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PMC:7253482 / 17906-18357 JSONTXT

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LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
657 64-67 Gene denotes Env Gene:64006
664 58-63 Species denotes HIV-1 Tax:11676
665 147-153 Species denotes SARS 2 Tax:2697049
666 258-268 Species denotes chimpanzee Tax:9598
667 269-307 Species denotes simian immunodeficiency virus (SIVcpz) Tax:11723
689 245-249 Disease denotes MERS MESH:D018352
690 347-351 Disease denotes SARS MESH:D045169

LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T103 58-61 Body_part denotes HIV http://purl.org/sig/ont/fma/fma278683
T104 339-342 Body_part denotes HIV http://purl.org/sig/ont/fma/fma278683

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T66 147-151 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T67 276-292 Disease denotes immunodeficiency http://purl.obolibrary.org/obo/MONDO_0021094
T68 347-351 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T104 258-268 http://purl.obolibrary.org/obo/NCBITaxon_9598 denotes chimpanzee
T105 293-298 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T194 11-19 Chemical denotes electron http://purl.obolibrary.org/obo/CHEBI_10545
T195 37-39 Chemical denotes EM http://purl.obolibrary.org/obo/CHEBI_73507
T196 211-213 Chemical denotes EM http://purl.obolibrary.org/obo/CHEBI_73507

LitCovid-sample-MedDRA

Id Subject Object Predicate Lexical cue meddra_id
T6 20-30 http://purl.bioontology.org/ontology/MEDDRA/10022891 denotes microscopy http://purl.bioontology.org/ontology/MEDDRA/10069374

LitCovid-sample-PD-IDO

Id Subject Object Predicate Lexical cue
T50 276-292 http://purl.obolibrary.org/obo/IDO_0000617 denotes immunodeficiency
T51 293-298 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T52 376-383 http://purl.obolibrary.org/obo/BFO_0000019 denotes quality

LitCovid-sample-Enju

Id Subject Object Predicate Lexical cue
T56676 6-19 NN denotes cryo-electron
T27050 20-30 NN denotes microscopy
T97416 31-32 -LRB- denotes (
T56321 32-39 NN denotes cryo-EM
T61586 39-40 -RRB- denotes )
T32555 42-45 DT denotes The
T47125 46-53 NNS denotes results
T36239 54-57 IN denotes for
T18889 58-63 NN denotes HIV-1
T12931 64-67 NN denotes Env
T63067 68-72 VBD denotes were
T30265 73-83 VBN denotes reproduced
T57197 84-92 RB denotes directly
T8292 93-97 IN denotes from
T31650 98-106 NNP denotes Berndsen
T37715 107-109 NNP denotes et
T19388 110-115 NN denotes al.51
T9777 116-121 IN denotes while
T55752 122-125 DT denotes the
T50993 126-136 RB denotes previously
T21233 137-146 VBN denotes published
T39264 147-151 NN denotes SARS
T63581 152-154 NN denotes 2P
T16458 155-164 NN denotes dataset52
T19972 165-168 VBD denotes was
T72393 169-180 VBN denotes reprocessed
T49131 181-184 IN denotes for
T60843 185-189 DT denotes this
T69625 190-195 NN denotes study
T12832 197-205 IN denotes Although
T24787 206-213 NN denotes cryo-EM
T29672 214-222 NNS denotes datasets
T9596 223-225 IN denotes of
T45576 226-231 RB denotes fully
T37894 232-244 VBN denotes glycosylated
T35124 245-249 NNS denotes MERS
T87593 250-253 NN denotes S41
T79382 254-257 CC denotes and
T63281 258-268 NN denotes chimpanzee
T35247 269-275 JJ denotes simian
T82138 276-292 NN denotes immunodeficiency
T35287 293-298 NN denotes virus
T14224 299-300 -LRB- denotes (
T81517 300-306 NN denotes SIVcpz
T3442 306-307 -RRB- denotes )
T14676 307-309 CD denotes 53
T32530 310-313 VBP denotes are
T45598 314-318 RB denotes also
T95444 319-328 JJ denotes available
T17171 328-329 -COMMA- denotes ,
T88916 330-334 RB denotes only
T2700 335-338 DT denotes the
T19064 339-342 NN denotes HIV
T16401 343-346 CC denotes and
T74879 347-351 NN denotes SARS
T37597 352-356 NNS denotes data
T46398 357-361 VBD denotes were
T10901 362-364 IN denotes of
T19935 365-375 JJ denotes sufficient
T58744 376-383 NN denotes quality
T47642 384-385 -LRB- denotes (
T27616 385-391 CD denotes Fig. 5
T15042 391-392 -RRB- denotes )
T64790 394-396 PRP denotes We
T12200 397-405 RB denotes recently
T55283 406-414 VBD denotes showed51
T5337 415-419 IN denotes that
T85969 420-428 NNS denotes dynamics
T15501 429-431 IN denotes in
T81842 432-439 NN denotes surface
T53947 440-447 VBN denotes exposed
R94625 T27050 T56676 arg1Of microscopy,cryo-electron
R52529 T27050 T97416 arg1Of microscopy,(
R80238 T56321 T97416 arg2Of cryo-EM,(
R68588 T61586 T97416 arg3Of ),(
R56245 T47125 T32555 arg1Of results,The
R84419 T47125 T36239 arg1Of results,for
R70463 T12931 T36239 arg2Of Env,for
R11834 T12931 T18889 arg1Of Env,HIV-1
R8425 T47125 T63067 arg1Of results,were
R65847 T30265 T63067 arg2Of reproduced,were
R18044 T47125 T30265 arg2Of results,reproduced
R87066 T30265 T57197 arg1Of reproduced,directly
R46593 T30265 T8292 arg1Of reproduced,from
R22503 T19388 T8292 arg2Of al.51,from
R33083 T37715 T31650 arg1Of et,Berndsen
R90854 T19388 T37715 arg1Of al.51,et
R2290 T30265 T9777 arg1Of reproduced,while
R26115 T72393 T9777 arg2Of reprocessed,while
R91746 T16458 T55752 arg1Of dataset52,the
R23575 T21233 T50993 arg1Of published,previously
R10375 T16458 T21233 arg1Of dataset52,published
R14263 T16458 T39264 arg1Of dataset52,SARS
R30163 T16458 T63581 arg1Of dataset52,2P
R49923 T16458 T19972 arg1Of dataset52,was
R47678 T72393 T19972 arg2Of reprocessed,was
R52503 T16458 T72393 arg2Of dataset52,reprocessed
R1686 T72393 T49131 arg1Of reprocessed,for
R55974 T69625 T49131 arg2Of study,for
R6998 T69625 T60843 arg1Of study,this
R67744 T46398 T12832 arg1Of were,Although
R43629 T32530 T12832 arg2Of are,Although
R1401 T29672 T24787 arg1Of datasets,cryo-EM
R89552 T29672 T9596 arg1Of datasets,of
R67665 T14676 T9596 arg2Of 53,of
R80940 T37894 T45576 arg1Of glycosylated,fully
R76365 T35124 T37894 arg1Of MERS,glycosylated
R75905 T35287 T35124 arg1Of virus,MERS
R59119 T35287 T87593 arg1Of virus,S41
R60460 T87593 T79382 arg1Of S41,and
R21732 T63281 T79382 arg2Of chimpanzee,and
R19327 T35287 T63281 arg1Of virus,chimpanzee
R8406 T35287 T35247 arg1Of virus,simian
R69725 T35287 T82138 arg1Of virus,immunodeficiency
R55541 T14676 T35287 arg1Of 53,virus
R62464 T35287 T14224 arg1Of virus,(
R13007 T81517 T14224 arg2Of SIVcpz,(
R57966 T3442 T14224 arg3Of ),(
R58028 T29672 T32530 arg1Of datasets,are
R4932 T95444 T32530 arg2Of available,are
R86107 T32530 T45598 arg1Of are,also
R62361 T29672 T95444 arg1Of datasets,available
R89109 T46398 T17171 arg1Of were,","
R65623 T37597 T88916 arg1Of data,only
R22986 T37597 T2700 arg1Of data,the
R34869 T37597 T19064 arg1Of data,HIV
R99409 T19064 T16401 arg1Of HIV,and
R21820 T74879 T16401 arg2Of SARS,and
R87987 T37597 T74879 arg1Of data,SARS
R84789 T37597 T46398 arg1Of data,were
R79506 T10901 T46398 arg2Of of,were
R74395 T37597 T10901 arg1Of data,of
R7658 T58744 T10901 arg2Of quality,of
R98976 T58744 T19935 arg1Of quality,sufficient
R4181 T58744 T47642 arg1Of quality,(
R34223 T27616 T47642 arg2Of Fig. 5,(
R6426 T15042 T47642 arg3Of ),(
R23813 T55283 T12200 arg1Of showed51,recently
R91435 T64790 T55283 arg1Of We,showed51
R54019 T85969 T15501 arg1Of dynamics,in

LitCovid-sample-PD-FMA

Id Subject Object Predicate Lexical cue fma_id
T102 58-61 Body_part denotes HIV http://purl.org/sig/ont/fma/fma278683
T103 339-342 Body_part denotes HIV http://purl.org/sig/ont/fma/fma278683

LitCovid-sample-PD-NCBITaxon

Id Subject Object Predicate Lexical cue ncbi_taxonomy_id
T128 58-63 Species denotes HIV-1 NCBItxid:11676
T129 147-151 Species denotes SARS NCBItxid:694009
T130 245-249 Species denotes MERS NCBItxid:1335626
T131 258-268 Species denotes chimpanzee NCBItxid:9598
T132 269-298 Species denotes simian immunodeficiency virus NCBItxid:11723
T133 300-306 Species denotes SIVcpz NCBItxid:388909
T134 339-342 Species denotes HIV NCBItxid:57667|NCBItxid:35274|NCBItxid:12721|NCBItxid:11709|NCBItxid:11676
T139 347-351 Species denotes SARS NCBItxid:694009

LitCovid-sample-sentences

Id Subject Object Predicate Lexical cue
T105 42-196 Sentence denotes The results for HIV-1 Env were reproduced directly from Berndsen et al.51 while the previously published SARS 2P dataset52 was reprocessed for this study.
T106 197-393 Sentence denotes Although cryo-EM datasets of fully glycosylated MERS S41 and chimpanzee simian immunodeficiency virus (SIVcpz)53 are also available, only the HIV and SARS data were of sufficient quality (Fig. 5).

LitCovid-sample-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T61 147-151 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T62 276-292 Disease denotes immunodeficiency http://purl.obolibrary.org/obo/MONDO_0021094
T63 347-351 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091

LitCovid-sample-Pubtator

Id Subject Object Predicate Lexical cue pubann:denotes
664 58-63 Species denotes HIV-1 Tax:11676
657 64-67 Gene denotes Env Gene:64006
665 147-153 Species denotes SARS 2 Tax:2697049
689 245-249 Disease denotes MERS MESH:D018352
666 258-268 Species denotes chimpanzee Tax:9598
667 269-307 Species denotes simian immunodeficiency virus (SIVcpz) Tax:11723
690 347-351 Disease denotes SARS MESH:D045169

LitCovid-sample-UniProt

Id Subject Object Predicate Lexical cue uniprot_id
T3771 64-67 Protein denotes Env https://www.uniprot.org/uniprot/C1JJY3|https://www.uniprot.org/uniprot/P24123

LitCovid-sample-PD-HP

Id Subject Object Predicate Lexical cue hp_id
T1 276-292 Phenotype denotes immunodeficiency http://purl.obolibrary.org/obo/HP_0002721

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T105 42-196 Sentence denotes The results for HIV-1 Env were reproduced directly from Berndsen et al.51 while the previously published SARS 2P dataset52 was reprocessed for this study.
T106 197-393 Sentence denotes Although cryo-EM datasets of fully glycosylated MERS S41 and chimpanzee simian immunodeficiency virus (SIVcpz)53 are also available, only the HIV and SARS data were of sufficient quality (Fig. 5).

LitCovid-PD-HP

Id Subject Object Predicate Lexical cue hp_id
T1 276-292 Phenotype denotes immunodeficiency http://purl.obolibrary.org/obo/HP_0002721