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PMC:3589482 / 39148-39477 JSONTXT

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bionlp-st-ge-2016-spacy-parsed

Id Subject Object Predicate Lexical cue
T17853 328-329 . denotes .
T17852 325-328 NNP denotes LPS
T17851 322-324 TO denotes to
T17850 313-321 NN denotes response
T17849 310-312 IN denotes in
T17848 301-309 NN denotes activity
T17847 292-300 NN denotes promoter
T17846 283-291 NNP denotes SerpinB2
T17845 280-282 IN denotes of
T17844 269-279 NN denotes regulation
T17843 265-268 DT denotes the
T17842 262-264 IN denotes in
T17841 255-261 NN denotes factor
T17840 249-254 JJ denotes major
T17839 247-248 DT denotes a
T17838 243-246 RB denotes not
T17837 240-242 VBZ denotes is
T17836 235-239 CD denotes T217
T17835 232-234 IN denotes at
T17834 230-231 NN denotes β
T17833 229-230 : denotes -
T17832 224-229 NNP denotes C/EBP
T17831 221-223 IN denotes of
T17830 205-220 NN denotes phosphorylation
T17829 200-204 IN denotes that
T17828 189-199 VBG denotes confirming
T17827 187-188 : denotes ;
T17826 186-187 -RRB- denotes )
T17825 181-186 NN denotes right
T17824 179-180 , denotes ,
T17823 177-179 NNP denotes 8C
T17822 172-176 NNP denotes Fig.
T17821 171-172 -LRB- denotes (
T17820 169-170 NN denotes β
T17819 168-169 : denotes -
T17818 163-168 NNP denotes C/EBP
T17817 153-162 JJ denotes wild-type
T17816 150-152 IN denotes of
T17815 145-149 DT denotes that
T17814 139-144 IN denotes above
T17813 130-138 NN denotes activity
T17812 121-129 NN denotes promoter
T17811 112-120 JJ denotes SerpinB2
T17810 103-111 VB denotes increase
T17809 89-102 RB denotes significantly
T17808 85-88 RB denotes not
T17807 81-84 VBD denotes did
T17806 76-80 NNS denotes MEFs
T17805 74-75 CD denotes −
T17804 73-74 VBD denotes /
T17803 72-73 NNP denotes −
T17802 67-72 NNP denotes Cebpb
T17801 64-66 IN denotes in
T17800 62-63 , denotes ,
T17799 56-62 NNP denotes βT217A
T17798 51-56 NNP denotes C/EBP
T17797 49-50 , denotes ,
T17796 43-49 JJ denotes mutant
T17795 26-42 NN denotes phospho-acceptor
T17794 24-25 NN denotes β
T17793 23-24 : denotes -
T17792 18-23 NNP denotes C/EBP
T17791 14-17 DT denotes the
T17790 11-13 IN denotes of
T17789 0-10 NN denotes Expression
R12844 T17789 T17804 nsubj Expression,/
R12845 T17790 T17789 prep of,Expression
R12846 T17791 T17792 det the,C/EBP
R12847 T17792 T17790 pobj C/EBP,of
R12848 T17793 T17794 punct -,β
R12849 T17794 T17796 amod β,mutant
R12850 T17795 T17796 compound phospho-acceptor,mutant
R12851 T17796 T17789 appos mutant,Expression
R12852 T17797 T17789 punct ",",Expression
R12853 T17798 T17799 compound C/EBP,βT217A
R12854 T17799 T17789 appos βT217A,Expression
R12855 T17800 T17789 punct ",",Expression
R12856 T17801 T17789 prep in,Expression
R12857 T17802 T17803 compound Cebpb,−
R12858 T17803 T17801 pobj −,in
R12859 T17804 T17804 ROOT /,/
R12860 T17805 T17806 nummod −,MEFs
R12861 T17806 T17810 nsubj MEFs,increase
R12862 T17807 T17810 aux did,increase
R12863 T17808 T17810 neg not,increase
R12864 T17809 T17810 advmod significantly,increase
R12865 T17810 T17804 ccomp increase,/
R12866 T17811 T17813 amod SerpinB2,activity
R12867 T17812 T17813 compound promoter,activity
R12868 T17813 T17810 dobj activity,increase
R12869 T17814 T17813 prep above,activity
R12870 T17815 T17814 pobj that,above
R12871 T17816 T17815 prep of,that
R12872 T17817 T17820 amod wild-type,β
R12873 T17818 T17820 compound C/EBP,β
R12874 T17819 T17820 punct -,β
R12875 T17820 T17816 pobj β,of
R12876 T17821 T17823 punct (,8C
R12877 T17822 T17823 compound Fig.,8C
R12878 T17823 T17810 npadvmod 8C,increase
R12879 T17824 T17823 punct ",",8C
R12880 T17825 T17823 appos right,8C
R12881 T17826 T17823 punct ),8C
R12882 T17827 T17810 punct ;,increase
R12883 T17828 T17810 advcl confirming,increase
R12884 T17829 T17837 mark that,is
R12885 T17830 T17837 nsubj phosphorylation,is
R12886 T17831 T17830 prep of,phosphorylation
R12887 T17832 T17831 pobj C/EBP,of
R12888 T17833 T17834 punct -,β
R12889 T17834 T17830 conj β,phosphorylation
R12890 T17835 T17830 prep at,phosphorylation
R12891 T17836 T17835 pobj T217,at
R12892 T17837 T17828 ccomp is,confirming
R12893 T17838 T17837 neg not,is
R12894 T17839 T17841 det a,factor
R12895 T17840 T17841 amod major,factor
R12896 T17841 T17837 attr factor,is
R12897 T17842 T17841 prep in,factor
R12898 T17843 T17844 det the,regulation
R12899 T17844 T17842 pobj regulation,in
R12900 T17845 T17844 prep of,regulation
R12901 T17846 T17848 compound SerpinB2,activity
R12902 T17847 T17848 compound promoter,activity
R12903 T17848 T17845 pobj activity,of
R12904 T17849 T17841 prep in,factor
R12905 T17850 T17849 pobj response,in
R12906 T17851 T17850 prep to,response
R12907 T17852 T17851 pobj LPS,to
R12908 T17853 T17804 punct .,/

pmc-enju-pas

Id Subject Object Predicate Lexical cue
T16893 325-328 NN denotes LPS
T16892 322-324 TO denotes to
T16891 313-321 NN denotes response
T16890 310-312 IN denotes in
T16889 301-309 NN denotes activity
T16888 292-300 NN denotes promoter
T16887 283-291 NN denotes SerpinB2
T16886 280-282 IN denotes of
T16885 269-279 NN denotes regulation
T16884 265-268 DT denotes the
T16883 262-264 IN denotes in
T16882 255-261 NN denotes factor
T16881 249-254 JJ denotes major
T16880 247-248 DT denotes a
T16879 243-246 RB denotes not
T16878 240-242 VB denotes is
T16877 235-239 NN denotes T217
T16876 232-234 IN denotes at
T16875 224-231 NN denotes C/EBP-β
T16874 221-223 IN denotes of
T16873 205-220 NN denotes phosphorylation
T16872 200-204 IN denotes that
T16871 189-199 VB denotes confirming
T16870 187-188 -COLON- denotes ;
T16869 186-187 -RRB- denotes )
T16868 181-186 JJ denotes right
T16867 179-180 -COMMA- denotes ,
T16866 177-179 NNP denotes 8C
T16865 172-176 NNP denotes Fig.
T16864 171-172 -LRB- denotes (
T16863 163-170 NN denotes C/EBP-β
T16862 153-162 JJ denotes wild-type
T16861 150-152 IN denotes of
T16860 145-149 DT denotes that
T16859 139-144 IN denotes above
T16858 130-138 NN denotes activity
T16857 121-129 NN denotes promoter
T16856 112-120 NN denotes SerpinB2
T16855 103-111 VB denotes increase
T16854 89-102 RB denotes significantly
T16853 85-88 RB denotes not
T16852 81-84 VB denotes did
T16851 76-80 NN denotes MEFs
T16850 67-75 NNP denotes Cebpb−/−
T16849 64-66 IN denotes in
T16848 62-63 -COMMA- denotes ,
T16847 51-62 NN denotes C/EBPβT217A
T16846 49-50 -COMMA- denotes ,
T16845 43-49 NN denotes mutant
T16844 26-42 NN denotes phospho-acceptor
T16843 18-25 NN denotes C/EBP-β
T16842 14-17 DT denotes the
T16841 11-13 IN denotes of
T16840 0-10 NN denotes Expression
R12214 T16840 T16841 arg1Of Expression,of
R12215 T16840 T16852 arg1Of Expression,did
R12216 T16840 T16855 arg1Of Expression,increase
R12217 T16845 T16841 arg2Of mutant,of
R12218 T16845 T16842 arg1Of mutant,the
R12219 T16845 T16843 arg1Of mutant,C/EBP-β
R12220 T16845 T16844 arg1Of mutant,phospho-acceptor
R12221 T16845 T16846 arg1Of mutant,","
R12222 T16847 T16846 arg2Of C/EBPβT217A,","
R12223 T16851 T16849 arg2Of MEFs,in
R12224 T16851 T16850 arg1Of MEFs,Cebpb−/−
R12225 T16855 T16848 arg1Of increase,","
R12226 T16855 T16849 arg1Of increase,in
R12227 T16855 T16852 arg2Of increase,did
R12228 T16855 T16853 arg1Of increase,not
R12229 T16855 T16854 arg1Of increase,significantly
R12230 T16855 T16870 arg1Of increase,;
R12231 T16855 T16871 modOf increase,confirming
R12232 T16858 T16855 arg2Of activity,increase
R12233 T16858 T16856 arg1Of activity,SerpinB2
R12234 T16858 T16857 arg1Of activity,promoter
R12235 T16858 T16859 arg1Of activity,above
R12236 T16858 T16864 arg1Of activity,(
R12237 T16860 T16859 arg2Of that,above
R12238 T16860 T16861 arg1Of that,of
R12239 T16863 T16861 arg2Of C/EBP-β,of
R12240 T16863 T16862 arg1Of C/EBP-β,wild-type
R12241 T16866 T16864 arg2Of 8C,(
R12242 T16866 T16865 arg1Of 8C,Fig.
R12243 T16866 T16867 arg1Of 8C,","
R12244 T16868 T16867 arg2Of right,","
R12245 T16869 T16864 arg3Of ),(
R12246 T16873 T16874 arg1Of phosphorylation,of
R12247 T16873 T16876 arg1Of phosphorylation,at
R12248 T16873 T16878 arg1Of phosphorylation,is
R12249 T16875 T16874 arg2Of C/EBP-β,of
R12250 T16877 T16876 arg2Of T217,at
R12251 T16878 T16871 arg2Of is,confirming
R12252 T16878 T16872 arg1Of is,that
R12253 T16878 T16879 arg1Of is,not
R12254 T16882 T16878 arg2Of factor,is
R12255 T16882 T16880 arg1Of factor,a
R12256 T16882 T16881 arg1Of factor,major
R12257 T16882 T16883 arg1Of factor,in
R12258 T16885 T16883 arg2Of regulation,in
R12259 T16885 T16884 arg1Of regulation,the
R12260 T16885 T16886 arg1Of regulation,of
R12261 T16885 T16890 arg1Of regulation,in
R12262 T16889 T16886 arg2Of activity,of
R12263 T16889 T16887 arg1Of activity,SerpinB2
R12264 T16889 T16888 arg1Of activity,promoter
R12265 T16890 T16892 arg1Of in,to
R12266 T16891 T16890 arg2Of response,in
R12267 T16893 T16890 arg3Of LPS,in

bionlp-st-ge-2016-test-proteins

Id Subject Object Predicate Lexical cue
T16626 112-120 Protein denotes SerpinB2
T16625 67-72 Protein denotes Cebpb
T16624 51-62 Protein denotes C/EBPβT217A
T16623 18-49 Protein denotes C/EBP-β phospho-acceptor mutant
T16629 283-291 Protein denotes SerpinB2
T16628 224-231 Protein denotes C/EBP-β
T16627 163-170 Protein denotes C/EBP-β

bionlp-st-ge-2016-uniprot

Id Subject Object Predicate Lexical cue
T17204 283-291 http://www.uniprot.org/uniprot/P05120 denotes SerpinB2
T17203 112-120 http://www.uniprot.org/uniprot/P05120 denotes SerpinB2
T17197 67-72 http://www.uniprot.org/uniprot/P28033 denotes Cebpb
T17190 224-231 http://www.uniprot.org/uniprot/P28033 denotes C/EBP-β
T17189 163-170 http://www.uniprot.org/uniprot/P28033 denotes C/EBP-β
T17188 18-25 http://www.uniprot.org/uniprot/P28033 denotes C/EBP-β

GO-BP

Id Subject Object Predicate Lexical cue
T16666 313-328 http://purl.obolibrary.org/obo/GO_0032496 denotes response to LPS
T16664 301-321 http://purl.obolibrary.org/obo/GO_0014823 denotes activity in response
T16662 269-279 http://purl.obolibrary.org/obo/GO_0065007 denotes regulation
T16653 205-220 http://purl.obolibrary.org/obo/GO_0016310 denotes phosphorylation

sentences

Id Subject Object Predicate Lexical cue
T16496 0-329 Sentence denotes Expression of the C/EBP-β phospho-acceptor mutant, C/EBPβT217A, in Cebpb−/− MEFs did not significantly increase SerpinB2 promoter activity above that of wild-type C/EBP-β (Fig. 8C, right); confirming that phosphorylation of C/EBP-β at T217 is not a major factor in the regulation of SerpinB2 promoter activity in response to LPS.
T236 0-329 Sentence denotes Expression of the C/EBP-β phospho-acceptor mutant, C/EBPβT217A, in Cebpb−/− MEFs did not significantly increase SerpinB2 promoter activity above that of wild-type C/EBP-β (Fig. 8C, right); confirming that phosphorylation of C/EBP-β at T217 is not a major factor in the regulation of SerpinB2 promoter activity in response to LPS.

simple1

Id Subject Object Predicate Lexical cue
T16703 283-291 Protein denotes SerpinB2
T16702 224-231 Protein denotes C/EBP-β
T16701 163-170 Protein denotes C/EBP-β
T16700 112-120 Protein denotes SerpinB2
T16699 67-72 Protein denotes Cebpb
T16698 51-62 Protein denotes C/EBPβT217A
T16697 18-49 Protein denotes C/EBP-β phospho-acceptor mutant

BioNLP16_DUT

Id Subject Object Predicate Lexical cue
T17162 313-321 Regulation denotes response
T17161 205-220 Phosphorylation denotes phosphorylation
T17160 269-279 Regulation denotes regulation
T17159 103-111 Positive_regulation denotes increase
T17158 0-10 Gene_expression denotes Expression
T17124 283-291 Protein denotes SerpinB2
T17123 224-231 Protein denotes C/EBP-β
T17122 163-170 Protein denotes C/EBP-β
T17121 112-120 Protein denotes SerpinB2
T17120 67-72 Protein denotes Cebpb
T17119 51-62 Protein denotes C/EBPβT217A
T17118 18-49 Protein denotes C/EBP-β phospho-acceptor mutant
R12458 T17118 T17158 themeOf C/EBP-β phospho-acceptor mutant,Expression
R12459 T17119 T17158 themeOf C/EBPβT217A,Expression
R12460 T17120 T17158 themeOf Cebpb,Expression
R12461 T17121 T17159 themeOf SerpinB2,increase
R12462 T17123 T17161 themeOf C/EBP-β,phosphorylation
R12463 T17124 T17160 themeOf SerpinB2,regulation
R12464 T17124 T17162 themeOf SerpinB2,response

BioNLP16_Messiy

Id Subject Object Predicate Lexical cue
T17360 283-291 Protein denotes SerpinB2
T17359 224-231 Protein denotes C/EBP-β
T17358 163-170 Protein denotes C/EBP-β
T17357 112-120 Protein denotes SerpinB2
T17356 67-72 Protein denotes Cebpb
T17355 51-62 Protein denotes C/EBPβT217A
T17354 18-49 Protein denotes C/EBP-β phospho-acceptor mutant
T17392 205-220 Phosphorylation denotes phosphorylation
T17391 269-279 Regulation denotes regulation
T17390 0-10 Gene_expression denotes Expression
T17389 103-111 Positive_regulation denotes increase
R12561 T17354 T17390 themeOf C/EBP-β phospho-acceptor mutant,Expression
R12562 T17355 T17390 themeOf C/EBPβT217A,Expression
R12563 T17356 T17390 themeOf Cebpb,Expression
R12564 T17359 T17392 themeOf C/EBP-β,phosphorylation
R12565 T17360 T17391 themeOf SerpinB2,regulation
R12587 T17390 T17389 themeOf Expression,increase
R12588 T17390 T17389 themeOf Expression,increase
R12589 T17390 T17389 themeOf Expression,increase

DLUT931

Id Subject Object Predicate Lexical cue
T17274 255-261 Regulation denotes factor
T17273 205-220 Phosphorylation denotes phosphorylation
T17272 103-111 Positive_regulation denotes increase
T17271 0-10 Gene_expression denotes Expression
T17236 283-291 Protein denotes SerpinB2
T17235 224-231 Protein denotes C/EBP-β
T17234 163-170 Protein denotes C/EBP-β
T17233 112-120 Protein denotes SerpinB2
T17232 67-72 Protein denotes Cebpb
T17231 51-62 Protein denotes C/EBPβT217A
T17230 18-49 Protein denotes C/EBP-β phospho-acceptor mutant
R12506 T17230 T17271 themeOf C/EBP-β phospho-acceptor mutant,Expression
R12534 T17271 T17272 themeOf Expression,increase
R12508 T17235 T17273 themeOf C/EBP-β,phosphorylation
R12536 T17273 T17274 themeOf phosphorylation,factor
R12507 T17231 T17271 themeOf C/EBPβT217A,Expression
R12535 T17271 T17272 themeOf Expression,increase

bionlp-st-ge-2016-test-ihmc

Id Subject Object Predicate Lexical cue
T17648 0-50 Gene_expression denotes Expression of the C/EBP-β phospho-acceptor mutant,
T17626 112-129 Entity denotes SerpinB2 promoter
T17624 67-73 Protein denotes Cebpb−
T17621 283-291 Protein denotes SerpinB2
T17609 112-120 Protein denotes SerpinB2
T17603 11-50 Protein denotes of the C/EBP-β phospho-acceptor mutant,
T17602 325-328 Entity denotes LPS
T17599 51-73 Protein denotes C/EBPβT217A, in Cebpb−
T17594 235-239 Entity denotes T217
T17573 153-170 Protein denotes wild-type C/EBP-β
T17571 221-231 Protein denotes of C/EBP-β
T17568 283-300 Entity denotes SerpinB2 promoter
T17567 172-175 Protein denotes Fig
T17565 76-80 Protein denotes MEFs
R12681 T17568 T17621 partOf SerpinB2 promoter,SerpinB2
R12689 T17603 T17648 themeOf "of the C/EBP-β phospho-acceptor mutant,","Expression of the C/EBP-β phospho-acceptor mutant,"
R12701 T17626 T17609 partOf SerpinB2 promoter,SerpinB2

bionlp-st-ge-2016-test-tees

Id Subject Object Predicate Lexical cue
T17447 103-111 Positive_regulation denotes increase
T17446 103-111 Positive_regulation denotes increase
T17445 103-111 Positive_regulation denotes increase
T17444 0-10 Gene_expression denotes Expression
T17443 0-10 Gene_expression denotes Expression
T17442 0-10 Gene_expression denotes Expression
T17441 283-300 Protein denotes SerpinB2 promoter
T17440 224-231 Protein denotes C/EBP-β
T17439 112-129 Protein denotes SerpinB2 promoter
T17438 67-80 Protein denotes Cebpb−/− MEFs
T17437 51-62 Protein denotes C/EBPβT217A
T17436 18-49 Protein denotes C/EBP-β phospho-acceptor mutant
T17449 269-279 Regulation denotes regulation
T17448 205-220 Phosphorylation denotes phosphorylation
R12613 T17436 T17442 themeOf C/EBP-β phospho-acceptor mutant,Expression
R12614 T17437 T17443 themeOf C/EBPβT217A,Expression
R12615 T17438 T17444 themeOf Cebpb−/− MEFs,Expression
R12616 T17440 T17448 themeOf C/EBP-β,phosphorylation
R12617 T17441 T17449 themeOf SerpinB2 promoter,regulation
R12618 T17442 T17445 themeOf Expression,increase
R12619 T17443 T17446 themeOf Expression,increase
R12620 T17444 T17447 themeOf Expression,increase
R12621 T17448 T17449 causeOf phosphorylation,regulation

testone

Id Subject Object Predicate Lexical cue
T16358 205-220 Phosphorylation denotes phosphorylation
T16357 103-111 Positive_regulation denotes increase
T16356 0-10 Gene_expression denotes Expression
T16324 283-291 Protein denotes SerpinB2
T16323 224-231 Protein denotes C/EBP-β
T16322 163-170 Protein denotes C/EBP-β
T16321 112-120 Protein denotes SerpinB2
T16320 67-72 Protein denotes Cebpb
T16319 51-62 Protein denotes C/EBPβT217A
T16318 18-49 Protein denotes C/EBP-β phospho-acceptor mutant
R11958 T16318 T16356 themeOf C/EBP-β phospho-acceptor mutant,Expression
R11959 T16319 T16356 themeOf C/EBPβT217A,Expression
R11960 T16323 T16358 themeOf C/EBP-β,phosphorylation

test3

Id Subject Object Predicate Lexical cue
T16454 283-291 Protein denotes SerpinB2
T16453 269-279 Regulation denotes regulation
T16452 224-231 Protein denotes C/EBP-β
T16451 205-220 Phosphorylation denotes phosphorylation
T16450 163-170 Protein denotes C/EBP-β
T16449 112-120 Protein denotes SerpinB2
T16448 103-111 Positive_regulation denotes increase
T16447 67-72 Protein denotes Cebpb
T16446 51-62 Protein denotes C/EBPβT217A
T16445 18-49 Protein denotes C/EBP-β phospho-acceptor mutant
T16444 0-10 Gene_expression denotes Expression
T16396 283-291 Protein denotes SerpinB2
T16395 224-231 Protein denotes C/EBP-β
T16394 163-170 Protein denotes C/EBP-β
T16393 112-120 Protein denotes SerpinB2
T16392 67-72 Protein denotes Cebpb
T16391 51-62 Protein denotes C/EBPβT217A
T16390 18-49 Protein denotes C/EBP-β phospho-acceptor mutant
R11994 T16445 T16444 themeOf C/EBP-β phospho-acceptor mutant,Expression
R11995 T16446 T16444 themeOf C/EBPβT217A,Expression
R11996 T16452 T16451 themeOf C/EBP-β,phosphorylation