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PMC:3589482 / 36146-36412 JSONTXT

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bionlp-st-ge-2016-spacy-parsed

Id Subject Object Predicate Lexical cue
T16165 265-266 . denotes .
T16164 262-265 NNP denotes LPS
T16163 259-261 TO denotes to
T16162 250-258 NN denotes response
T16161 247-249 IN denotes in
T16160 241-246 NNS denotes cells
T16159 238-240 IN denotes in
T16158 229-237 NN denotes promoter
T16157 220-228 NNP denotes SerpinB2
T16156 216-219 DT denotes the
T16155 211-215 IN denotes from
T16154 197-210 NN denotes transcription
T16153 189-196 VBG denotes driving
T16152 185-188 IN denotes for
T16151 178-184 NN denotes factor
T16150 168-177 JJ denotes essential
T16149 165-167 DT denotes an
T16148 161-164 VBD denotes was
T16147 159-160 NN denotes β
T16146 158-159 : denotes -
T16145 153-158 NNP denotes C/EBP
T16144 145-152 IN denotes whether
T16143 142-144 IN denotes of
T16142 133-141 NN denotes question
T16141 129-132 DT denotes the
T16140 121-128 VB denotes address
T16139 118-120 TO denotes to
T16138 111-117 VBD denotes wanted
T16137 108-110 PRP denotes we
T16136 106-107 , denotes ,
T16135 102-106 NN denotes vivo
T16134 99-101 IN denotes in
T16133 95-98 CC denotes and
T16132 89-94 NN denotes vitro
T16131 86-88 IN denotes in
T16130 81-85 DT denotes both
T16129 74-80 NN denotes manner
T16128 60-73 JJ denotes LPS-inducible
T16127 57-59 DT denotes an
T16126 54-56 IN denotes in
T16125 45-53 NN denotes promoter
T16124 36-44 JJ denotes proximal
T16123 27-35 NNP denotes SerpinB2
T16122 23-26 DT denotes the
T16121 20-22 TO denotes to
T16120 14-19 NNS denotes binds
T16119 12-13 NN denotes β
T16118 11-12 : denotes -
T16117 6-11 NNP denotes C/EBP
T16116 0-5 IN denotes Since
R11818 T16117 T16119 compound C/EBP,β
R11819 T16118 T16119 punct -,β
R11820 T16119 T16120 compound β,binds
R11821 T16120 T16116 pobj binds,Since
R11823 T16122 T16125 det the,promoter
R11824 T16123 T16125 nmod SerpinB2,promoter
R11825 T16124 T16125 amod proximal,promoter
R11826 T16125 T16121 pobj promoter,to
R11827 T16126 T16125 prep in,promoter
R11828 T16127 T16129 det an,manner
R11829 T16128 T16129 amod LPS-inducible,manner
R11830 T16129 T16126 pobj manner,in
R11831 T16130 T16131 preconj both,in
R11833 T16132 T16131 pobj vitro,in
R11834 T16133 T16131 cc and,in
R11835 T16134 T16131 conj in,in
R11836 T16135 T16134 pobj vivo,in
R11837 T16136 T16138 punct ",",wanted
R11838 T16137 T16138 nsubj we,wanted
R11839 T16138 T16138 ROOT wanted,wanted
R11840 T16139 T16140 aux to,address
R11841 T16140 T16138 xcomp address,wanted
R11842 T16141 T16142 det the,question
R11843 T16142 T16140 dobj question,address
R11844 T16143 T16142 prep of,question
R11845 T16144 T16148 mark whether,was
R11846 T16145 T16147 compound C/EBP,β
R11847 T16146 T16147 punct -,β
R11848 T16147 T16148 nsubj β,was
R11849 T16148 T16143 pcomp was,of
R11850 T16149 T16151 det an,factor
R11851 T16150 T16151 amod essential,factor
R11852 T16151 T16148 attr factor,was
R11853 T16152 T16151 prep for,factor
R11854 T16153 T16152 pcomp driving,for
R11855 T16154 T16153 dobj transcription,driving
R11856 T16155 T16153 prep from,driving
R11857 T16156 T16158 det the,promoter
R11858 T16157 T16158 compound SerpinB2,promoter
R11859 T16158 T16155 pobj promoter,from
R11860 T16159 T16158 prep in,promoter
R11861 T16160 T16159 pobj cells,in
R11862 T16161 T16153 prep in,driving
R11863 T16162 T16161 pobj response,in
R11864 T16163 T16162 prep to,response
R11865 T16164 T16163 pobj LPS,to
R11866 T16165 T16138 punct .,wanted

pmc-enju-pas

Id Subject Object Predicate Lexical cue
T15841 262-265 NN denotes LPS
T15840 259-261 TO denotes to
T15839 250-258 NN denotes response
T15838 247-249 IN denotes in
T15837 241-246 NN denotes cells
T15836 238-240 IN denotes in
T15835 229-237 NN denotes promoter
T15834 220-228 NN denotes SerpinB2
T15833 216-219 DT denotes the
T15832 211-215 IN denotes from
T15831 197-210 NN denotes transcription
T15830 189-196 VB denotes driving
T15829 185-188 IN denotes for
T15828 178-184 NN denotes factor
T15827 168-177 JJ denotes essential
T15826 165-167 DT denotes an
T15825 161-164 VB denotes was
T15824 153-160 NN denotes C/EBP-β
T15823 145-152 IN denotes whether
T15822 142-144 IN denotes of
T15821 133-141 NN denotes question
T15820 129-132 DT denotes the
T15819 121-128 VB denotes address
T15818 118-120 TO denotes to
T15817 111-117 VB denotes wanted
T15816 108-110 PRP denotes we
T15815 106-107 -COMMA- denotes ,
T15814 102-106 FW denotes vivo
T15813 99-101 FW denotes in
T15812 95-98 CC denotes and
T15811 89-94 FW denotes vitro
T15810 86-88 FW denotes in
T15809 81-85 CC denotes both
T15808 74-80 NN denotes manner
T15807 60-73 JJ denotes LPS-inducible
T15806 57-59 DT denotes an
T15805 54-56 IN denotes in
T15804 45-53 NN denotes promoter
T15803 36-44 JJ denotes proximal
T15802 27-35 NN denotes SerpinB2
T15801 23-26 DT denotes the
T15800 20-22 TO denotes to
T15799 14-19 VB denotes binds
T15798 6-13 NN denotes C/EBP-β
T15797 0-5 IN denotes Since
R11627 T15798 T15799 arg1Of C/EBP-β,binds
R11628 T15799 T15797 arg2Of binds,Since
R11629 T15799 T15800 arg1Of binds,to
R11630 T15799 T15805 arg1Of binds,in
R11631 T15799 T15811 arg1Of binds,vitro
R11632 T15799 T15814 arg1Of binds,vivo
R11633 T15804 T15800 arg2Of promoter,to
R11634 T15804 T15801 arg1Of promoter,the
R11635 T15804 T15802 arg1Of promoter,SerpinB2
R11636 T15804 T15803 arg1Of promoter,proximal
R11637 T15808 T15805 arg2Of manner,in
R11638 T15808 T15806 arg1Of manner,an
R11639 T15808 T15807 arg1Of manner,LPS-inducible
R11640 T15811 T15810 arg1Of vitro,in
R11641 T15811 T15812 arg1Of vitro,and
R11642 T15812 T15809 arg1Of and,both
R11643 T15814 T15812 arg2Of vivo,and
R11644 T15814 T15813 arg1Of vivo,in
R11645 T15816 T15817 arg1Of we,wanted
R11646 T15816 T15819 arg1Of we,address
R11647 T15817 T15797 arg1Of wanted,Since
R11648 T15817 T15815 arg1Of wanted,","
R11649 T15819 T15817 arg2Of address,wanted
R11650 T15819 T15818 arg1Of address,to
R11651 T15821 T15819 arg2Of question,address
R11652 T15821 T15820 arg1Of question,the
R11653 T15821 T15822 arg1Of question,of
R11654 T15824 T15825 arg1Of C/EBP-β,was
R11655 T15825 T15822 arg2Of was,of
R11656 T15825 T15823 arg1Of was,whether
R11657 T15828 T15825 arg2Of factor,was
R11658 T15828 T15826 arg1Of factor,an
R11659 T15828 T15827 arg1Of factor,essential
R11660 T15828 T15829 arg1Of factor,for
R11661 T15830 T15829 arg2Of driving,for
R11662 T15831 T15830 arg2Of transcription,driving
R11663 T15831 T15832 arg1Of transcription,from
R11664 T15831 T15836 arg1Of transcription,in
R11665 T15835 T15832 arg2Of promoter,from
R11666 T15835 T15833 arg1Of promoter,the
R11667 T15835 T15834 arg1Of promoter,SerpinB2
R11668 T15837 T15836 arg2Of cells,in
R11669 T15837 T15838 arg1Of cells,in
R11670 T15839 T15838 arg2Of response,in
R11671 T15839 T15840 arg1Of response,to
R11672 T15841 T15840 arg2Of LPS,to

bionlp-st-ge-2016-test-proteins

Id Subject Object Predicate Lexical cue
T15758 220-228 Protein denotes SerpinB2
T15757 153-160 Protein denotes C/EBP-β
T15756 27-35 Protein denotes SerpinB2
T15755 6-13 Protein denotes C/EBP-β

bionlp-st-ge-2016-uniprot

Id Subject Object Predicate Lexical cue
T15957 220-228 http://www.uniprot.org/uniprot/P05120 denotes SerpinB2
T15956 27-35 http://www.uniprot.org/uniprot/P05120 denotes SerpinB2
T15949 153-160 http://www.uniprot.org/uniprot/P28033 denotes C/EBP-β
T15948 6-13 http://www.uniprot.org/uniprot/P28033 denotes C/EBP-β

GO-BP

Id Subject Object Predicate Lexical cue
T15771 250-265 http://purl.obolibrary.org/obo/GO_0032496 denotes response to LPS
T15769 197-210 http://purl.obolibrary.org/obo/GO_0006351 denotes transcription

GO-CC

Id Subject Object Predicate Lexical cue
T15772 241-246 http://purl.obolibrary.org/obo/GO_0005623 denotes cells

sentences

Id Subject Object Predicate Lexical cue
T15711 0-266 Sentence denotes Since C/EBP-β binds to the SerpinB2 proximal promoter in an LPS-inducible manner both in vitro and in vivo, we wanted to address the question of whether C/EBP-β was an essential factor for driving transcription from the SerpinB2 promoter in cells in response to LPS.
T220 0-266 Sentence denotes Since C/EBP-β binds to the SerpinB2 proximal promoter in an LPS-inducible manner both in vitro and in vivo, we wanted to address the question of whether C/EBP-β was an essential factor for driving transcription from the SerpinB2 promoter in cells in response to LPS.

simple1

Id Subject Object Predicate Lexical cue
T15778 220-228 Protein denotes SerpinB2
T15777 153-160 Protein denotes C/EBP-β
T15776 27-35 Protein denotes SerpinB2
T15775 6-13 Protein denotes C/EBP-β

BioNLP16_DUT

Id Subject Object Predicate Lexical cue
T15928 220-228 Protein denotes SerpinB2
T15927 153-160 Protein denotes C/EBP-β
T15926 27-35 Protein denotes SerpinB2
T15925 6-13 Protein denotes C/EBP-β
T15940 14-19 Binding denotes binds
T15939 197-210 Transcription denotes transcription
R11743 T15925 T15940 themeOf C/EBP-β,binds
R11744 T15926 T15940 themeOf SerpinB2,binds
R11745 T15928 T15939 themeOf SerpinB2,transcription

BioNLP16_Messiy

Id Subject Object Predicate Lexical cue
T16021 168-177 Positive_regulation denotes essential
T16020 14-19 Binding denotes binds
T16009 220-228 Protein denotes SerpinB2
T16008 153-160 Protein denotes C/EBP-β
T16007 27-35 Protein denotes SerpinB2
T16006 6-13 Protein denotes C/EBP-β
R11772 T16006 T16020 themeOf C/EBP-β,binds
R11773 T16007 T16020 themeOf SerpinB2,binds
R11774 T16008 T16021 themeOf C/EBP-β,essential

DLUT931

Id Subject Object Predicate Lexical cue
T15982 168-177 Positive_regulation denotes essential
T15981 197-210 Transcription denotes transcription
T15980 14-19 Binding denotes binds
T15968 220-228 Protein denotes SerpinB2
T15967 153-160 Protein denotes C/EBP-β
T15966 27-35 Protein denotes SerpinB2
T15965 6-13 Protein denotes C/EBP-β
R11759 T15965 T15980 themeOf C/EBP-β,binds
R11760 T15966 T15980 themeOf SerpinB2,binds
R11761 T15967 T15982 causeOf C/EBP-β,essential
R11762 T15968 T15981 themeOf SerpinB2,transcription
R11766 T15981 T15982 themeOf transcription,essential

bionlp-st-ge-2016-test-ihmc

Id Subject Object Predicate Lexical cue
T16105 0-106 Binding denotes Since C/EBP-β binds to the SerpinB2 proximal promoter in an LPS-inducible manner both in vitro and in vivo
T16100 153-160 Protein denotes C/EBP-β
T16097 6-13 Protein denotes C/EBP-β
T16096 241-246 Entity denotes cells
T16088 216-237 Entity denotes the SerpinB2 promoter
T16082 220-228 Protein denotes SerpinB2
T16078 27-35 Protein denotes SerpinB2
T16075 20-53 Entity denotes to the SerpinB2 proximal promoter
T16074 262-265 Entity denotes LPS
R11800 T16075 T16078 partOf to the SerpinB2 proximal promoter,SerpinB2
R11801 T16075 T16105 themeOf to the SerpinB2 proximal promoter,Since C/EBP-β binds to the SerpinB2 proximal promoter in an LPS-inducible manner both in vitro and in vivo
R11804 T16088 T16082 partOf the SerpinB2 promoter,SerpinB2
R11806 T16097 T16105 themeOf C/EBP-β,Since C/EBP-β binds to the SerpinB2 proximal promoter in an LPS-inducible manner both in vitro and in vivo

bionlp-st-ge-2016-test-tees

Id Subject Object Predicate Lexical cue
T16035 197-210 Transcription denotes transcription
T16034 14-19 Binding denotes binds
T16033 14-19 Binding denotes binds
T16032 220-237 Protein denotes SerpinB2 promoter
T16031 153-160 Protein denotes C/EBP-β
T16030 27-53 Protein denotes SerpinB2 proximal promoter
T16029 6-13 Protein denotes C/EBP-β
R11781 T16029 T16033 themeOf C/EBP-β,binds
R11782 T16029 T16034 themeOf C/EBP-β,binds
R11783 T16030 T16034 themeOf SerpinB2 proximal promoter,binds
R11784 T16032 T16035 themeOf SerpinB2 promoter,transcription

testone

Id Subject Object Predicate Lexical cue
T15666 45-53 Entity denotes promoter
T15665 36-44 Entity denotes proximal
T15664 14-19 Binding denotes binds
T15653 220-228 Protein denotes SerpinB2
T15652 153-160 Protein denotes C/EBP-β
T15651 27-35 Protein denotes SerpinB2
T15650 6-13 Protein denotes C/EBP-β
R11580 T15650 T15664 themeOf C/EBP-β,binds
R11583 T15666 T15664 themeOf promoter,binds

test3

Id Subject Object Predicate Lexical cue
T15693 153-160 Protein denotes C/EBP-β
T15692 45-53 Entity denotes promoter
T15691 27-35 Protein denotes SerpinB2
T15690 14-19 Binding denotes binds
T15689 6-13 Protein denotes C/EBP-β
T15676 220-228 Protein denotes SerpinB2
T15675 153-160 Protein denotes C/EBP-β
T15674 27-35 Protein denotes SerpinB2
T15673 6-13 Protein denotes C/EBP-β
T15696 250-258 Positive_regulation denotes response
T15695 220-228 Protein denotes SerpinB2
T15694 197-210 Transcription denotes transcription
R11585 T15689 T15690 themeOf C/EBP-β,binds
R11586 T15691 T15690 themeOf SerpinB2,binds
R11587 T15692 T15690 themeOf promoter,binds
R11588 T15695 T15694 themeOf SerpinB2,transcription