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PMC:7253482 / 378-703 JSONTXT

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LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
24 130-135 Gene denotes spike Gene:43740568
27 13-24 Species denotes Coronavirus Tax:11118
28 305-309 Species denotes CoVs Tax:11118
34 177-183 Chemical denotes glycan MESH:D011134
35 235-247 Chemical denotes oligomannose
36 253-259 Chemical denotes glycan MESH:D011134
42 195-199 Disease denotes MERS MESH:D018352
43 291-295 Disease denotes SARS MESH:D045169

LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T2 27-35 Body_part denotes proteins http://purl.org/sig/ont/fma/fma67257

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T3 291-295 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T2 153-154 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T3 322-323 http://purl.obolibrary.org/obo/CLO_0001020 denotes a

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T2 27-35 Chemical denotes proteins http://purl.obolibrary.org/obo/CHEBI_36080

LitCovid-sample-PD-IDO

Id Subject Object Predicate Lexical cue
T4 111-116 http://purl.obolibrary.org/obo/BFO_0000029 denotes sites

LitCovid-sample-Enju

Id Subject Object Predicate Lexical cue
T58 13-24 NN denotes Coronavirus
T59 25-26 NN denotes S
T60 27-35 NNS denotes proteins
T61 36-39 VBP denotes are
T62 40-51 RB denotes extensively
T63 52-64 VBN denotes glycosylated
T64 64-65 -COMMA- denotes ,
T65 66-74 VBG denotes encoding
T66 75-81 IN denotes around
T67 82-87 CD denotes 66–87
T68 88-96 JJ denotes N-linked
T69 97-110 NN denotes glycosylation
T70 111-116 NNS denotes sites
T71 117-120 IN denotes per
T72 121-129 JJ denotes trimeric
T73 130-135 NN denotes spike
T74 137-141 RB denotes Here
T75 141-142 -COMMA- denotes ,
T76 143-145 PRP denotes we
T77 146-152 VBP denotes reveal
T78 153-154 DT denotes a
T79 155-163 JJ denotes specific
T80 164-168 NN denotes area
T81 169-171 IN denotes of
T82 172-176 JJ denotes high
T83 177-183 NN denotes glycan
T84 184-191 NN denotes density
T85 192-194 IN denotes on
T86 195-199 NNP denotes MERS
T87 200-201 NNP denotes S
T88 202-206 WDT denotes that
T89 207-214 VBZ denotes results
T90 215-217 IN denotes in
T91 218-221 DT denotes the
T92 222-231 NN denotes formation
T93 232-234 IN denotes of
T94 235-252 JJ denotes oligomannose-type
T95 253-259 NN denotes glycan
T96 260-268 NNS denotes clusters
T97 268-269 -COMMA- denotes ,
T98 270-275 WDT denotes which
T99 276-280 VBD denotes were
T100 281-287 JJ denotes absent
T101 288-290 IN denotes on
T102 291-295 NNS denotes SARS
T103 296-299 CC denotes and
T104 300-304 NN denotes HKU1
T105 305-309 NNS denotes CoVs
T106 311-313 PRP denotes We
T107 314-321 VBP denotes provide
T108 322-323 DT denotes a
R54 T60 T58 arg1Of proteins,Coronavirus
R55 T60 T59 arg1Of proteins,S
R56 T60 T61 arg1Of proteins,are
R57 T63 T61 arg2Of glycosylated,are
R58 T63 T62 arg1Of glycosylated,extensively
R59 T60 T63 arg2Of proteins,glycosylated
R60 T63 T64 arg1Of glycosylated,","
R61 T60 T65 arg1Of proteins,encoding
R62 T70 T65 arg2Of sites,encoding
R63 T63 T65 modOf glycosylated,encoding
R64 T70 T66 arg1Of sites,around
R65 T70 T67 arg1Of sites,66–87
R66 T70 T68 arg1Of sites,N-linked
R67 T70 T69 arg1Of sites,glycosylation
R68 T70 T71 arg1Of sites,per
R69 T73 T71 arg2Of spike,per
R70 T73 T72 arg1Of spike,trimeric
R71 T77 T74 arg1Of reveal,Here
R72 T77 T75 arg1Of reveal,","
R73 T76 T77 arg1Of we,reveal
R74 T80 T77 arg2Of area,reveal
R75 T80 T78 arg1Of area,a
R76 T80 T79 arg1Of area,specific
R77 T80 T81 arg1Of area,of
R78 T84 T81 arg2Of density,of
R79 T84 T82 arg1Of density,high
R80 T84 T83 arg1Of density,glycan
R81 T80 T85 arg1Of area,on
R82 T87 T85 arg2Of S,on
R83 T87 T86 arg1Of S,MERS
R84 T80 T88 arg1Of area,that
R85 T80 T89 arg1Of area,results
R86 T89 T90 arg1Of results,in
R87 T92 T90 arg2Of formation,in
R88 T92 T91 arg1Of formation,the
R89 T92 T93 arg1Of formation,of
R90 T96 T93 arg2Of clusters,of
R91 T96 T94 arg1Of clusters,oligomannose-type
R92 T96 T95 arg1Of clusters,glycan
R93 T96 T97 arg1Of clusters,","
R94 T96 T98 arg1Of clusters,which
R95 T96 T99 arg1Of clusters,were
R96 T100 T99 arg2Of absent,were
R97 T96 T100 arg1Of clusters,absent
R98 T100 T101 arg1Of absent,on
R99 T103 T101 arg2Of and,on
R100 T102 T103 arg1Of SARS,and
R101 T105 T103 arg2Of CoVs,and
R102 T105 T104 arg1Of CoVs,HKU1
R103 T106 T107 arg1Of We,provide

LitCovid-sample-PD-FMA

Id Subject Object Predicate Lexical cue fma_id
T2 27-35 Body_part denotes proteins http://purl.org/sig/ont/fma/fma67257

LitCovid-sample-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T2 27-35 Chemical denotes proteins http://purl.obolibrary.org/obo/CHEBI_36080

LitCovid-sample-PD-NCBITaxon

Id Subject Object Predicate Lexical cue ncbi_taxonomy_id
T4 195-199 Species denotes MERS NCBItxid:1335626
T5 291-295 Species denotes SARS NCBItxid:694009
T6 300-309 Species denotes HKU1 CoVs NCBItxid:290028

LitCovid-sample-sentences

Id Subject Object Predicate Lexical cue
T5 13-136 Sentence denotes Coronavirus S proteins are extensively glycosylated, encoding around 66–87 N-linked glycosylation sites per trimeric spike.
T6 137-310 Sentence denotes Here, we reveal a specific area of high glycan density on MERS S that results in the formation of oligomannose-type glycan clusters, which were absent on SARS and HKU1 CoVs.

LitCovid-sample-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T3 291-295 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091

LitCovid-sample-Pubtator

Id Subject Object Predicate Lexical cue pubann:denotes
27 13-24 Species denotes Coronavirus Tax:11118
24 130-135 Gene denotes spike Gene:43740568
34 177-183 Chemical denotes glycan MESH:D011134
42 195-199 Disease denotes MERS MESH:D018352
35 235-247 Chemical denotes oligomannose
36 253-259 Chemical denotes glycan MESH:D011134
43 291-295 Disease denotes SARS MESH:D045169
28 305-309 Species denotes CoVs Tax:11118

LitCovid-sample-UniProt

Id Subject Object Predicate Lexical cue uniprot_id
T100 25-35 Protein denotes S proteins https://www.uniprot.org/uniprot/Q9UIP0|https://www.uniprot.org/uniprot/Q9UIN9|https://www.uniprot.org/uniprot/Q9UIN8|https://www.uniprot.org/uniprot/Q9UIN7|https://www.uniprot.org/uniprot/Q9UIN6|https://www.uniprot.org/uniprot/Q9UBH8|https://www.uniprot.org/uniprot/Q9NRH8|https://www.uniprot.org/uniprot/Q9NRH7|https://www.uniprot.org/uniprot/Q9NRH6|https://www.uniprot.org/uniprot/Q9NRH5|https://www.uniprot.org/uniprot/Q9NRH4|https://www.uniprot.org/uniprot/Q9NPG5|https://www.uniprot.org/uniprot/Q9NPE0|https://www.uniprot.org/uniprot/Q9NP52|https://www.uniprot.org/uniprot/Q95IF9|https://www.uniprot.org/uniprot/Q8N5P3|https://www.uniprot.org/uniprot/Q8IZU6|https://www.uniprot.org/uniprot/Q8IZU5|https://www.uniprot.org/uniprot/Q8IZU4|https://www.uniprot.org/uniprot/Q86Z04|https://www.uniprot.org/uniprot/Q7YR44|https://www.uniprot.org/uniprot/Q7LA71|https://www.uniprot.org/uniprot/Q7LA70|https://www.uniprot.org/uniprot/Q5STD2|https://www.uniprot.org/uniprot/Q5SQ85|https://www.uniprot.org/uniprot/Q1XI16|https://www.uniprot.org/uniprot/Q1XI12|https://www.uniprot.org/uniprot/Q15517|https://www.uniprot.org/uniprot/O43509|https://www.uniprot.org/uniprot/O19084|https://www.uniprot.org/uniprot/B0UYZ7|https://www.uniprot.org/uniprot/B0S7V2|https://www.uniprot.org/uniprot/A5A6L9

LitCovid-sample-PD-GO-BP-0

Id Subject Object Predicate Lexical cue
T4 97-110 http://purl.obolibrary.org/obo/GO_0070085 denotes glycosylation
T5 222-231 http://purl.obolibrary.org/obo/GO_0009058 denotes formation

LitCovid-sample-GO-BP

Id Subject Object Predicate Lexical cue
T4 97-110 http://purl.obolibrary.org/obo/GO_0070085 denotes glycosylation
T5 222-231 http://purl.obolibrary.org/obo/GO_0009058 denotes formation

LitCovid-PD-GO-BP

Id Subject Object Predicate Lexical cue
T4 88-110 http://purl.obolibrary.org/obo/GO_0006487 denotes N-linked glycosylation
T5 97-110 http://purl.obolibrary.org/obo/GO_0070085 denotes glycosylation
T6 222-231 http://purl.obolibrary.org/obo/GO_0009058 denotes formation

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T5 13-136 Sentence denotes Coronavirus S proteins are extensively glycosylated, encoding around 66–87 N-linked glycosylation sites per trimeric spike.
T6 137-310 Sentence denotes Here, we reveal a specific area of high glycan density on MERS S that results in the formation of oligomannose-type glycan clusters, which were absent on SARS and HKU1 CoVs.