in the slippery sites and in all three stems of the pseudoknot strongly ablate -1 PRF activity.
T9 1297-1458 Sentence denotes We noted that the upstream attenuator hairpin activity is also functionally retained in both viruses, despite differences in the primary sequence in this region.
T10 1459-1582 Sentence denotes Small-angle X-ray scattering analyses indicated that the pseudoknots in SARS-CoV and SARS-CoV-2 have the same conformation.
T11 1583-1846 Sentence denotes Finally, a small molecule previously shown to bind the SARS-CoV pseudoknot and inhibit -1 PRF was similarly effective against -1 PRF in SARS-CoV-2, suggesting that such frameshift inhibitors may be promising lead compounds to combat the current COVID-19 pandemic.

Glycosmos6-MAT

Id Subject Object Predicate Lexical cue
T1 768-775 http://purl.obolibrary.org/obo/MAT_0000239 denotes stemmed
T2 1240-1245 http://purl.obolibrary.org/obo/MAT_0000239 denotes stems

Anatomy-MAT

Id Subject Object Predicate Lexical cue mat_id
T1 768-775 Body_part denotes stemmed http://purl.obolibrary.org/obo/MAT_0000239
T2 1240-1245 Body_part denotes stems http://purl.obolibrary.org/obo/MAT_0000239

mondo_disease

Id Subject Object Predicate Lexical cue mondo_id
T1 91-95 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T2 111-121 Disease denotes SARS-CoV-2 http://purl.obolibrary.org/obo/MONDO_0100096
T3 149-182 Disease denotes severe acute respiratory syndrome http://purl.obolibrary.org/obo/MONDO_0005091
T4 196-204 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T5 250-258 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T6 278-282 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T7 298-308 Disease denotes SARS-CoV-2 http://purl.obolibrary.org/obo/MONDO_0100096
T8 701-709 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T9 1032-1040 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T10 1045-1055 Disease denotes SARS-CoV-2 http://purl.obolibrary.org/obo/MONDO_0100096
T11 1531-1539 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T12 1544-1554 Disease denotes SARS-CoV-2 http://purl.obolibrary.org/obo/MONDO_0100096
T13 1638-1646 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T14 1719-1729 Disease denotes SARS-CoV-2 http://purl.obolibrary.org/obo/MONDO_0100096
T15 1828-1836 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096

NCBITAXON

Id Subject Object Predicate Lexical cue db_id
T1 111-119 OrganismTaxon denotes SARS-CoV 694009
T2 149-182 OrganismTaxon denotes severe acute respiratory syndrome 694009
T3 196-204 OrganismTaxon denotes SARS-CoV 694009
T4 298-306 OrganismTaxon denotes SARS-CoV 694009
T5 701-709 OrganismTaxon denotes SARS-CoV 694009
T6 1032-1040 OrganismTaxon denotes SARS-CoV 694009
T7 1045-1053 OrganismTaxon denotes SARS-CoV 694009
T8 1531-1539 OrganismTaxon denotes SARS-CoV 694009
T9 1544-1552 OrganismTaxon denotes SARS-CoV 694009
T10 1638-1646 OrganismTaxon denotes SARS-CoV 694009
T11 1719-1727 OrganismTaxon denotes SARS-CoV 694009