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PMC:3589482 / 41657-41940 JSONTXT

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bionlp-st-ge-2016-spacy-parsed

Id Subject Object Predicate Lexical cue
T21344 282-283 . denotes .
T21343 280-282 CD denotes 87
T21342 279-280 CD denotes −
T21341 275-278 CC denotes and
T21340 271-274 CD denotes 189
T21339 270-271 VBP denotes −
T21338 258-269 NNS denotes nucleotides
T21337 250-257 IN denotes between
T21336 241-249 NN denotes promoter
T21335 232-240 JJ denotes proximal
T21334 223-231 NNP denotes SerpinB2
T21333 216-222 NN denotes murine
T21332 212-215 DT denotes the
T21331 209-211 IN denotes in
T21330 201-208 JJ denotes present
T21329 197-200 VBP denotes are
T21328 192-196 RB denotes also
T21327 190-191 , denotes ,
T21326 189-190 NNP denotes ]
T21325 187-189 CD denotes 37
T21324 186-187 NNP denotes [
T21323 181-185 NN denotes gene
T21322 172-180 NNP denotes SERPINB2
T21321 166-171 JJ denotes human
T21320 162-165 DT denotes the
T21319 159-161 IN denotes of
T21318 145-158 NN denotes transcription
T21317 130-144 JJ denotes PMA-stimulated
T21316 122-129 VB denotes mediate
T21315 119-121 TO denotes to
T21314 106-118 VBD denotes demonstrated
T21313 104-105 , denotes ,
T21312 96-104 NNS denotes elements
T21311 86-95 JJ denotes AP-1-like
T21310 82-85 CD denotes two
T21309 78-81 CC denotes and
T21308 74-77 NNP denotes CRE
T21307 72-73 DT denotes a
T21306 67-71 IN denotes that
T21305 61-66 VBZ denotes shows
T21304 52-60 NN denotes sequence
T21303 43-51 NN denotes promoter
T21302 34-42 JJ denotes proximal
T21301 25-33 NNP denotes SerpinB2
T21300 18-24 NN denotes murine
T21299 14-17 DT denotes the
T21298 11-13 IN denotes of
T21297 0-10 NNP denotes Inspection
R15158 T21297 T21305 nsubj Inspection,shows
R15159 T21298 T21297 prep of,Inspection
R15160 T21299 T21304 det the,sequence
R15161 T21300 T21304 nmod murine,sequence
R15162 T21301 T21304 nmod SerpinB2,sequence
R15163 T21302 T21304 amod proximal,sequence
R15164 T21303 T21304 compound promoter,sequence
R15165 T21304 T21298 pobj sequence,of
R15166 T21305 T21305 ROOT shows,shows
R15167 T21306 T21314 mark that,demonstrated
R15168 T21307 T21308 det a,CRE
R15169 T21308 T21314 nsubj CRE,demonstrated
R15170 T21309 T21308 cc and,CRE
R15171 T21310 T21312 nummod two,elements
R15172 T21311 T21312 amod AP-1-like,elements
R15173 T21312 T21308 conj elements,CRE
R15174 T21313 T21314 punct ",",demonstrated
R15175 T21314 T21305 ccomp demonstrated,shows
R15176 T21315 T21316 aux to,mediate
R15177 T21316 T21314 xcomp mediate,demonstrated
R15178 T21317 T21318 amod PMA-stimulated,transcription
R15179 T21318 T21316 dobj transcription,mediate
R15180 T21319 T21318 prep of,transcription
R15181 T21320 T21323 det the,gene
R15182 T21321 T21323 amod human,gene
R15183 T21322 T21323 compound SERPINB2,gene
R15184 T21323 T21319 pobj gene,of
R15185 T21324 T21326 nmod [,]
R15186 T21325 T21326 nummod 37,]
R15187 T21326 T21318 appos ],transcription
R15188 T21327 T21329 punct ",",are
R15189 T21328 T21329 advmod also,are
R15190 T21329 T21305 conj are,shows
R15191 T21330 T21329 acomp present,are
R15192 T21331 T21330 prep in,present
R15193 T21332 T21336 det the,promoter
R15194 T21333 T21336 nmod murine,promoter
R15195 T21334 T21336 nmod SerpinB2,promoter
R15196 T21335 T21336 amod proximal,promoter
R15197 T21336 T21331 pobj promoter,in
R15198 T21337 T21336 prep between,promoter
R15199 T21338 T21337 pobj nucleotides,between
R15200 T21339 T21329 conj −,are
R15201 T21340 T21339 dobj 189,−
R15202 T21341 T21340 cc and,189
R15203 T21342 T21340 conj −,189
R15204 T21343 T21340 conj 87,189
R15205 T21344 T21329 punct .,are

pmc-enju-pas

Id Subject Object Predicate Lexical cue
T19129 279-282 CD denotes −87
T19128 275-278 CC denotes and
T19127 270-274 CD denotes −189
T19126 258-269 NN denotes nucleotides
T19125 250-257 IN denotes between
T19124 241-249 NN denotes promoter
T19123 232-240 JJ denotes proximal
T19122 223-231 NN denotes SerpinB2
T19121 216-222 JJ denotes murine
T19120 212-215 DT denotes the
T19119 209-211 IN denotes in
T19118 201-208 JJ denotes present
T19117 197-200 VB denotes are
T19116 192-196 RB denotes also
T19115 190-191 -COMMA- denotes ,
T19114 189-190 -RRB- denotes ]
T19113 187-189 CD denotes 37
T19112 186-187 -LRB- denotes [
T19111 181-185 NN denotes gene
T19110 172-180 NN denotes SERPINB2
T19109 166-171 JJ denotes human
T19108 162-165 DT denotes the
T19107 159-161 IN denotes of
T19106 145-158 NN denotes transcription
T19105 130-144 JJ denotes PMA-stimulated
T19104 122-129 VB denotes mediate
T19103 119-121 TO denotes to
T19102 106-118 VB denotes demonstrated
T19101 104-105 -COMMA- denotes ,
T19100 96-104 NN denotes elements
T19099 86-95 JJ denotes AP-1-like
T19098 82-85 CD denotes two
T19097 78-81 CC denotes and
T19096 74-77 NN denotes CRE
T19095 72-73 DT denotes a
T19094 67-71 IN denotes that
T19093 61-66 VB denotes shows
T19092 52-60 NN denotes sequence
T19091 43-51 NN denotes promoter
T19090 34-42 JJ denotes proximal
T19089 25-33 NN denotes SerpinB2
T19088 18-24 JJ denotes murine
T19087 14-17 DT denotes the
T19086 11-13 IN denotes of
T19085 0-10 NN denotes Inspection
R13553 T19085 T19086 arg1Of Inspection,of
R13554 T19085 T19093 arg1Of Inspection,shows
R13555 T19092 T19086 arg2Of sequence,of
R13556 T19092 T19087 arg1Of sequence,the
R13557 T19092 T19088 arg1Of sequence,murine
R13558 T19092 T19089 arg1Of sequence,SerpinB2
R13559 T19092 T19090 arg1Of sequence,proximal
R13560 T19092 T19091 arg1Of sequence,promoter
R13561 T19096 T19097 arg1Of CRE,and
R13562 T19097 T19095 arg1Of and,a
R13563 T19097 T19102 arg1Of and,demonstrated
R13564 T19100 T19097 arg2Of elements,and
R13565 T19100 T19098 arg1Of elements,two
R13566 T19100 T19099 arg1Of elements,AP-1-like
R13567 T19102 T19093 arg2Of demonstrated,shows
R13568 T19102 T19094 arg1Of demonstrated,that
R13569 T19102 T19101 arg1Of demonstrated,","
R13570 T19104 T19103 arg1Of mediate,to
R13571 T19104 T19117 arg1Of mediate,are
R13572 T19104 T19118 arg1Of mediate,present
R13573 T19106 T19104 arg2Of transcription,mediate
R13574 T19106 T19105 arg1Of transcription,PMA-stimulated
R13575 T19106 T19107 arg1Of transcription,of
R13576 T19111 T19107 arg2Of gene,of
R13577 T19111 T19108 arg1Of gene,the
R13578 T19111 T19109 arg1Of gene,human
R13579 T19111 T19110 arg1Of gene,SERPINB2
R13580 T19111 T19112 arg1Of gene,[
R13581 T19113 T19112 arg2Of 37,[
R13582 T19114 T19112 arg3Of ],[
R13583 T19117 T19102 arg2Of are,demonstrated
R13584 T19117 T19115 arg1Of are,","
R13585 T19117 T19116 arg1Of are,also
R13586 T19118 T19117 arg2Of present,are
R13587 T19118 T19119 arg1Of present,in
R13588 T19124 T19119 arg2Of promoter,in
R13589 T19124 T19120 arg1Of promoter,the
R13590 T19124 T19121 arg1Of promoter,murine
R13591 T19124 T19122 arg1Of promoter,SerpinB2
R13592 T19124 T19123 arg1Of promoter,proximal
R13593 T19124 T19125 arg1Of promoter,between
R13594 T19127 T19128 arg1Of −189,and
R13595 T19128 T19125 arg2Of and,between
R13596 T19128 T19126 arg1Of and,nucleotides
R13597 T19129 T19128 arg2Of −87,and

bionlp-st-ge-2016-test-proteins

Id Subject Object Predicate Lexical cue
T18730 223-231 Protein denotes SerpinB2
T18729 172-180 Protein denotes SERPINB2
T18728 25-33 Protein denotes SerpinB2

bionlp-st-ge-2016-uniprot

Id Subject Object Predicate Lexical cue
T20269 86-90 http://www.uniprot.org/uniprot/P05412 denotes AP-1
T20242 172-180 http://www.uniprot.org/uniprot/P05120 denotes SERPINB2
T20216 223-231 http://www.uniprot.org/uniprot/P05120 denotes SerpinB2
T20215 25-33 http://www.uniprot.org/uniprot/P05120 denotes SerpinB2

GO-BP

Id Subject Object Predicate Lexical cue
T18800 145-158 http://purl.obolibrary.org/obo/GO_0006351 denotes transcription

sentences

Id Subject Object Predicate Lexical cue
T18486 0-283 Sentence denotes Inspection of the murine SerpinB2 proximal promoter sequence shows that a CRE and two AP-1-like elements, demonstrated to mediate PMA-stimulated transcription of the human SERPINB2 gene [37], also are present in the murine SerpinB2 proximal promoter between nucleotides −189 and −87.
T251 0-283 Sentence denotes Inspection of the murine SerpinB2 proximal promoter sequence shows that a CRE and two AP-1-like elements, demonstrated to mediate PMA-stimulated transcription of the human SERPINB2 gene [37], also are present in the murine SerpinB2 proximal promoter between nucleotides −189 and −87.

simple1

Id Subject Object Predicate Lexical cue
T18867 223-231 Protein denotes SerpinB2
T18866 172-180 Protein denotes SERPINB2
T18865 25-33 Protein denotes SerpinB2

BioNLP16_DUT

Id Subject Object Predicate Lexical cue
T20075 223-231 Protein denotes SerpinB2
T20074 172-180 Protein denotes SERPINB2
T20073 25-33 Protein denotes SerpinB2
T20148 201-208 Positive_regulation denotes present
T20147 145-158 Transcription denotes transcription
T20146 130-144 Positive_regulation denotes PMA-stimulated
T20145 122-129 Positive_regulation denotes mediate
R14513 T20074 T20147 themeOf SERPINB2,transcription
R14514 T20075 T20148 themeOf SerpinB2,present
R14578 T20147 T20145 themeOf transcription,mediate
R14579 T20147 T20146 themeOf transcription,PMA-stimulated

BioNLP16_Messiy

Id Subject Object Predicate Lexical cue
T20525 223-231 Protein denotes SerpinB2
T20524 172-180 Protein denotes SERPINB2
T20523 25-33 Protein denotes SerpinB2
T20592 145-158 Transcription denotes transcription
R14735 T20524 T20592 themeOf SERPINB2,transcription

DLUT931

Id Subject Object Predicate Lexical cue
T20371 145-158 Transcription denotes transcription
T20299 223-231 Protein denotes SerpinB2
T20298 172-180 Protein denotes SERPINB2
T20297 25-33 Protein denotes SerpinB2
R14624 T20298 T20371 themeOf SERPINB2,transcription

bionlp-st-ge-2016-test-ihmc

Id Subject Object Predicate Lexical cue
T21119 130-190 Transcription denotes PMA-stimulated transcription of the human SERPINB2 gene [37]
T21109 130-190 Positive_regulation denotes PMA-stimulated transcription of the human SERPINB2 gene [37]
T21076 223-231 Protein denotes SerpinB2
T21036 74-77 Protein denotes CRE
T21034 11-33 Protein denotes of the murine SerpinB2
T21021 258-269 Entity denotes nucleotides
T21020 86-190 Protein denotes AP-1-like elements, demonstrated to mediate PMA-stimulated transcription of the human SERPINB2 gene [37]
T20993 130-144 Entity denotes PMA-stimulated
T20989 159-190 Protein denotes of the human SERPINB2 gene [37]
T20984 43-51 Entity denotes promoter
T20958 172-180 Protein denotes SERPINB2
T20932 212-282 Entity denotes the murine SerpinB2 proximal promoter between nucleotides −189 and −87
R14952 T20989 T21119 themeOf of the human SERPINB2 gene [37],PMA-stimulated transcription of the human SERPINB2 gene [37]
R14953 T20993 T21109 causeOf PMA-stimulated,PMA-stimulated transcription of the human SERPINB2 gene [37]
R14982 T21119 T21109 themeOf PMA-stimulated transcription of the human SERPINB2 gene [37],PMA-stimulated transcription of the human SERPINB2 gene [37]

bionlp-st-ge-2016-test-tees

Id Subject Object Predicate Lexical cue
T20667 216-249 Protein denotes murine SerpinB2 proximal promoter
T20666 86-90 Protein denotes AP-1
T20665 18-60 Protein denotes murine SerpinB2 proximal promoter sequence

testone

Id Subject Object Predicate Lexical cue
T18243 145-158 Transcription denotes transcription
T18242 134-144 Positive_regulation denotes stimulated
T18241 122-129 Positive_regulation denotes mediate
T18178 223-231 Protein denotes SerpinB2
T18177 172-180 Protein denotes SERPINB2
T18176 25-33 Protein denotes SerpinB2
R13112 T18177 T18243 themeOf SERPINB2,transcription
R13144 T18242 T18241 themeOf stimulated,mediate
R13145 T18243 T18242 themeOf transcription,stimulated
R13146 T18243 T18241 themeOf transcription,mediate

test3

Id Subject Object Predicate Lexical cue
T18376 223-231 Protein denotes SerpinB2
T18375 172-180 Protein denotes SERPINB2
T18374 145-158 Transcription denotes transcription
T18373 134-144 Positive_regulation denotes stimulated
T18372 25-33 Protein denotes SerpinB2
T18295 223-231 Protein denotes SerpinB2
T18294 172-180 Protein denotes SERPINB2
T18293 25-33 Protein denotes SerpinB2
R13168 T18374 T18373 themeOf transcription,stimulated
R13169 T18375 T18374 themeOf SERPINB2,transcription
R13170 T18376 T18374 themeOf SerpinB2,transcription