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PMC:7253482 / 12427-13215 JSONTXT

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LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
394 50-54 Disease denotes SARS MESH:D045169
395 59-63 Disease denotes MERS MESH:D018352
407 427-429 Chemical denotes dN MESH:C022306
408 430-432 Chemical denotes dS MESH:D003903
409 739-755 Chemical denotes N-linked glycans
410 98-102 Disease denotes SARS MESH:D045169
411 107-111 Disease denotes MERS MESH:D018352
412 256-260 Disease denotes SARS MESH:D045169
413 265-269 Disease denotes MERS MESH:D018352
414 292-296 Disease denotes SARS MESH:D045169
415 301-305 Disease denotes MERS MESH:D018352
416 525-529 Disease denotes SARS MESH:D045169
417 534-538 Disease denotes MERS MESH:D018352

LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T74 7-17 Body_part denotes Amino-acid http://purl.org/sig/ont/fma/fma82739
T75 74-84 Body_part denotes Amino-acid http://purl.org/sig/ont/fma/fma82739
T76 114-118 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402
T77 470-480 Body_part denotes amino-acid http://purl.org/sig/ont/fma/fma82739
T78 583-591 Body_part denotes proteins http://purl.org/sig/ont/fma/fma67257
T79 609-617 Body_part denotes backbone http://purl.org/sig/ont/fma/fma13478
T80 660-670 Body_part denotes amino-acid http://purl.org/sig/ont/fma/fma82739

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T46 50-54 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T47 98-102 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T48 256-260 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T49 292-296 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T50 525-529 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T78 72-73 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T79 114-118 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene
T80 184-185 http://purl.obolibrary.org/obo/CLO_0001021 denotes b
T81 367-376 http://purl.obolibrary.org/obo/UBERON_0001353 denotes posterior
T82 500-501 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T83 577-579 http://purl.obolibrary.org/obo/CLO_0053733 denotes 11

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T141 13-17 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527
T142 80-84 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527
T143 200-202 Chemical denotes dN http://purl.obolibrary.org/obo/CHEBI_33793
T144 427-429 Chemical denotes dN http://purl.obolibrary.org/obo/CHEBI_33793
T145 470-475 Chemical denotes amino http://purl.obolibrary.org/obo/CHEBI_46882
T146 476-480 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527
T147 546-548 Chemical denotes ID http://purl.obolibrary.org/obo/CHEBI_141439
T148 583-591 Chemical denotes proteins http://purl.obolibrary.org/obo/CHEBI_36080
T149 660-665 Chemical denotes amino http://purl.obolibrary.org/obo/CHEBI_46882
T150 666-670 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527
T151 748-755 Chemical denotes glycans http://purl.obolibrary.org/obo/CHEBI_18154

LitCovid-sample-MedDRA

Id Subject Object Predicate Lexical cue meddra_id
T3 114-128 http://purl.bioontology.org/ontology/MEDDRA/10022891 denotes gene sequences http://purl.bioontology.org/ontology/MEDDRA/10069604

LitCovid-sample-Enju

Id Subject Object Predicate Lexical cue
T63910 272-273 -LRB- denotes (
T13185 273-279 NN denotes n = 70
T50573 280-283 CC denotes and
T62404 284-287 CD denotes 100
T29922 288-291 IN denotes for
T86628 292-296 NNS denotes SARS
T87992 297-300 CC denotes and
T96551 301-305 NNS denotes MERS
T85872 305-306 -COMMA- denotes ,
T62342 307-319 RB denotes respectively
T97022 319-320 -RRB- denotes )
T33742 322-325 DT denotes The
T17721 326-331 NN denotes error
T64712 332-336 NNS denotes bars
T7069 337-347 VBP denotes correspond
T41089 348-350 TO denotes to
T11597 351-354 DT denotes the
T53375 355-357 CD denotes 95
T27417 357-358 NN denotes %
T18198 359-366 JJS denotes highest
T80529 367-376 JJ denotes posterior
T94719 377-384 NN denotes density
T43156 385-394 NNS denotes intervals
T2785 395-400 IN denotes while
T81755 401-404 DT denotes the
T65616 405-412 NNS denotes circles
T83825 413-421 VBP denotes indicate
T80900 422-426 JJ denotes mean
T50642 427-432 NN denotes dN/dS
T43870 433-440 NN denotes values.
T97958 441-442 NN denotes c
T94857 443-450 NN denotes Mapping
T13865 451-453 IN denotes of
T77796 454-457 DT denotes the
T59041 458-461 IN denotes per
T69745 462-469 NN denotes residue
T70132 470-480 JJ denotes amino-acid
T1949 481-490 NN denotes diversity
T35196 491-496 VBN denotes shown
T48789 497-499 IN denotes in
T26990 500-501 NN denotes A
T42572 502-506 IN denotes onto
T79273 507-510 DT denotes the
T68609 511-521 NNS denotes structures
T73775 522-524 IN denotes of
T46831 525-529 NNP denotes SARS
T85214 530-533 CC denotes and
T4847 534-538 NN denotes MERS
T77242 539-540 NN denotes S
T29063 541-542 -LRB- denotes (
T96403 542-545 NN denotes PDB
T2424 546-548 NN denotes ID
T43233 549-553 NN denotes 5X58
T31301 554-557 CC denotes and
T77506 558-562 NN denotes 5X59
T73600 562-563 -COMMA- denotes ,
T42948 564-576 RB denotes respectively
T46741 576-577 -RRB- denotes )
T67973 577-579 CD denotes 11
T54383 581-582 NN denotes S
T54985 583-591 NNS denotes proteins
T71503 592-595 VBP denotes are
T68699 596-605 VBN denotes presented
T41652 606-608 IN denotes as
T94309 609-617 NN denotes backbone
T38232 618-624 NNS denotes traces
T35432 625-629 IN denotes with
T7775 630-638 NNS denotes residues
T17162 639-646 VBN denotes colored
T49747 647-656 VBG denotes according
T74428 112-113 NN denotes S
T21364 114-118 NN denotes gene
T75679 119-128 NNS denotes sequences
T91293 130-138 JJ denotes Averaged
T25884 139-145 NNS denotes values
T75654 146-149 IN denotes for
T60028 150-154 DT denotes each
T46478 155-161 NN denotes domain
T85913 162-165 VBP denotes are
T30619 166-170 RB denotes also
T89591 171-176 VBN denotes shown
T64910 177-183 IN denotes below.
T95898 184-185 NN denotes b
T29035 186-196 NN denotes Comparison
T92542 197-199 IN denotes of
T58043 200-205 NN denotes dN/dS
T67622 206-212 NNS denotes values
T30617 213-220 IN denotes between
T22042 221-227 VBN denotes buried
T36252 228-231 CC denotes and
T14068 232-239 VBN denotes exposed
T83973 240-248 NNS denotes residues
T81366 249-255 IN denotes across
T80856 256-260 NNS denotes SARS
T94093 261-264 CC denotes and
T51534 265-269 NN denotes MERS
T9382 270-271 NN denotes S
T59844 657-659 TO denotes to
T16213 660-670 JJ denotes amino-acid
T58864 671-680 NN denotes diversity
T92910 682-690 NNS denotes Residues
T14256 691-695 IN denotes with
T40837 696-704 JJ denotes elevated
T80639 705-714 NN denotes diversity
T85890 715-718 VBP denotes are
T71146 719-726 VBN denotes colored
T5339 727-729 IN denotes in
T28847 730-733 JJ denotes red
T85163 733-734 -COMMA- denotes ,
T69312 735-738 CC denotes and
T87041 739-747 VBN denotes N-linked
T76860 748-755 NNS denotes glycans
T24256 756-759 VBP denotes are
T12192 760-769 VBN denotes presented
T65467 770-772 IN denotes as
T23895 773-778 JJ denotes white
T99373 779-787 NNS denotes surfaces
T86019 0-4 NNP denotes Fig.
T3693 5-6 CD denotes 4
T11619 7-17 JJ denotes Amino-acid
T79527 18-26 NN denotes sequence
T16112 27-42 NN denotes diversification
T17730 43-49 IN denotes across
T51516 50-54 NNS denotes SARS
T64040 55-58 CC denotes and
T54827 59-63 NNS denotes MERS
T40726 64-70 NNS denotes spikes
T4452 72-73 DT denotes a
T8758 74-84 JJ denotes Amino-acid
T82356 85-94 NN denotes diversity
T87134 95-97 IN denotes in
T33615 98-102 NNS denotes SARS
T87940 103-106 CC denotes and
T96992 107-111 NNS denotes MERS
R86433 T16112 T86019 arg1Of diversification,Fig.
R52294 T86019 T3693 arg1Of Fig.,4
R49617 T16112 T11619 arg1Of diversification,Amino-acid
R2996 T16112 T79527 arg1Of diversification,sequence
R28693 T16112 T17730 arg1Of diversification,across
R87652 T64040 T17730 arg2Of and,across
R54886 T51516 T64040 arg1Of SARS,and
R47263 T40726 T64040 arg2Of spikes,and
R45865 T40726 T54827 arg1Of spikes,MERS
R86898 T82356 T4452 arg1Of diversity,a
R15307 T82356 T8758 arg1Of diversity,Amino-acid
R83368 T82356 T87134 arg1Of diversity,in
R36844 T87940 T87134 arg2Of and,in
R3781 T33615 T87940 arg1Of SARS,and
R86836 T75679 T87940 arg2Of sequences,and
R82172 T75679 T96992 arg1Of sequences,MERS
R67284 T75679 T74428 arg1Of sequences,S
R90505 T75679 T21364 arg1Of sequences,gene
R47914 T25884 T91293 arg1Of values,Averaged
R92531 T25884 T75654 arg1Of values,for
R97660 T46478 T75654 arg2Of domain,for
R18524 T46478 T60028 arg1Of domain,each
R12507 T25884 T85913 arg1Of values,are
R42650 T89591 T85913 arg2Of shown,are
R7923 T89591 T30619 arg1Of shown,also
R25685 T25884 T89591 arg2Of values,shown
R58717 T89591 T64910 arg1Of shown,below.
R57807 T29035 T64910 arg2Of Comparison,below.
R74950 T29035 T95898 arg1Of Comparison,b
R36854 T29035 T92542 arg1Of Comparison,of
R99157 T67622 T92542 arg2Of values,of
R70962 T67622 T58043 arg1Of values,dN/dS
R34151 T29035 T30617 arg1Of Comparison,between
R19725 T83973 T30617 arg2Of residues,between
R11238 T83973 T22042 arg2Of residues,buried
R8373 T14068 T36252 arg1Of exposed,and
R41271 T83973 T14068 arg1Of residues,exposed
R48587 T83973 T81366 arg1Of residues,across
R53320 T94093 T81366 arg2Of and,across
R49633 T80856 T94093 arg1Of SARS,and
R25407 T9382 T94093 arg2Of S,and
R91159 T9382 T51534 arg1Of S,MERS
R33306 T94093 T63910 arg1Of and,(
R72365 T50573 T63910 arg2Of and,(
R95535 T97022 T63910 arg3Of ),(
R37505 T13185 T50573 arg1Of n = 70,and
R7121 T62404 T50573 arg2Of 100,and
R51120 T50573 T29922 arg1Of and,for
R74251 T87992 T29922 arg2Of and,for
R27251 T86628 T87992 arg1Of SARS,and
R69540 T96551 T87992 arg2Of MERS,and
R93793 T50573 T85872 arg1Of and,","
R27975 T50573 T62342 arg1Of and,respectively
R78619 T64712 T33742 arg1Of bars,The
R56795 T64712 T17721 arg1Of bars,error
R93881 T64712 T7069 arg1Of bars,correspond
R52410 T7069 T41089 arg1Of correspond,to
R76283 T43156 T41089 arg2Of intervals,to
R64546 T43156 T11597 arg1Of intervals,the
R2273 T43156 T53375 arg1Of intervals,95
R25741 T53375 T27417 arg1Of 95,%
R64703 T43156 T18198 arg1Of intervals,highest
R16055 T43156 T80529 arg1Of intervals,posterior
R36990 T43156 T94719 arg1Of intervals,density
R12958 T7069 T2785 arg1Of correspond,while
R74499 T83825 T2785 arg2Of indicate,while
R70293 T65616 T81755 arg1Of circles,the
R85368 T65616 T83825 arg1Of circles,indicate
R6106 T94857 T83825 arg2Of Mapping,indicate
R35700 T94857 T80900 arg1Of Mapping,mean
R44339 T94857 T50642 arg1Of Mapping,dN/dS
R21298 T94857 T43870 arg1Of Mapping,values.
R76670 T94857 T97958 arg1Of Mapping,c
R6390 T94857 T13865 arg1Of Mapping,of
R52176 T1949 T13865 arg2Of diversity,of
R19464 T1949 T77796 arg1Of diversity,the
R58398 T1949 T59041 arg1Of diversity,per
R98228 T1949 T69745 arg1Of diversity,residue
R34919 T1949 T70132 arg1Of diversity,amino-acid
R31614 T1949 T35196 arg2Of diversity,shown
R86375 T35196 T48789 arg1Of shown,in
R84672 T26990 T48789 arg2Of A,in
R5141 T83825 T42572 arg1Of indicate,onto
R69625 T68609 T42572 arg2Of structures,onto
R49403 T68609 T79273 arg1Of structures,the
R70477 T68609 T73775 arg1Of structures,of
R36002 T85214 T73775 arg2Of and,of
R55902 T46831 T85214 arg1Of SARS,and
R1514 T77242 T85214 arg2Of S,and
R96288 T77242 T4847 arg1Of S,MERS
R6796 T85214 T29063 arg1Of and,(
R66604 T31301 T29063 arg2Of and,(
R44451 T46741 T29063 arg3Of ),(
R44135 T31301 T96403 arg1Of and,PDB
R23197 T31301 T2424 arg1Of and,ID
R94942 T43233 T31301 arg1Of 5X58,and
R57022 T77506 T31301 arg2Of 5X59,and
R15327 T31301 T73600 arg1Of and,","
R63032 T31301 T42948 arg1Of and,respectively
R78580 T85214 T67973 arg1Of and,11
R1590 T54985 T54383 arg1Of proteins,S
R27680 T54985 T71503 arg1Of proteins,are
R80868 T68699 T71503 arg2Of presented,are
R21990 T54985 T68699 arg2Of proteins,presented
R19366 T68699 T41652 arg1Of presented,as
R83350 T38232 T41652 arg2Of traces,as
R4519 T38232 T94309 arg1Of traces,backbone
R44314 T38232 T35432 arg1Of traces,with
R94768 T7775 T35432 arg2Of residues,with
R21857 T7775 T17162 arg2Of residues,colored
R61444 T17162 T49747 arg1Of colored,according
R91092 T59844 T49747 arg2Of to,according
R76378 T58864 T59844 arg2Of diversity,to
R11117 T58864 T16213 arg1Of diversity,amino-acid
R40358 T92910 T14256 arg1Of Residues,with
R8307 T80639 T14256 arg2Of diversity,with
R69922 T80639 T40837 arg1Of diversity,elevated
R71914 T92910 T85890 arg1Of Residues,are
R75729 T71146 T85890 arg2Of colored,are
R90522 T92910 T71146 arg2Of Residues,colored
R34840 T71146 T5339 arg1Of colored,in
R2968 T28847 T5339 arg2Of red,in
R30400 T69312 T85163 arg1Of and,","
R90824 T71146 T69312 arg1Of colored,and
R47143 T12192 T69312 arg2Of presented,and
R66919 T76860 T87041 arg2Of glycans,N-linked
R49383 T76860 T24256 arg1Of glycans,are
R55884 T12192 T24256 arg2Of presented,are
R30180 T76860 T12192 arg2Of glycans,presented
R55953 T12192 T65467 arg1Of presented,as
R60416 T99373 T65467 arg2Of surfaces,as
R2531 T99373 T23895 arg1Of surfaces,white

LitCovid-sample-PD-FMA

Id Subject Object Predicate Lexical cue fma_id
T73 7-17 Body_part denotes Amino-acid http://purl.org/sig/ont/fma/fma82739
T74 74-84 Body_part denotes Amino-acid http://purl.org/sig/ont/fma/fma82739
T75 114-118 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402
T76 470-480 Body_part denotes amino-acid http://purl.org/sig/ont/fma/fma82739
T77 583-591 Body_part denotes proteins http://purl.org/sig/ont/fma/fma67257
T78 609-617 Body_part denotes backbone http://purl.org/sig/ont/fma/fma13478
T79 660-670 Body_part denotes amino-acid http://purl.org/sig/ont/fma/fma82739

LitCovid-sample-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T107 470-475 Chemical denotes amino http://purl.obolibrary.org/obo/CHEBI_46882
T108 583-591 Chemical denotes proteins http://purl.obolibrary.org/obo/CHEBI_36080
T109 660-665 Chemical denotes amino http://purl.obolibrary.org/obo/CHEBI_46882
T110 748-755 Chemical denotes glycans http://purl.obolibrary.org/obo/CHEBI_18154

LitCovid-sample-PD-NCBITaxon

Id Subject Object Predicate Lexical cue ncbi_taxonomy_id
T84 50-54 Species denotes SARS NCBItxid:694009
T85 59-63 Species denotes MERS NCBItxid:1335626
T86 98-102 Species denotes SARS NCBItxid:694009
T87 107-111 Species denotes MERS NCBItxid:1335626
T88 256-260 Species denotes SARS NCBItxid:694009
T89 265-269 Species denotes MERS NCBItxid:1335626
T90 292-296 Species denotes SARS NCBItxid:694009
T91 301-305 Species denotes MERS NCBItxid:1335626
T92 525-529 Species denotes SARS NCBItxid:694009
T93 534-538 Species denotes MERS NCBItxid:1335626

LitCovid-sample-sentences

Id Subject Object Predicate Lexical cue
T75 0-71 Sentence denotes Fig. 4 Amino-acid sequence diversification across SARS and MERS spikes.
T76 72-129 Sentence denotes a Amino-acid diversity in SARS and MERS S gene sequences.
T77 130-321 Sentence denotes Averaged values for each domain are also shown below. b Comparison of dN/dS values between buried and exposed residues across SARS and MERS S (n = 70 and 100 for SARS and MERS, respectively).
T78 322-580 Sentence denotes The error bars correspond to the 95% highest posterior density intervals while the circles indicate mean dN/dS values. c Mapping of the per residue amino-acid diversity shown in A onto the structures of SARS and MERS S (PDB ID 5X58 and 5X59, respectively)11.
T79 581-681 Sentence denotes S proteins are presented as backbone traces with residues colored according to amino-acid diversity.
T80 682-788 Sentence denotes Residues with elevated diversity are colored in red, and N-linked glycans are presented as white surfaces.

LitCovid-sample-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T41 50-54 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T42 98-102 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T43 256-260 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T44 292-296 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T45 525-529 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091

LitCovid-sample-Pubtator

Id Subject Object Predicate Lexical cue pubann:denotes
394 50-54 Disease denotes SARS MESH:D045169
395 59-63 Disease denotes MERS MESH:D018352
410 98-102 Disease denotes SARS MESH:D045169
411 107-111 Disease denotes MERS MESH:D018352
412 256-260 Disease denotes SARS MESH:D045169
413 265-269 Disease denotes MERS MESH:D018352
414 292-296 Disease denotes SARS MESH:D045169
415 301-305 Disease denotes MERS MESH:D018352
407 427-429 Chemical denotes dN MESH:C022306
408 430-432 Chemical denotes dS MESH:D003903
416 525-529 Disease denotes SARS MESH:D045169
417 534-538 Disease denotes MERS MESH:D018352
409 739-755 Chemical denotes N-linked glycans

LitCovid-sample-UniProt

Id Subject Object Predicate Lexical cue uniprot_id
T3603 581-591 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-sentences

Id Subject Object Predicate Lexical cue
T75 0-71 Sentence denotes Fig. 4 Amino-acid sequence diversification across SARS and MERS spikes.
T76 72-129 Sentence denotes a Amino-acid diversity in SARS and MERS S gene sequences.
T77 130-321 Sentence denotes Averaged values for each domain are also shown below. b Comparison of dN/dS values between buried and exposed residues across SARS and MERS S (n = 70 and 100 for SARS and MERS, respectively).
T78 322-580 Sentence denotes The error bars correspond to the 95% highest posterior density intervals while the circles indicate mean dN/dS values. c Mapping of the per residue amino-acid diversity shown in A onto the structures of SARS and MERS S (PDB ID 5X58 and 5X59, respectively)11.
T79 581-681 Sentence denotes S proteins are presented as backbone traces with residues colored according to amino-acid diversity.
T80 682-788 Sentence denotes Residues with elevated diversity are colored in red, and N-linked glycans are presented as white surfaces.