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PMC:3589482 / 11341-11840 JSONTXT

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bionlp-st-ge-2016-spacy-parsed

Id Subject Object Predicate Lexical cue
T6451 374-382 VBN denotes included
T6450 370-373 VBD denotes was
T6449 361-369 NN denotes enhancer
T6448 357-360 CC denotes and
T6447 348-356 NN denotes promoter
T6446 343-347 NNP denotes SV40
T6445 339-342 DT denotes the
T6444 331-338 VBZ denotes encodes
T6443 325-330 WDT denotes which
T6442 317-324 NN denotes plasmid
T6441 309-316 NN denotes control
T6440 304-308 JJ denotes pGL3
T6439 302-303 . denotes .
T6438 301-302 -RRB- denotes )
T6437 298-301 NNP denotes µFd
T6436 294-297 CD denotes 960
T6435 292-293 , denotes ,
T6434 290-292 NNP denotes kV
T6433 285-289 CD denotes 0.25
T6432 284-285 -LRB- denotes (
T6431 275-283 NNP denotes Extender
T6430 263-274 NNP denotes Capacitance
T6429 261-262 DT denotes a
T6428 256-260 IN denotes with
T6427 249-255 NNP denotes Pulser
T6426 244-248 NNP denotes Gene
T6425 236-243 NNP denotes Bio-Rad
T6424 234-235 DT denotes a
T6423 228-233 VBG denotes using
T6422 212-227 NN denotes electroporation
T6421 209-211 IN denotes by
T6420 207-208 -RRB- denotes )
T6419 205-207 NN denotes µg
T6418 203-204 CD denotes 2
T6417 202-203 -LRB- denotes (
T6416 194-201 NN denotes plasmid
T6415 185-193 NN denotes reporter
T6414 177-184 NN denotes control
T6413 168-176 JJ denotes internal
T6412 166-167 -RRB- denotes )
T6411 159-166 NNP denotes Promega
T6410 158-159 -LRB- denotes (
T6409 156-157 -RRB- denotes )
T6408 154-156 NNP denotes TK
T6407 153-154 -LRB- denotes (
T6406 146-152 NN denotes kinase
T6405 132-145 JJ denotes pRL-thymidine
T6404 128-131 DT denotes the
T6403 123-127 IN denotes with
T6402 117-122 IN denotes along
T6401 115-116 -RRB- denotes )
T6400 113-115 NN denotes µg
T6399 110-112 CD denotes 20
T6398 109-110 -LRB- denotes (
T6397 101-108 NN denotes plasmid
T6396 92-100 NN denotes reporter
T6395 81-91 NN denotes luciferase
T6394 71-80 VBN denotes indicated
T6393 67-70 DT denotes the
T6392 62-66 IN denotes with
T6391 50-61 VBN denotes transfected
T6390 45-49 VBD denotes were
T6389 39-44 NN denotes phase
T6388 35-38 VB denotes log
T6387 32-34 IN denotes in
T6386 24-31 VBG denotes growing
T6385 22-23 -RRB- denotes )
T6384 19-22 CD denotes 107
T6383 18-19 CD denotes ×
T6382 17-18 CD denotes 2
T6381 16-17 -LRB- denotes (
T6380 10-15 NNS denotes cells
T6379 4-9 CD denotes 264.7
T6378 0-3 NNP denotes RAW
T6470 498-499 . denotes .
T6469 488-498 NNS denotes activities
T6468 479-487 NN denotes enhancer
T6467 475-478 CC denotes and
T6466 466-474 NN denotes promoter
T6465 462-465 IN denotes for
T6464 453-461 NN denotes standard
T6463 444-452 JJ denotes internal
T6462 441-443 DT denotes an
T6461 438-440 IN denotes as
T6460 434-437 CC denotes and
T6459 432-433 , denotes ,
T6458 422-432 NN denotes efficiency
T6457 409-421 NN denotes transfection
T6456 405-408 IN denotes for
T6455 397-404 NN denotes control
T6454 388-396 JJ denotes positive
T6453 386-387 DT denotes a
T6452 383-385 IN denotes as
R4517 T6379 T6378 nummod 264.7,RAW
R4519 T6381 T6380 punct (,cells
R4520 T6382 T6384 nummod 2,107
R4521 T6383 T6384 nummod ×,107
R4522 T6384 T6380 appos 107,cells
R4523 T6385 T6380 punct ),cells
R4524 T6386 T6386 ROOT growing,growing
R4525 T6387 T6386 prep in,growing
R4526 T6388 T6389 compound log,phase
R4527 T6389 T6387 pobj phase,in
R4528 T6390 T6391 auxpass were,transfected
R4529 T6391 T6386 conj transfected,growing
R4530 T6392 T6391 prep with,transfected
R4531 T6393 T6397 det the,plasmid
R4532 T6394 T6397 amod indicated,plasmid
R4533 T6395 T6397 compound luciferase,plasmid
R4534 T6396 T6397 compound reporter,plasmid
R4535 T6397 T6392 pobj plasmid,with
R4536 T6398 T6397 punct (,plasmid
R4537 T6399 T6400 nummod 20,µg
R4538 T6400 T6397 appos µg,plasmid
R4539 T6401 T6397 punct ),plasmid
R4540 T6402 T6391 prep along,transfected
R4541 T6403 T6402 prep with,along
R4542 T6404 T6406 det the,kinase
R4543 T6405 T6406 amod pRL-thymidine,kinase
R4544 T6406 T6403 pobj kinase,with
R4545 T6407 T6406 punct (,kinase
R4546 T6408 T6406 appos TK,kinase
R4547 T6409 T6406 punct ),kinase
R4548 T6410 T6411 punct (,Promega
R4549 T6411 T6406 appos Promega,kinase
R4550 T6412 T6411 punct ),Promega
R4551 T6413 T6414 amod internal,control
R4552 T6414 T6416 compound control,plasmid
R4553 T6415 T6416 compound reporter,plasmid
R4554 T6416 T6406 appos plasmid,kinase
R4555 T6417 T6419 punct (,µg
R4556 T6418 T6419 nummod 2,µg
R4557 T6419 T6416 appos µg,plasmid
R4558 T6420 T6406 punct ),kinase
R4559 T6421 T6391 agent by,transfected
R4560 T6422 T6421 pobj electroporation,by
R4561 T6423 T6391 advcl using,transfected
R4562 T6424 T6427 det a,Pulser
R4563 T6425 T6427 compound Bio-Rad,Pulser
R4564 T6426 T6427 compound Gene,Pulser
R4565 T6427 T6423 dobj Pulser,using
R4566 T6428 T6423 prep with,using
R4567 T6429 T6431 det a,Extender
R4568 T6430 T6431 compound Capacitance,Extender
R4569 T6431 T6428 pobj Extender,with
R4570 T6432 T6434 punct (,kV
R4571 T6433 T6434 nummod 0.25,kV
R4572 T6434 T6437 npadvmod kV,µFd
R4573 T6435 T6437 punct ",",µFd
R4574 T6436 T6437 nummod 960,µFd
R4575 T6437 T6437 ROOT µFd,µFd
R4576 T6438 T6437 punct ),µFd
R4577 T6439 T6386 punct .,growing
R4578 T6440 T6442 amod pGL3,plasmid
R4579 T6441 T6442 compound control,plasmid
R4580 T6442 T6451 nsubjpass plasmid,included
R4581 T6443 T6444 nsubj which,encodes
R4582 T6444 T6442 relcl encodes,plasmid
R4583 T6445 T6447 det the,promoter
R4584 T6446 T6447 compound SV40,promoter
R4585 T6447 T6444 dobj promoter,encodes
R4586 T6448 T6447 cc and,promoter
R4587 T6449 T6447 conj enhancer,promoter
R4588 T6450 T6451 auxpass was,included
R4589 T6451 T6451 ROOT included,included
R4590 T6452 T6451 prep as,included
R4591 T6453 T6455 det a,control
R4592 T6454 T6455 amod positive,control
R4593 T6455 T6452 pobj control,as
R4594 T6456 T6455 prep for,control
R4595 T6457 T6458 compound transfection,efficiency
R4596 T6458 T6456 pobj efficiency,for
R4597 T6459 T6451 punct ",",included
R4598 T6460 T6451 cc and,included
R4599 T6461 T6451 prep as,included
R4600 T6462 T6464 det an,standard
R4601 T6463 T6464 amod internal,standard
R4602 T6464 T6461 pobj standard,as
R4603 T6465 T6464 prep for,standard
R4604 T6466 T6469 nmod promoter,activities
R4605 T6467 T6466 cc and,promoter
R4606 T6468 T6466 conj enhancer,promoter
R4607 T6469 T6465 pobj activities,for
R4608 T6470 T6451 punct .,included

pmc-enju-pas

Id Subject Object Predicate Lexical cue
T6128 464-474 NN denotes r promoter
T6127 456-464 NN denotes ndard fo
T6126 453-456 CC denotes sta
T6125 444-452 NN denotes internal
T6124 441-444 IN denotes an
T6123 432-440 NN denotes , and as
T6122 424-432 JJ denotes ficiency
T6121 422-424 DT denotes ef
T6120 419-421 IN denotes on
T6119 416-419 CC denotes cti
T6118 415-416 -COMMA- denotes e
T6117 405-415 NN denotes for transf
T6116 393-405 NN denotes ive control
T6115 390-393 IN denotes sit
T6114 383-390 NN denotes as a po
T6113 374-382 JJ denotes included
T6112 372-373 DT denotes s
T6111 370-372 IN denotes wa
T6110 362-370 VB denotes nhancer
T6109 359-362 VB denotes d e
T6108 351-359 NN denotes moter an
T6107 348-351 CC denotes pro
T6106 339-347 NN denotes the SV40
T6105 335-339 NN denotes des
T6104 332-335 DT denotes nco
T6103 325-332 VB denotes which e
T6102 320-325 WDT denotes smid
T6101 313-320 NN denotes rol pla
T6100 306-313 NN denotes L3 cont
T6099 302-306 NN denotes . pG
T6098 301-302 -RRB- denotes )
T6097 298-301 NNP denotes µFd
T6096 294-297 CD denotes 960
T6095 292-293 -COMMA- denotes ,
T6094 290-292 NN denotes kV
T6093 285-289 CD denotes 0.25
T6092 284-285 -LRB- denotes (
T6091 275-283 NNP denotes Extender
T6090 263-274 NNP denotes Capacitance
T6089 261-262 DT denotes a
T6088 256-260 IN denotes with
T6087 249-255 NNP denotes Pulser
T6086 244-248 NNP denotes Gene
T6085 236-243 NNP denotes Bio-Rad
T6084 234-235 DT denotes a
T6083 228-233 VB denotes using
T6082 212-227 NN denotes electroporation
T6081 209-211 IN denotes by
T6080 207-208 -RRB- denotes )
T6079 205-207 NN denotes µg
T6078 203-204 CD denotes 2
T6077 202-203 -LRB- denotes (
T6076 194-201 NN denotes plasmid
T6075 185-193 NN denotes reporter
T6074 177-184 NN denotes control
T6073 168-176 JJ denotes internal
T6072 166-167 -RRB- denotes )
T6071 159-166 NN denotes Promega
T6070 158-159 -LRB- denotes (
T6069 156-157 -RRB- denotes )
T6068 154-156 NN denotes TK
T6067 153-154 -LRB- denotes (
T6066 146-152 NN denotes kinase
T6065 132-145 NN denotes pRL-thymidine
T6064 128-131 DT denotes the
T6063 123-127 IN denotes with
T6062 117-122 IN denotes along
T6061 115-116 -RRB- denotes )
T6060 113-115 NN denotes µg
T6059 110-112 CD denotes 20
T6058 109-110 -LRB- denotes (
T6057 101-108 NN denotes plasmid
T6056 92-100 NN denotes reporter
T6055 81-91 NN denotes luciferase
T6054 71-80 VB denotes indicated
T6053 67-70 DT denotes the
T6052 62-66 IN denotes with
T6051 50-61 VB denotes transfected
T6050 45-49 VB denotes were
T6049 39-44 NN denotes phase
T6048 35-38 NN denotes log
T6047 32-34 IN denotes in
T6046 24-31 VB denotes growing
T6045 22-23 -RRB- denotes )
T6044 17-22 CD denotes 2×107
T6043 16-17 -LRB- denotes (
T6042 10-15 NN denotes cells
T6041 4-9 CD denotes 264.7
T6040 0-3 NN denotes RAW
R4277 T6042 T6040 arg1Of cells,RAW
R4278 T6042 T6041 arg1Of cells,264.7
R4279 T6042 T6043 arg1Of cells,(
R4280 T6042 T6046 arg1Of cells,growing
R4281 T6042 T6050 arg1Of cells,were
R4282 T6042 T6051 arg2Of cells,transfected
R4283 T6044 T6043 arg2Of 2×107,(
R4284 T6045 T6043 arg3Of ),(
R4285 T6046 T6047 arg1Of growing,in
R4286 T6049 T6047 arg2Of phase,in
R4287 T6049 T6048 arg1Of phase,log
R4288 T6051 T6050 arg2Of transfected,were
R4289 T6051 T6052 arg1Of transfected,with
R4290 T6051 T6062 arg1Of transfected,along
R4291 T6051 T6107 arg1Of transfected,pro
R4292 T6057 T6052 arg2Of plasmid,with
R4293 T6057 T6053 arg1Of plasmid,the
R4294 T6057 T6054 arg2Of plasmid,indicated
R4295 T6057 T6055 arg1Of plasmid,luciferase
R4296 T6057 T6056 arg1Of plasmid,reporter
R4297 T6057 T6058 arg1Of plasmid,(
R4298 T6060 T6058 arg2Of µg,(
R4299 T6060 T6059 arg1Of µg,20
R4300 T6061 T6058 arg3Of ),(
R4301 T6062 T6063 arg1Of along,with
R4302 T6066 T6065 arg1Of kinase,pRL-thymidine
R4303 T6066 T6067 arg1Of kinase,(
R4304 T6068 T6067 arg2Of TK,(
R4305 T6069 T6067 arg3Of ),(
R4306 T6071 T6070 arg2Of Promega,(
R4307 T6072 T6070 arg3Of ),(
R4308 T6076 T6063 arg2Of plasmid,with
R4309 T6076 T6064 arg1Of plasmid,the
R4310 T6076 T6066 arg1Of plasmid,kinase
R4311 T6076 T6070 arg1Of plasmid,(
R4312 T6076 T6073 arg1Of plasmid,internal
R4313 T6076 T6074 arg1Of plasmid,control
R4314 T6076 T6075 arg1Of plasmid,reporter
R4315 T6076 T6077 arg1Of plasmid,(
R4316 T6076 T6081 arg1Of plasmid,by
R4317 T6079 T6077 arg2Of µg,(
R4318 T6079 T6078 arg1Of µg,2
R4319 T6080 T6077 arg3Of ),(
R4320 T6082 T6081 arg2Of electroporation,by
R4321 T6082 T6083 arg1Of electroporation,using
R4322 T6083 T6088 arg1Of using,with
R4323 T6087 T6083 arg2Of Pulser,using
R4324 T6087 T6084 arg1Of Pulser,a
R4325 T6087 T6085 arg1Of Pulser,Bio-Rad
R4326 T6087 T6086 arg1Of Pulser,Gene
R4327 T6091 T6090 arg1Of Extender,Capacitance
R4328 T6091 T6092 arg1Of Extender,(
R4329 T6094 T6092 arg2Of kV,(
R4330 T6094 T6093 arg1Of kV,0.25
R4331 T6094 T6095 arg1Of kV,","
R4332 T6094 T6097 arg1Of kV,µFd
R4333 T6096 T6095 arg2Of 960,","
R4334 T6098 T6092 arg3Of ),(
R4335 T6101 T6088 arg2Of rol pla,with
R4336 T6101 T6089 arg1Of rol pla,a
R4337 T6101 T6091 arg1Of rol pla,Extender
R4338 T6101 T6099 arg1Of rol pla,. pG
R4339 T6101 T6100 arg1Of rol pla,L3 cont
R4340 T6101 T6102 arg1Of rol pla,smid
R4341 T6101 T6103 arg1Of rol pla,which e
R4342 T6106 T6103 arg2Of the SV40,which e
R4343 T6106 T6104 arg1Of the SV40,nco
R4344 T6106 T6105 arg1Of the SV40,des
R4345 T6108 T6109 arg1Of moter an,d e
R4346 T6108 T6110 arg2Of moter an,nhancer
R4347 T6110 T6107 arg2Of nhancer ,pro
R4348 T6110 T6109 arg2Of nhancer ,d e
R4349 T6110 T6111 arg1Of nhancer ,wa
R4350 T6110 T6120 arg1Of nhancer ,on
R4351 T6111 T6119 arg1Of wa,cti
R4352 T6114 T6111 arg2Of as a po,wa
R4353 T6114 T6112 arg1Of as a po,s
R4354 T6114 T6113 arg1Of as a po,included
R4355 T6114 T6115 arg1Of as a po,sit
R4356 T6117 T6115 arg2Of for transf,sit
R4357 T6117 T6116 arg1Of for transf,ive control
R4358 T6119 T6118 arg1Of cti,e
R4359 T6120 T6119 arg2Of on,cti
R4360 T6123 T6120 arg2Of ", and as",on
R4361 T6123 T6121 arg1Of ", and as",ef
R4362 T6123 T6122 arg1Of ", and as",ficiency
R4363 T6123 T6124 arg1Of ", and as",an
R4364 T6125 T6126 arg1Of internal,sta
R4365 T6127 T6126 arg2Of ndard fo,sta
R4366 T6128 T6124 arg2Of r promoter,an
R4367 T6128 T6125 arg1Of r promoter,internal
R4368 T6128 T6127 arg1Of r promoter,ndard fo

bionlp-st-ge-2016-test-proteins

Id Subject Object Predicate Lexical cue
T5987 154-156 Protein denotes TK
T5986 136-152 Protein denotes thymidine kinase
T5985 81-91 Protein denotes luciferase

GO-CC

Id Subject Object Predicate Lexical cue
T6006 10-15 http://purl.obolibrary.org/obo/GO_0005623 denotes cells

sentences

Id Subject Object Predicate Lexical cue
T5966 0-499 Sentence denotes RAW 264.7 cells (2×107) growing in log phase were transfected with the indicated luciferase reporter plasmid (20 µg) along with the pRL-thymidine kinase (TK) (Promega) internal control reporter plasmid (2 µg) by electroporation using a Bio-Rad Gene Pulser with a Capacitance Extender (0.25 kV, 960 µFd). pGL3 control plasmid which encodes the SV40 promoter and enhancer was included as a positive control for transfection efficiency, and as an internal standard for promoter and enhancer activities.
T70 0-499 Sentence denotes RAW 264.7 cells (2×107) growing in log phase were transfected with the indicated luciferase reporter plasmid (20 µg) along with the pRL-thymidine kinase (TK) (Promega) internal control reporter plasmid (2 µg) by electroporation using a Bio-Rad Gene Pulser with a Capacitance Extender (0.25 kV, 960 µFd). pGL3 control plasmid which encodes the SV40 promoter and enhancer was included as a positive control for transfection efficiency, and as an internal standard for promoter and enhancer activities.

simple1

Id Subject Object Predicate Lexical cue
T6023 154-156 Protein denotes TK
T6022 136-152 Protein denotes thymidine kinase
T6021 81-91 Protein denotes luciferase

BioNLP16_DUT

Id Subject Object Predicate Lexical cue
T6250 154-156 Protein denotes TK
T6249 136-152 Protein denotes thymidine kinase
T6248 81-91 Protein denotes luciferase

BioNLP16_Messiy

Id Subject Object Predicate Lexical cue
T6292 154-156 Protein denotes TK
T6291 136-152 Protein denotes thymidine kinase
T6290 81-91 Protein denotes luciferase

DLUT931

Id Subject Object Predicate Lexical cue
T6269 154-156 Protein denotes TK
T6268 136-152 Protein denotes thymidine kinase
T6267 81-91 Protein denotes luciferase

bionlp-st-ge-2016-test-ihmc

Id Subject Object Predicate Lexical cue
T6350 466-474 Entity denotes promoter
T6346 81-91 Protein denotes luciferase
T6345 132-145 Protein denotes pRL-thymidine
T6344 339-356 Entity denotes the SV40 promoter
T6338 132-145 Entity denotes pRL-thymidine
T6335 234-248 Protein denotes a Bio-Rad Gene
T6352 136-145 Entity denotes thymidine
T6363 154-156 Protein denotes TK
T6361 128-157 Protein denotes the pRL-thymidine kinase (TK)

bionlp-st-ge-2016-test-tees

Id Subject Object Predicate Lexical cue
T6305 343-356 Protein denotes SV40 promoter
T6304 154-156 Protein denotes TK
T6303 132-152 Protein denotes pRL-thymidine kinase
T6302 81-91 Protein denotes luciferase

testone

Id Subject Object Predicate Lexical cue
T5929 154-156 Protein denotes TK
T5928 136-152 Protein denotes thymidine kinase
T5927 81-91 Protein denotes luciferase
R4256 T5929 T5928 equivalentTo TK,thymidine kinase

test3

Id Subject Object Predicate Lexical cue
T5954 154-156 Protein denotes TK
T5953 136-152 Protein denotes thymidine kinase
T5952 81-91 Protein denotes luciferase
T5943 154-156 Protein denotes TK
T5942 136-152 Protein denotes thymidine kinase
T5941 81-91 Protein denotes luciferase
R4263 T5954 T5953 equivalentTo TK,thymidine kinase