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PMC:3589482 / 35342-35655 JSONTXT

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bionlp-st-ge-2016-spacy-parsed

Id Subject Object Predicate Lexical cue
T25884 312-313 . denotes .
T25883 309-312 NN denotes top
T25882 306-308 IN denotes in
T25881 295-305 VBN denotes diagrammed
T25880 292-294 IN denotes as
T25879 290-291 , denotes ,
T25878 287-290 CD denotes +19
T25877 286-287 NN denotes /
T25876 285-286 CD denotes 5
T25875 284-285 CD denotes −
T25874 280-283 CC denotes and
T25873 276-279 CD denotes 315
T25872 275-276 NN denotes −
T25871 274-275 CD denotes /
T25870 271-274 CD denotes 338
T25869 269-270 , denotes ,
T25868 262-269 NNS denotes primers
T25867 244-261 JJ denotes promoter-specific
T25866 235-243 JJ denotes proximal
T25865 226-234 JJ denotes SerpinB2
T25864 219-225 JJ denotes murine
T25863 213-218 VBG denotes using
T25862 206-212 NNS denotes assays
T25861 201-205 NNP denotes ChIP
T25860 198-200 IN denotes in
T25859 189-197 VBN denotes obtained
T25858 181-188 NN denotes pattern
T25857 177-180 NNP denotes PCR
T25856 169-176 JJ denotes Typical
T25855 167-168 -RRB- denotes )
T25854 166-167 NNP denotes A
T25853 165-166 -LRB- denotes (
T25852 163-164 . denotes .
T25851 156-163 NN denotes control
T25850 154-155 -RRB- denotes )
T25849 150-154 NNP denotes rIgG
T25848 149-150 -LRB- denotes (
T25847 145-148 NNP denotes IgG
T25846 138-144 NN denotes rabbit
T25845 136-137 DT denotes a
T25844 133-135 CC denotes or
T25843 131-132 , denotes ,
T25842 130-131 -RRB- denotes )
T25841 124-130 NNP denotes RNAPII
T25840 123-124 -LRB- denotes (
T25839 120-122 NNP denotes II
T25838 109-119 NNP denotes Polymerase
T25837 105-108 NNP denotes RNA
T25836 103-104 , denotes ,
T25835 102-103 -RRB- denotes )
T25834 98-102 CD denotes T217
T25833 97-98 -LRB- denotes (
T25832 95-96 NN denotes β
T25831 94-95 : denotes -
T25830 87-94 NNP denotes p-C/EBP
T25829 85-86 , denotes ,
T25828 84-85 NN denotes β
T25827 83-84 : denotes -
T25826 78-83 NNP denotes C/EBP
T25825 70-77 IN denotes against
T25824 59-69 NNS denotes antibodies
T25823 54-58 IN denotes with
T25822 35-53 VBN denotes immunoprecipitated
T25821 31-34 VBD denotes was
T25820 29-30 -RRB- denotes )
T25819 27-29 NN denotes ng
T25818 23-26 CD denotes 700
T25817 19-22 CD denotes 600
T25816 18-19 -LRB- denotes (
T25815 8-17 NN denotes chromatin
T25814 0-7 JJ denotes Soluble
R18413 T25814 T25815 amod Soluble,chromatin
R18414 T25815 T25822 nsubjpass chromatin,immunoprecipitated
R18415 T25816 T25819 punct (,ng
R18416 T25817 T25818 dep 600,700
R18417 T25818 T25819 nummod 700,ng
R18418 T25819 T25815 appos ng,chromatin
R18419 T25820 T25819 punct ),ng
R18420 T25821 T25822 auxpass was,immunoprecipitated
R18421 T25822 T25822 ROOT immunoprecipitated,immunoprecipitated
R18422 T25823 T25822 prep with,immunoprecipitated
R18423 T25824 T25823 pobj antibodies,with
R18424 T25825 T25824 prep against,antibodies
R18425 T25826 T25825 pobj C/EBP,against
R18426 T25827 T25828 punct -,β
R18427 T25828 T25822 advcl β,immunoprecipitated
R18428 T25829 T25828 punct ",",β
R18429 T25830 T25832 compound p-C/EBP,β
R18430 T25831 T25832 punct -,β
R18431 T25832 T25828 appos β,β
R18432 T25833 T25832 punct (,β
R18433 T25834 T25832 appos T217,β
R18434 T25835 T25832 punct ),β
R18435 T25836 T25832 punct ",",β
R18436 T25837 T25839 compound RNA,II
R18437 T25838 T25839 compound Polymerase,II
R18438 T25839 T25832 appos II,β
R18439 T25840 T25839 punct (,II
R18440 T25841 T25839 appos RNAPII,II
R18441 T25842 T25839 punct ),II
R18442 T25843 T25839 punct ",",II
R18443 T25844 T25832 cc or,β
R18444 T25845 T25846 det a,rabbit
R18445 T25846 T25851 compound rabbit,control
R18446 T25847 T25851 compound IgG,control
R18447 T25848 T25849 punct (,rIgG
R18448 T25849 T25847 appos rIgG,IgG
R18449 T25850 T25849 punct ),rIgG
R18450 T25851 T25832 conj control,β
R18451 T25852 T25822 punct .,immunoprecipitated
R18452 T25853 T25854 punct (,A
R18453 T25854 T25854 ROOT A,A
R18454 T25855 T25854 punct ),A
R18455 T25856 T25858 amod Typical,pattern
R18456 T25857 T25858 compound PCR,pattern
R18457 T25858 T25859 nsubj pattern,obtained
R18458 T25859 T25859 ROOT obtained,obtained
R18459 T25860 T25859 prep in,obtained
R18460 T25861 T25862 compound ChIP,assays
R18461 T25862 T25860 pobj assays,in
R18462 T25863 T25859 advcl using,obtained
R18463 T25864 T25868 amod murine,primers
R18464 T25865 T25868 amod SerpinB2,primers
R18465 T25866 T25868 amod proximal,primers
R18466 T25867 T25868 amod promoter-specific,primers
R18467 T25868 T25863 dobj primers,using
R18468 T25869 T25872 punct ",",−
R18469 T25870 T25871 compound 338,/
R18470 T25871 T25872 nsubj /,−
R18471 T25872 T25872 ROOT −,−
R18472 T25873 T25872 nummod 315,−
R18473 T25874 T25872 cc and,−
R18474 T25875 T25877 meta −,/
R18475 T25876 T25877 nummod 5,/
R18476 T25877 T25872 conj /,−
R18477 T25878 T25877 nummod +19,/
R18478 T25879 T25877 punct ",",/
R18479 T25880 T25881 mark as,diagrammed
R18480 T25881 T25872 amod diagrammed,−
R18481 T25882 T25881 prep in,diagrammed
R18482 T25883 T25882 pobj top,in
R18483 T25884 T25859 punct .,obtained

pmc-enju-pas

Id Subject Object Predicate Lexical cue
T25512 309-312 NN denotes top
T25511 306-308 IN denotes in
T25510 295-305 VB denotes diagrammed
T25509 292-294 IN denotes as
T25508 290-291 -COMMA- denotes ,
T25507 284-290 CD denotes −5/+19
T25506 280-283 CC denotes and
T25505 271-279 CD denotes 338/−315
T25504 269-270 -COMMA- denotes ,
T25503 262-269 NN denotes primers
T25502 244-261 JJ denotes promoter-specific
T25501 235-243 JJ denotes proximal
T25500 226-234 NN denotes SerpinB2
T25499 219-225 JJ denotes murine
T25498 213-218 VB denotes using
T25497 206-212 NN denotes assays
T25496 201-205 NN denotes ChIP
T25495 198-200 IN denotes in
T25494 189-197 VB denotes obtained
T25493 181-188 NN denotes pattern
T25492 177-180 NN denotes PCR
T25491 169-176 JJ denotes Typical
T25490 167-168 -RRB- denotes )
T25489 166-167 NN denotes A
T25488 165-166 -LRB- denotes (
T25487 156-164 NN denotes control.
T25486 154-155 -RRB- denotes )
T25485 150-154 NN denotes rIgG
T25484 149-150 -LRB- denotes (
T25483 145-148 NN denotes IgG
T25482 138-144 NN denotes rabbit
T25481 136-137 DT denotes a
T25480 133-135 CC denotes or
T25479 131-132 -COMMA- denotes ,
T25478 130-131 -RRB- denotes )
T25477 124-130 NN denotes RNAPII
T25476 123-124 -LRB- denotes (
T25475 120-122 CD denotes II
T25474 109-119 NN denotes Polymerase
T25473 105-108 NN denotes RNA
T25472 103-104 -COMMA- denotes ,
T25471 102-103 -RRB- denotes )
T25470 98-102 NN denotes T217
T25469 97-98 -LRB- denotes (
T25468 87-96 NN denotes p-C/EBP-β
T25467 85-86 -COMMA- denotes ,
T25466 78-85 NN denotes C/EBP-β
T25465 70-77 IN denotes against
T25464 59-69 NN denotes antibodies
T25463 54-58 IN denotes with
T25462 35-53 VB denotes immunoprecipitated
T25461 31-34 VB denotes was
T25460 29-30 -RRB- denotes )
T25459 27-29 NN denotes ng
T25458 19-26 CD denotes 600–700
T25457 18-19 -LRB- denotes (
T25456 8-17 NN denotes chromatin
T25455 0-7 JJ denotes Soluble
R18197 T25456 T25455 arg1Of chromatin,Soluble
R18198 T25456 T25457 arg1Of chromatin,(
R18199 T25456 T25461 arg1Of chromatin,was
R18200 T25456 T25462 arg2Of chromatin,immunoprecipitated
R18201 T25459 T25457 arg2Of ng,(
R18202 T25459 T25458 arg1Of ng,600–700
R18203 T25460 T25457 arg3Of ),(
R18204 T25462 T25461 arg2Of immunoprecipitated,was
R18205 T25462 T25463 arg1Of immunoprecipitated,with
R18206 T25464 T25463 arg2Of antibodies,with
R18207 T25464 T25465 arg1Of antibodies,against
R18208 T25466 T25467 arg1Of C/EBP-β,","
R18209 T25466 T25472 arg1Of C/EBP-β,","
R18210 T25468 T25467 arg2Of p-C/EBP-β,","
R18211 T25468 T25469 arg1Of p-C/EBP-β,(
R18212 T25470 T25469 arg2Of T217,(
R18213 T25471 T25469 arg3Of ),(
R18214 T25472 T25480 arg1Of ",",or
R18215 T25474 T25472 arg2Of Polymerase,","
R18216 T25474 T25473 arg1Of Polymerase,RNA
R18217 T25474 T25475 arg1Of Polymerase,II
R18218 T25474 T25476 arg1Of Polymerase,(
R18219 T25477 T25476 arg2Of RNAPII,(
R18220 T25478 T25476 arg3Of ),(
R18221 T25480 T25465 arg2Of or,against
R18222 T25480 T25479 arg1Of or,","
R18223 T25485 T25484 arg2Of rIgG,(
R18224 T25486 T25484 arg3Of ),(
R18225 T25487 T25482 arg1Of control.,rabbit
R18226 T25487 T25483 arg1Of control.,IgG
R18227 T25487 T25484 arg1Of control.,(
R18228 T25487 T25488 arg1Of control.,(
R18229 T25489 T25488 arg2Of A,(
R18230 T25490 T25488 arg3Of ),(
R18231 T25493 T25480 arg2Of pattern,or
R18232 T25493 T25481 arg1Of pattern,a
R18233 T25493 T25487 arg1Of pattern,control.
R18234 T25493 T25491 arg1Of pattern,Typical
R18235 T25493 T25492 arg1Of pattern,PCR
R18236 T25493 T25494 arg2Of pattern,obtained
R18237 T25494 T25495 arg1Of obtained,in
R18238 T25494 T25508 arg1Of obtained,","
R18239 T25494 T25509 arg1Of obtained,as
R18240 T25497 T25495 arg2Of assays,in
R18241 T25497 T25496 arg1Of assays,ChIP
R18242 T25497 T25498 arg1Of assays,using
R18243 T25503 T25498 arg2Of primers,using
R18244 T25503 T25499 arg1Of primers,murine
R18245 T25503 T25500 arg1Of primers,SerpinB2
R18246 T25503 T25501 arg1Of primers,proximal
R18247 T25503 T25502 arg1Of primers,promoter-specific
R18248 T25503 T25504 arg1Of primers,","
R18249 T25505 T25506 arg1Of 338/−315,and
R18250 T25506 T25504 arg2Of and,","
R18251 T25507 T25506 arg2Of −5/+19,and
R18252 T25510 T25509 arg2Of diagrammed,as
R18253 T25510 T25511 arg1Of diagrammed,in
R18254 T25512 T25511 arg2Of top,in

bionlp-st-ge-2016-test-proteins

Id Subject Object Predicate Lexical cue
T25356 226-234 Protein denotes SerpinB2
T25355 87-103 Protein denotes p-C/EBP-β (T217)
T25354 78-85 Protein denotes C/EBP-β

bionlp-st-ge-2016-uniprot

Id Subject Object Predicate Lexical cue
T25614 226-234 http://www.uniprot.org/uniprot/P05120 denotes SerpinB2
T25609 89-96 http://www.uniprot.org/uniprot/P28033 denotes C/EBP-β
T25608 78-85 http://www.uniprot.org/uniprot/P28033 denotes C/EBP-β

GO-BP

Id Subject Object Predicate Lexical cue
T25365 105-122 http://purl.obolibrary.org/obo/GO_0003899 denotes RNA Polymerase II
T25364 105-122 http://purl.obolibrary.org/obo/GO_0001055 denotes RNA Polymerase II
T25363 105-122 http://purl.obolibrary.org/obo/GO_1990114 denotes RNA Polymerase II

GO-MF

Id Subject Object Predicate Lexical cue
T25371 105-122 http://purl.obolibrary.org/obo/GO_0003899 denotes RNA Polymerase II
T25370 105-122 http://purl.obolibrary.org/obo/GO_0001055 denotes RNA Polymerase II
T25368 59-69 http://purl.obolibrary.org/obo/GO_0003823 denotes antibodies

GO-CC

Id Subject Object Predicate Lexical cue
T25382 105-122 http://purl.obolibrary.org/obo/GO_0005665 denotes RNA Polymerase II
T25380 59-69 http://purl.obolibrary.org/obo/GO_0042571 denotes antibodies
T25377 59-69 http://purl.obolibrary.org/obo/GO_0019815 denotes antibodies
T25374 8-17 http://purl.obolibrary.org/obo/GO_0000785 denotes chromatin

sentences

Id Subject Object Predicate Lexical cue
T25325 0-313 Sentence denotes Soluble chromatin (600–700 ng) was immunoprecipitated with antibodies against C/EBP-β, p-C/EBP-β (T217), RNA Polymerase II (RNAPII), or a rabbit IgG (rIgG) control. (A) Typical PCR pattern obtained in ChIP assays using murine SerpinB2 proximal promoter-specific primers, 338/−315 and −5/+19, as diagrammed in top.
T215 0-313 Sentence denotes Soluble chromatin (600–700 ng) was immunoprecipitated with antibodies against C/EBP-β, p-C/EBP-β (T217), RNA Polymerase II (RNAPII), or a rabbit IgG (rIgG) control. (A) Typical PCR pattern obtained in ChIP assays using murine SerpinB2 proximal promoter-specific primers, 338/−315 and −5/+19, as diagrammed in top.

simple1

Id Subject Object Predicate Lexical cue
T25390 226-234 Protein denotes SerpinB2
T25389 87-103 Protein denotes p-C/EBP-β (T217)
T25388 78-85 Protein denotes C/EBP-β

BioNLP16_DUT

Id Subject Object Predicate Lexical cue
T25597 226-234 Protein denotes SerpinB2
T25596 87-103 Protein denotes p-C/EBP-β (T217)
T25595 78-85 Protein denotes C/EBP-β

BioNLP16_Messiy

Id Subject Object Predicate Lexical cue
T25652 226-234 Protein denotes SerpinB2
T25651 87-103 Protein denotes p-C/EBP-β (T217)
T25650 78-85 Protein denotes C/EBP-β

DLUT931

Id Subject Object Predicate Lexical cue
T25623 226-234 Protein denotes SerpinB2
T25622 87-103 Protein denotes p-C/EBP-β (T217)
T25621 78-85 Protein denotes C/EBP-β

bionlp-st-ge-2016-test-ihmc

Id Subject Object Predicate Lexical cue
T25739 244-261 Entity denotes promoter-specific
T25732 145-147 Protein denotes Ig
T25729 78-122 Protein denotes C/EBP-β, p-C/EBP-β (T217), RNA Polymerase II
T25726 54-69 Entity denotes with antibodies
T25725 177-180 Protein denotes PCR
T25718 78-104 Protein denotes C/EBP-β, p-C/EBP-β (T217),
T25716 226-234 Protein denotes SerpinB2
T25713 87-103 Protein denotes p-C/EBP-β (T217)
T25710 150-154 Protein denotes rIgG
T25708 201-212 Entity denotes ChIP assays
T25707 98-102 Entity denotes T217
T25704 0-17 Entity denotes Soluble chromatin

bionlp-st-ge-2016-test-tees

Id Subject Object Predicate Lexical cue
T25672 150-154 Protein denotes rIgG
T25671 138-148 Protein denotes rabbit IgG
T25670 124-130 Protein denotes RNAPII
T25669 105-122 Protein denotes RNA Polymerase II
T25668 98-102 Protein denotes T217
T25667 78-96 Protein denotes C/EBP-β, p-C/EBP-β

testone

Id Subject Object Predicate Lexical cue
T25283 226-234 Protein denotes SerpinB2
T25282 87-103 Protein denotes p-C/EBP-β (T217)
T25281 78-85 Protein denotes C/EBP-β

test3

Id Subject Object Predicate Lexical cue
T25314 226-234 Protein denotes SerpinB2
T25313 87-104 Protein denotes p-C/EBP-β (T217),
T25312 78-85 Protein denotes C/EBP-β
T25301 226-234 Protein denotes SerpinB2
T25300 87-103 Protein denotes p-C/EBP-β (T217)
T25299 78-85 Protein denotes C/EBP-β