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PMC:539297 / 29837-30857 JSONTXT

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craft-ca-core-dev

Below, discontinuous spans are shown in the chain model. You can change it to the bag model.

Id Subject Object Predicate Lexical cue
T6342 0-9 PR:000022190 denotes Subunit c
T6343 414-426 CHEBI:16842 denotes formaldehyde
T6344 521-530 PR:000022190 denotes subunit c
T6345 650-664 CHEBI:64276 denotes glutaraldehyde
T6346 694-704 CHEBI:16223 denotes cacodylate
T6347 998-1006 GO:0042571 denotes antibody

craft-sa-dev

Id Subject Object Predicate Lexical cue
T6369 0-7 NN denotes Subunit
T6370 8-9 NN denotes c
T6371 10-22 NN denotes accumulation
T6372 23-28 NN denotes assay
T6373 28-239 sentence denotes Cells were seeded into 4-well chamber-slides (Falcon) at a density of 5 × 104 cells per well for microscopy studies, or into 100 mm dishes (Falcon) at a density of 5 × 105 cells per dish for protein extraction.
T6374 29-34 NNS denotes Cells
T6375 40-46 VBN denotes seeded
T6376 35-39 VBD denotes were
T6377 47-51 IN denotes into
T6378 52-53 CD denotes 4
T6379 54-58 NN denotes well
T6380 53-54 HYPH denotes -
T6381 67-73 NNS denotes slides
T6382 59-66 NN denotes chamber
T6383 66-67 HYPH denotes -
T6384 74-75 -LRB- denotes (
T6385 75-81 NNP denotes Falcon
T6386 81-82 -RRB- denotes )
T6387 83-85 IN denotes at
T6388 86-87 DT denotes a
T6389 88-95 NN denotes density
T6390 96-98 IN denotes of
T6391 99-100 CD denotes 5
T6392 103-106 CD denotes 104
T6393 101-102 SYM denotes ×
T6394 107-112 NNS denotes cells
T6395 113-116 IN denotes per
T6396 117-121 NN denotes well
T6397 122-125 IN denotes for
T6398 126-136 NN denotes microscopy
T6399 137-144 NNS denotes studies
T6400 144-146 , denotes ,
T6401 146-148 CC denotes or
T6402 149-153 IN denotes into
T6403 154-157 CD denotes 100
T6404 158-160 NN denotes mm
T6405 161-167 NNS denotes dishes
T6406 168-169 -LRB- denotes (
T6407 169-175 NNP denotes Falcon
T6408 175-176 -RRB- denotes )
T6409 177-179 IN denotes at
T6410 180-181 DT denotes a
T6411 182-189 NN denotes density
T6412 190-192 IN denotes of
T6413 193-194 CD denotes 5
T6414 197-200 CD denotes 105
T6415 195-196 SYM denotes ×
T6416 201-206 NNS denotes cells
T6417 207-210 IN denotes per
T6418 211-215 NN denotes dish
T6419 216-219 IN denotes for
T6420 220-227 NN denotes protein
T6421 228-238 NN denotes extraction
T6422 238-239 . denotes .
T6423 239-357 sentence denotes Cells were typically >95% confluent one day post-plating, and the following day was considered 1-day post-confluency.
T6424 240-245 NNS denotes Cells
T6425 246-250 VBD denotes were
T6426 251-260 RB denotes typically
T6427 261-262 SYM denotes >
T6428 262-264 CD denotes 95
T6429 264-265 NN denotes %
T6430 266-275 JJ denotes confluent
T6431 276-279 CD denotes one
T6432 280-283 NN denotes day
T6433 284-296 RB denotes post-plating
T6434 296-298 , denotes ,
T6435 298-301 CC denotes and
T6436 302-305 DT denotes the
T6437 316-319 NN denotes day
T6438 306-315 JJ denotes following
T6439 324-334 VBN denotes considered
T6440 320-323 VBD denotes was
T6441 335-336 CD denotes 1
T6442 337-340 NN denotes day
T6443 336-337 HYPH denotes -
T6444 341-356 RB denotes post-confluency
T6445 356-357 . denotes .
T6446 357-607 sentence denotes At the indicated times, cells were either fixed with 4% formaldehyde in phosphate buffered saline (PBS), pH 7.4, for 20 minutes and processed for autofluorescence/subunit c immunostaining, or cell pellets were collected for total protein extraction.
T6447 358-360 IN denotes At
T6448 400-405 VBN denotes fixed
T6449 361-364 DT denotes the
T6450 375-380 NNS denotes times
T6451 365-374 VBN denotes indicated
T6452 380-382 , denotes ,
T6453 382-387 NNS denotes cells
T6454 388-392 VBD denotes were
T6455 393-399 RB denotes either
T6456 406-410 IN denotes with
T6457 411-412 CD denotes 4
T6458 412-413 NN denotes %
T6459 414-426 NN denotes formaldehyde
T6460 427-429 IN denotes in
T6461 430-439 NN denotes phosphate
T6462 449-455 NN denotes saline
T6463 440-448 VBN denotes buffered
T6464 456-457 -LRB- denotes (
T6465 457-460 NN denotes PBS
T6466 460-461 -RRB- denotes )
T6467 461-463 , denotes ,
T6468 463-465 NN denotes pH
T6469 466-469 CD denotes 7.4
T6470 469-471 , denotes ,
T6471 471-474 IN denotes for
T6472 475-477 CD denotes 20
T6473 478-485 NNS denotes minutes
T6474 486-489 CC denotes and
T6475 490-499 VBN denotes processed
T6476 500-503 IN denotes for
T6477 504-520 NN denotes autofluorescence
T6478 520-521 HYPH denotes /
T6479 521-528 NN denotes subunit
T6480 529-530 NN denotes c
T6481 531-545 NN denotes immunostaining
T6482 545-547 , denotes ,
T6483 547-549 CC denotes or
T6484 550-554 NN denotes cell
T6485 555-562 NNS denotes pellets
T6486 568-577 VBN denotes collected
T6487 563-567 VBD denotes were
T6488 578-581 IN denotes for
T6489 582-587 JJ denotes total
T6490 596-606 NN denotes extraction
T6491 588-595 NN denotes protein
T6492 606-607 . denotes .
T6493 607-808 sentence denotes Alternatively, cells were fixed with 2.5% glutaraldehyde/2% paraformaldehyde in 0.1 M cacodylate buffer, pH 7.4 for 1 hour and subsequently post-fixed and processed for TEM analysis as described [12].
T6494 608-621 RB denotes Alternatively
T6495 634-639 VBN denotes fixed
T6496 621-623 , denotes ,
T6497 623-628 NNS denotes cells
T6498 629-633 VBD denotes were
T6499 640-644 IN denotes with
T6500 645-648 CD denotes 2.5
T6501 648-649 NN denotes %
T6502 650-664 NN denotes glutaraldehyde
T6503 664-665 HYPH denotes /
T6504 665-666 CD denotes 2
T6505 666-667 NN denotes %
T6506 668-684 NN denotes paraformaldehyde
T6507 685-687 IN denotes in
T6508 688-691 CD denotes 0.1
T6509 692-693 NN denotes M
T6510 705-711 NN denotes buffer
T6511 694-704 NN denotes cacodylate
T6512 711-713 , denotes ,
T6513 713-715 NN denotes pH
T6514 716-719 CD denotes 7.4
T6515 720-723 IN denotes for
T6516 724-725 CD denotes 1
T6517 726-730 NN denotes hour
T6518 731-734 CC denotes and
T6519 735-747 RB denotes subsequently
T6520 748-758 VBN denotes post-fixed
T6521 759-762 CC denotes and
T6522 763-772 VBN denotes processed
T6523 773-776 IN denotes for
T6524 777-780 NN denotes TEM
T6525 781-789 NN denotes analysis
T6526 790-792 IN denotes as
T6527 793-802 VBN denotes described
T6528 803-804 -LRB- denotes [
T6529 804-806 CD denotes 12
T6530 806-807 -RRB- denotes ]
T6531 807-808 . denotes .
T6532 808-903 sentence denotes In confocal microscopy studies, autofluorescent signal was observed over multiple wavelengths.
T6533 809-811 IN denotes In
T6534 868-876 VBN denotes observed
T6535 812-820 JJ denotes confocal
T6536 832-839 NNS denotes studies
T6537 821-831 NN denotes microscopy
T6538 839-841 , denotes ,
T6539 841-856 JJ denotes autofluorescent
T6540 857-863 NN denotes signal
T6541 864-867 VBD denotes was
T6542 877-881 IN denotes over
T6543 882-890 JJ denotes multiple
T6544 891-902 NNS denotes wavelengths
T6545 902-903 . denotes .
T6546 903-1020 sentence denotes For co-staining, settings were reduced such that autofluorescent signal did not contribute to antibody label signal.
T6547 904-907 IN denotes For
T6548 935-942 VBN denotes reduced
T6549 908-919 NN denotes co-staining
T6550 919-921 , denotes ,
T6551 921-929 NNS denotes settings
T6552 930-934 VBD denotes were
T6553 943-947 JJ denotes such
T6554 948-952 IN denotes that
T6555 984-994 VB denotes contribute
T6556 953-968 JJ denotes autofluorescent
T6557 969-975 NN denotes signal
T6558 976-979 VBD denotes did
T6559 980-983 RB denotes not
T6560 995-997 IN denotes to
T6561 998-1006 NN denotes antibody
T6562 1013-1019 NN denotes signal
T6563 1007-1012 NN denotes label
T6564 1019-1020 . denotes .
R3966 T6475 T6448 conj processed,fixed
R3967 T6476 T6475 prep for,processed
R3968 T6477 T6476 pobj autofluorescence,for
R3969 T6478 T6477 punct /,autofluorescence
R3970 T6479 T6480 compound subunit,c
R3971 T6480 T6481 compound c,immunostaining
R3972 T6481 T6477 appos immunostaining,autofluorescence
R3973 T6482 T6448 punct ", ",fixed
R3974 T6483 T6448 cc or,fixed
R3975 T6484 T6485 compound cell,pellets
R3976 T6485 T6486 nsubjpass pellets,collected
R3977 T6486 T6448 conj collected,fixed
R3978 T6487 T6486 auxpass were,collected
R3979 T6488 T6486 prep for,collected
R3980 T6489 T6490 amod total,extraction
R3981 T6490 T6488 pobj extraction,for
R3982 T6491 T6490 compound protein,extraction
R3983 T6492 T6486 punct .,collected
R3984 T6494 T6495 advmod Alternatively,fixed
R3985 T6496 T6495 punct ", ",fixed
R3986 T6497 T6495 nsubjpass cells,fixed
R3987 T6498 T6495 auxpass were,fixed
R3988 T6499 T6495 prep with,fixed
R3989 T6500 T6501 nummod 2.5,%
R3990 T6501 T6502 compound %,glutaraldehyde
R3991 T6502 T6499 pobj glutaraldehyde,with
R3992 T6503 T6502 punct /,glutaraldehyde
R3993 T6504 T6505 nummod 2,%
R3994 T6505 T6506 compound %,paraformaldehyde
R3995 T6506 T6502 appos paraformaldehyde,glutaraldehyde
R3996 T6507 T6495 prep in,fixed
R3997 T6508 T6509 nummod 0.1,M
R3998 T6509 T6510 compound M,buffer
R3999 T6510 T6507 pobj buffer,in
R4000 T6511 T6510 compound cacodylate,buffer
R4001 T6512 T6510 punct ", ",buffer
R3877 T6382 T6381 compound chamber,slides
R3878 T6383 T6381 punct -,slides
R3879 T6384 T6385 punct (,Falcon
R3880 T6385 T6381 parataxis Falcon,slides
R3881 T6386 T6385 punct ),Falcon
R3882 T6387 T6375 prep at,seeded
R3883 T6388 T6389 det a,density
R3884 T6389 T6387 pobj density,at
R3885 T6390 T6389 prep of,density
R3886 T6391 T6392 quantmod 5,104
R3887 T6392 T6394 nummod 104,cells
R3888 T6393 T6392 punct ×,104
R3889 T6394 T6390 pobj cells,of
R3890 T6395 T6394 prep per,cells
R3891 T6396 T6395 pobj well,per
R3892 T6397 T6375 prep for,seeded
R3893 T6398 T6399 compound microscopy,studies
R3894 T6399 T6397 pobj studies,for
R3895 T6400 T6375 punct ", ",seeded
R3896 T6401 T6375 cc or,seeded
R3897 T6402 T6375 conj into,seeded
R3898 T6403 T6404 nummod 100,mm
R3899 T6404 T6405 compound mm,dishes
R3900 T6405 T6402 pobj dishes,into
R3901 T6406 T6407 punct (,Falcon
R3902 T6407 T6405 parataxis Falcon,dishes
R3903 T6408 T6407 punct ),Falcon
R3904 T6409 T6402 prep at,into
R3905 T6410 T6411 det a,density
R3906 T6411 T6409 pobj density,at
R3907 T6412 T6411 prep of,density
R3908 T6413 T6414 quantmod 5,105
R3910 T6415 T6414 punct ×,105
R3935 T6442 T6444 npadvmod day,post-confluency
R3937 T6444 T6439 advmod post-confluency,considered
R3938 T6445 T6439 punct .,considered
R3940 T6449 T6450 det the,times
R3941 T6450 T6447 pobj times,At
R3942 T6451 T6450 amod indicated,times
R3943 T6452 T6448 punct ", ",fixed
R3867 T6369 T6370 compound Subunit,c
R3868 T6370 T6371 compound c,accumulation
R3869 T6371 T6372 compound accumulation,assay
R3870 T6374 T6375 nsubjpass Cells,seeded
R3871 T6376 T6375 auxpass were,seeded
R3872 T6377 T6375 prep into,seeded
R3873 T6378 T6379 nummod 4,well
R3874 T6379 T6381 compound well,slides
R3875 T6380 T6379 punct -,well
R3876 T6381 T6377 pobj slides,into
R3909 T6414 T6416 nummod 105,cells
R3911 T6416 T6412 pobj cells,of
R3912 T6417 T6416 prep per,cells
R3913 T6418 T6417 pobj dish,per
R3914 T6419 T6402 prep for,into
R3915 T6420 T6421 compound protein,extraction
R3916 T6421 T6419 pobj extraction,for
R3917 T6422 T6375 punct .,seeded
R3918 T6424 T6425 nsubj Cells,were
R3919 T6426 T6425 advmod typically,were
R3920 T6427 T6428 punct >,95
R3921 T6428 T6429 nummod 95,%
R3922 T6429 T6430 npadvmod %,confluent
R3923 T6430 T6425 acomp confluent,were
R3924 T6431 T6432 nummod one,day
R3925 T6432 T6433 npadvmod day,post-plating
R3926 T6433 T6425 advmod post-plating,were
R3927 T6434 T6425 punct ", ",were
R3928 T6435 T6425 cc and,were
R3929 T6436 T6437 det the,day
R3930 T6437 T6439 nsubjpass day,considered
R3931 T6438 T6437 amod following,day
R3932 T6439 T6425 conj considered,were
R3933 T6440 T6439 auxpass was,considered
R3934 T6441 T6442 nummod 1,day
R3936 T6443 T6442 punct -,day
R4002 T6513 T6510 npadvmod pH,buffer
R4003 T6514 T6513 nummod 7.4,pH
R4004 T6515 T6495 prep for,fixed
R4005 T6516 T6517 nummod 1,hour
R4019 T6530 T6529 punct ],12
R4006 T6517 T6515 pobj hour,for
R4020 T6531 T6495 punct .,fixed
R4007 T6518 T6495 cc and,fixed
R3939 T6447 T6448 prep At,fixed
R4008 T6519 T6520 advmod subsequently,post-fixed
R4009 T6520 T6495 conj post-fixed,fixed
R4010 T6521 T6520 cc and,post-fixed
R4011 T6522 T6520 conj processed,post-fixed
R4012 T6523 T6522 prep for,processed
R4013 T6524 T6525 compound TEM,analysis
R4014 T6525 T6523 pobj analysis,for
R4015 T6526 T6527 mark as,described
R4016 T6527 T6522 advcl described,processed
R4017 T6528 T6529 punct [,12
R4018 T6529 T6527 parataxis 12,described
R3944 T6453 T6448 nsubjpass cells,fixed
R3945 T6454 T6448 auxpass were,fixed
R3946 T6455 T6448 advmod either,fixed
R3947 T6456 T6448 prep with,fixed
R3948 T6457 T6458 nummod 4,%
R3949 T6458 T6459 compound %,formaldehyde
R3950 T6459 T6456 pobj formaldehyde,with
R3951 T6460 T6448 prep in,fixed
R3952 T6461 T6462 nmod phosphate,saline
R3953 T6462 T6460 pobj saline,in
R3954 T6463 T6462 amod buffered,saline
R3955 T6464 T6462 punct (,saline
R3956 T6465 T6462 appos PBS,saline
R3957 T6466 T6462 punct ),saline
R3958 T6467 T6462 punct ", ",saline
R3959 T6468 T6462 npadvmod pH,saline
R3960 T6469 T6468 nummod 7.4,pH
R3961 T6470 T6448 punct ", ",fixed
R3962 T6471 T6448 prep for,fixed
R3963 T6472 T6473 nummod 20,minutes
R3964 T6473 T6471 pobj minutes,for
R3965 T6474 T6448 cc and,fixed
R4021 T6533 T6534 prep In,observed
R4022 T6535 T6536 amod confocal,studies
R4023 T6536 T6533 pobj studies,In
R4024 T6537 T6536 compound microscopy,studies
R4025 T6538 T6534 punct ", ",observed
R4026 T6539 T6540 amod autofluorescent,signal
R4027 T6540 T6534 nsubjpass signal,observed
R4028 T6541 T6534 auxpass was,observed
R4029 T6542 T6534 prep over,observed
R4030 T6543 T6544 amod multiple,wavelengths
R4031 T6544 T6542 pobj wavelengths,over
R4032 T6545 T6534 punct .,observed
R4033 T6547 T6548 prep For,reduced
R4034 T6549 T6547 pobj co-staining,For
R4035 T6550 T6548 punct ", ",reduced
R4036 T6551 T6548 nsubjpass settings,reduced
R4037 T6552 T6548 auxpass were,reduced
R4038 T6553 T6548 advcl such,reduced
R4039 T6554 T6555 mark that,contribute
R4041 T6556 T6557 amod autofluorescent,signal
R4040 T6555 T6553 ccomp contribute,such
R4042 T6557 T6555 nsubj signal,contribute
R4043 T6558 T6555 aux did,contribute
R4044 T6559 T6555 neg not,contribute
R4045 T6560 T6555 prep to,contribute
R4046 T6561 T6562 compound antibody,signal
R4047 T6562 T6560 pobj signal,to
R4048 T6563 T6562 compound label,signal
R4049 T6564 T6548 punct .,reduced

craft-ca-core-ex-dev

Below, discontinuous spans are shown in the chain model. You can change it to the bag model.

Id Subject Object Predicate Lexical cue
T6348 0-9 PR_EXT:000022190 denotes Subunit c
T6349 29-34 CL_GO_EXT:cell denotes Cells
T6350 107-112 CL_GO_EXT:cell denotes cells
T6351 201-206 CL_GO_EXT:cell denotes cells
T6352 220-227 CHEBI_PR_EXT:protein denotes protein
T6353 240-245 CL_GO_EXT:cell denotes Cells
T6354 382-387 CL_GO_EXT:cell denotes cells
T6356 430-439 CHEBI_EXT:phosphate denotes phosphate
T6357 440-448 CHEBI_CHMO_EXT:buffer_process denotes buffered
T6358 449-455 CHEBI_EXT:saline_solution denotes saline
T6359 521-530 PR_EXT:000022190 denotes subunit c
T6360 550-554 CL_GO_EXT:cell denotes cell
T6361 588-595 CHEBI_PR_EXT:protein denotes protein
T6362 623-628 CL_GO_EXT:cell denotes cells
T6363 650-664 CHEBI:64276 denotes glutaraldehyde
T6364 668-684 CHEBI_EXT:paraformaldehye denotes paraformaldehyde
T6365 694-704 CHEBI:16223 denotes cacodylate
T6366 705-711 CHEBI_CHMO_EXT:buffer_solution denotes buffer
T6367 998-1006 GO:0042571 denotes antibody
T6368 1007-1012 CHEBI_SO_EXT:molecular_indicator_or_label_or_marker_or_tag denotes label
T6355 414-426 CHEBI:16842 denotes formaldehyde

2_test

Id Subject Object Predicate Lexical cue
15588329-12374761-12950168 804-806 12374761 denotes 12