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PMC:3585731 / 43827-44181 JSONTXT

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testone

Id Subject Object Predicate Lexical cue
T20788 241-256 Phosphorylation denotes phosphorylation
T20787 37-52 Phosphorylation denotes phosphorylation
T20738 267-271 Protein denotes RIP1
R13915 T20738 T20788 themeOf RIP1,phosphorylation

pmc-enju-pas

Id Subject Object Predicate Lexical cue
T21748 343-353 NN denotes regulation
T21747 332-342 JJ denotes endogenous
T21746 324-331 VB denotes reflect
T21745 320-323 RB denotes not
T21744 315-319 VB denotes does
T21743 311-314 CC denotes and
T21742 302-310 NN denotes artifact
T21741 296-301 FW denotes vitro
T21740 293-295 FW denotes in
T21739 290-292 DT denotes an
T21738 279-289 VB denotes represents
T21737 272-278 RB denotes likely
T21736 267-271 NN denotes RIP1
T21735 264-266 IN denotes by
T21734 260-263 NN denotes Akt
T21733 257-259 IN denotes of
T21732 241-256 NN denotes phosphorylation
T21731 234-240 JJ denotes direct
T21730 229-233 IN denotes that
T21729 218-228 VB denotes suggesting
T21728 216-217 -COMMA- denotes ,
T21727 209-216 NN denotes peptide
T21726 202-208 NN denotes Thr435
T21725 194-201 IN denotes against
T21724 187-193 VB denotes raised
T21723 178-186 NN denotes antibody
T21722 161-177 JJ denotes phospho-specific
T21721 159-160 DT denotes a
T21720 154-158 IN denotes with
T21719 145-153 NN denotes blotting
T21718 137-144 JJ denotes western
T21717 134-136 CC denotes or
T21716 121-133 NN denotes spectrometry
T21715 116-120 NN denotes mass
T21714 109-115 CC denotes either
T21713 103-108 VB denotes using
T21712 97-102 NN denotes cells
T21711 92-96 NN denotes L929
T21710 89-91 IN denotes in
T21709 85-88 NN denotes Akt
T21708 74-84 JJ denotes endogenous
T21707 71-73 IN denotes on
T21706 62-70 NN denotes residues
T21705 56-61 DT denotes these
T21704 53-55 IN denotes of
T21703 37-52 NN denotes phosphorylation
T21702 29-36 VB denotes confirm
T21701 26-28 TO denotes to
T21700 21-25 JJ denotes able
T21699 17-20 RB denotes not
T21698 12-16 VB denotes were
T21697 9-11 PRP denotes we
T21696 7-8 -COMMA- denotes ,
T21695 0-7 RB denotes However
R14338 T21697 T21698 arg1Of we,were
R14339 T21697 T21700 arg1Of we,able
R14340 T21697 T21702 arg1Of we,confirm
R14341 T21698 T21695 arg1Of were,However
R14342 T21698 T21696 arg1Of were,","
R14343 T21698 T21699 arg1Of were,not
R14344 T21698 T21728 arg1Of were,","
R14345 T21698 T21729 modOf were,suggesting
R14346 T21700 T21698 arg2Of able,were
R14347 T21702 T21700 arg2Of confirm,able
R14348 T21702 T21701 arg1Of confirm,to
R14349 T21703 T21702 arg2Of phosphorylation,confirm
R14350 T21703 T21704 arg1Of phosphorylation,of
R14351 T21703 T21707 arg1Of phosphorylation,on
R14352 T21706 T21704 arg2Of residues,of
R14353 T21706 T21705 arg1Of residues,these
R14354 T21709 T21707 arg2Of Akt,on
R14355 T21709 T21708 arg1Of Akt,endogenous
R14356 T21709 T21710 arg1Of Akt,in
R14357 T21709 T21713 arg1Of Akt,using
R14358 T21712 T21710 arg2Of cells,in
R14359 T21712 T21711 arg1Of cells,L929
R14360 T21716 T21715 arg1Of spectrometry,mass
R14361 T21716 T21717 arg1Of spectrometry,or
R14362 T21717 T21713 arg2Of or,using
R14363 T21717 T21714 arg1Of or,either
R14364 T21717 T21720 arg1Of or,with
R14365 T21719 T21717 arg2Of blotting,or
R14366 T21719 T21718 arg1Of blotting,western
R14367 T21723 T21720 arg2Of antibody,with
R14368 T21723 T21721 arg1Of antibody,a
R14369 T21723 T21722 arg1Of antibody,phospho-specific
R14370 T21723 T21724 arg2Of antibody,raised
R14371 T21724 T21725 arg1Of raised,against
R14372 T21727 T21725 arg2Of peptide,against
R14373 T21727 T21726 arg1Of peptide,Thr435
R14374 T21732 T21731 arg1Of phosphorylation,direct
R14375 T21732 T21733 arg1Of phosphorylation,of
R14376 T21732 T21735 arg1Of phosphorylation,by
R14377 T21732 T21738 arg1Of phosphorylation,represents
R14378 T21732 T21744 arg1Of phosphorylation,does
R14379 T21732 T21746 arg1Of phosphorylation,reflect
R14380 T21734 T21733 arg2Of Akt,of
R14381 T21736 T21735 arg2Of RIP1,by
R14382 T21738 T21743 arg1Of represents,and
R14383 T21741 T21740 arg1Of vitro,in
R14384 T21742 T21738 arg2Of artifact,represents
R14385 T21742 T21739 arg1Of artifact,an
R14386 T21742 T21741 arg1Of artifact,vitro
R14387 T21743 T21729 arg2Of and,suggesting
R14388 T21743 T21730 arg1Of and,that
R14389 T21743 T21737 arg1Of and,likely
R14390 T21746 T21743 arg2Of reflect,and
R14391 T21746 T21744 arg2Of reflect,does
R14392 T21746 T21745 arg1Of reflect,not
R14393 T21748 T21746 arg2Of regulation,reflect
R14394 T21748 T21747 arg1Of regulation,endogenous

bionlp-st-ge-2016-test-proteins

Id Subject Object Predicate Lexical cue
T21065 267-271 Protein denotes RIP1

bionlp-st-ge-2016-uniprot

Id Subject Object Predicate Lexical cue
T22925 267-271 http://www.uniprot.org/uniprot/Q13546 denotes RIP1
T22865 260-263 http://www.uniprot.org/uniprot/P31751 denotes Akt
T22864 85-88 http://www.uniprot.org/uniprot/P31751 denotes Akt
T22831 260-263 http://www.uniprot.org/uniprot/P31749 denotes Akt
T22830 85-88 http://www.uniprot.org/uniprot/P31749 denotes Akt
T22899 260-263 http://www.uniprot.org/uniprot/Q9Y243 denotes Akt
T22898 85-88 http://www.uniprot.org/uniprot/Q9Y243 denotes Akt

GO-BP

Id Subject Object Predicate Lexical cue
T21202 343-353 http://purl.obolibrary.org/obo/GO_0065007 denotes regulation
T21111 241-256 http://purl.obolibrary.org/obo/GO_0016310 denotes phosphorylation
T21110 37-52 http://purl.obolibrary.org/obo/GO_0016310 denotes phosphorylation

GO-MF

Id Subject Object Predicate Lexical cue
T21275 178-186 http://purl.obolibrary.org/obo/GO_0003823 denotes antibody

GO-CC

Id Subject Object Predicate Lexical cue
T21281 97-102 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T21302 178-186 http://purl.obolibrary.org/obo/GO_0042571 denotes antibody
T21301 178-186 http://purl.obolibrary.org/obo/GO_0019815 denotes antibody

sentences

Id Subject Object Predicate Lexical cue
T20949 0-354 Sentence denotes However, we were not able to confirm phosphorylation of these residues on endogenous Akt in L929 cells using either mass spectrometry or western blotting with a phospho-specific antibody raised against Thr435 peptide, suggesting that direct phosphorylation of Akt by RIP1 likely represents an in vitro artifact and does not reflect endogenous regulation.
T274 0-354 Sentence denotes However, we were not able to confirm phosphorylation of these residues on endogenous Akt in L929 cells using either mass spectrometry or western blotting with a phospho-specific antibody raised against Thr435 peptide, suggesting that direct phosphorylation of Akt by RIP1 likely represents an in vitro artifact and does not reflect endogenous regulation.

simple1

Id Subject Object Predicate Lexical cue
T21317 267-271 Protein denotes RIP1

BioNLP16_DUT

Id Subject Object Predicate Lexical cue
T22764 267-271 Protein denotes RIP1
T22799 241-256 Phosphorylation denotes phosphorylation
R15386 T22764 T22799 themeOf RIP1,phosphorylation

BioNLP16_Messiy

Id Subject Object Predicate Lexical cue
T23095 267-271 Protein denotes RIP1
T23130 241-256 Phosphorylation denotes phosphorylation
R15463 T23095 T23130 themeOf RIP1,phosphorylation

DLUT931

Id Subject Object Predicate Lexical cue
T23007 343-353 Regulation denotes regulation
T23006 241-256 Phosphorylation denotes phosphorylation
T22965 267-271 Protein denotes RIP1
R15437 T23006 T23007 themeOf phosphorylation,regulation
R15417 T22965 T23006 themeOf RIP1,phosphorylation

bionlp-st-ge-2016-test-ihmc

Id Subject Object Predicate Lexical cue
T23578 202-216 Entity denotes Thr435 peptide
T23546 267-271 Protein denotes RIP1
T23500 178-186 Protein denotes antibody
T23496 53-70 Entity denotes of these residues
T23482 74-88 Protein denotes endogenous Akt
T23621 257-263 Protein denotes of Akt
T23619 202-208 Entity denotes Thr435

bionlp-st-ge-2016-spacy-parsed

Id Subject Object Predicate Lexical cue
T24040 109-115 CC denotes either
T24039 103-108 VBG denotes using
T24038 97-102 NNS denotes cells
T24037 92-96 NNP denotes L929
T24036 89-91 IN denotes in
T24035 85-88 NNP denotes Akt
T24034 74-84 JJ denotes endogenous
T24033 71-73 IN denotes on
T24032 62-70 NNS denotes residues
T24031 56-61 DT denotes these
T24030 53-55 IN denotes of
T24029 37-52 NN denotes phosphorylation
T24028 29-36 VB denotes confirm
T24027 26-28 TO denotes to
T24026 21-25 JJ denotes able
T24025 17-20 RB denotes not
T24024 12-16 VBD denotes were
T24023 9-11 PRP denotes we
T24022 7-8 , denotes ,
T24021 0-7 RB denotes However
T24075 353-354 . denotes .
T24074 343-353 NN denotes regulation
T24073 332-342 JJ denotes endogenous
T24072 324-331 VB denotes reflect
T24071 320-323 RB denotes not
T24070 315-319 VBZ denotes does
T24069 311-314 CC denotes and
T24068 302-310 NN denotes artifact
T24067 296-301 NN denotes vitro
T24066 293-295 IN denotes in
T24065 290-292 DT denotes an
T24064 279-289 VBZ denotes represents
T24063 272-278 JJ denotes likely
T24062 267-271 NNP denotes RIP1
T24061 264-266 IN denotes by
T24060 260-263 NNP denotes Akt
T24059 257-259 IN denotes of
T24058 241-256 NN denotes phosphorylation
T24057 234-240 JJ denotes direct
T24056 229-233 IN denotes that
T24055 218-228 VBG denotes suggesting
T24054 216-217 , denotes ,
T24053 209-216 NN denotes peptide
T24052 202-208 NNP denotes Thr435
T24051 194-201 IN denotes against
T24050 187-193 VBN denotes raised
T24049 178-186 NN denotes antibody
T24048 161-177 JJ denotes phospho-specific
T24047 159-160 DT denotes a
T24046 154-158 IN denotes with
T24045 145-153 VBG denotes blotting
T24044 137-144 JJ denotes western
T24043 134-136 CC denotes or
T24042 121-133 NN denotes spectrometry
T24041 116-120 NN denotes mass
R16050 T24021 T24024 advmod However,were
R16051 T24022 T24024 punct ",",were
R16052 T24023 T24024 nsubj we,were
R16053 T24024 T24024 ROOT were,were
R16054 T24025 T24024 neg not,were
R16055 T24026 T24024 acomp able,were
R16056 T24027 T24028 aux to,confirm
R16057 T24028 T24026 xcomp confirm,able
R16058 T24029 T24028 dobj phosphorylation,confirm
R16059 T24030 T24029 prep of,phosphorylation
R16060 T24031 T24032 det these,residues
R16061 T24032 T24030 pobj residues,of
R16062 T24033 T24029 prep on,phosphorylation
R16063 T24034 T24035 compound endogenous,Akt
R16064 T24035 T24033 pobj Akt,on
R16065 T24036 T24035 prep in,Akt
R16066 T24037 T24038 compound L929,cells
R16067 T24038 T24036 pobj cells,in
R16068 T24039 T24028 advcl using,confirm
R16069 T24040 T24041 preconj either,mass
R16070 T24041 T24055 nmod mass,suggesting
R16071 T24042 T24041 amod spectrometry,mass
R16072 T24043 T24042 cc or,spectrometry
R16073 T24044 T24042 conj western,spectrometry
R16074 T24045 T24042 conj blotting,spectrometry
R16075 T24046 T24045 prep with,blotting
R16076 T24047 T24049 det a,antibody
R16077 T24048 T24049 amod phospho-specific,antibody
R16078 T24049 T24046 pobj antibody,with
R16079 T24050 T24049 acl raised,antibody
R16080 T24051 T24050 prep against,raised
R16081 T24052 T24053 compound Thr435,peptide
R16082 T24053 T24051 pobj peptide,against
R16083 T24054 T24045 punct ",",blotting
R16084 T24055 T24024 advcl suggesting,were
R16085 T24056 T24064 mark that,represents
R16086 T24057 T24058 amod direct,phosphorylation
R16087 T24058 T24064 nsubj phosphorylation,represents
R16088 T24059 T24058 prep of,phosphorylation
R16089 T24060 T24059 pobj Akt,of
R16090 T24061 T24058 prep by,phosphorylation
R16091 T24062 T24061 pobj RIP1,by
R16092 T24063 T24064 advmod likely,represents
R16093 T24064 T24055 advcl represents,suggesting
R16094 T24065 T24066 det an,in
R16095 T24066 T24064 prep in,represents
R16096 T24067 T24068 amod vitro,artifact
R16097 T24068 T24066 pobj artifact,in
R16098 T24069 T24064 cc and,represents
R16099 T24070 T24072 aux does,reflect
R16100 T24071 T24072 neg not,reflect
R16101 T24072 T24064 conj reflect,represents
R16102 T24073 T24074 amod endogenous,regulation
R16103 T24074 T24072 dobj regulation,reflect
R16104 T24075 T24024 punct .,were

bionlp-st-ge-2016-test-tees

Id Subject Object Predicate Lexical cue
T23228 343-353 Regulation denotes regulation
T23227 343-353 Regulation denotes regulation
T23226 241-256 Phosphorylation denotes phosphorylation
T23225 241-256 Phosphorylation denotes phosphorylation
T23224 267-271 Protein denotes RIP1
T23223 260-263 Protein denotes Akt
R15524 T23223 T23225 themeOf Akt,phosphorylation
R15525 T23224 T23226 themeOf RIP1,phosphorylation
R15526 T23225 T23227 themeOf phosphorylation,regulation
R15527 T23226 T23228 themeOf phosphorylation,regulation

test3

Id Subject Object Predicate Lexical cue
T20881 343-353 Regulation denotes regulation
T20880 267-271 Protein denotes RIP1
T20879 241-256 Phosphorylation denotes phosphorylation
T20878 37-52 Phosphorylation denotes phosphorylation
T20820 267-271 Protein denotes RIP1