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PMC:1448208 / 16380-17341 JSONTXT

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craft-sa-dev

Id Subject Object Predicate Lexical cue
T10447 356-359 CD denotes 522
T10374 0-2 TO denotes To
T10375 3-9 VB denotes create
T10376 31-35 VBD denotes used
T10377 10-12 NN denotes E2
T10378 22-26 NNS denotes mice
T10379 13-21 NN denotes knockout
T10380 26-28 , denotes ,
T10381 28-30 PRP denotes we
T10382 36-40 NN denotes gene
T10383 41-50 NN denotes targeting
T10384 51-53 IN denotes in
T10385 54-59 NN denotes mouse
T10386 63-68 NNS denotes cells
T10387 60-62 NN denotes ES
T10388 69-71 TO denotes to
T10389 72-79 VB denotes disrupt
T10390 80-83 DT denotes the
T10391 87-91 NN denotes gene
T10392 84-86 NN denotes E2
T10393 91-92 . denotes .
T10394 92-167 sentence denotes The overall strategy for disrupting the E2 gene is illustrated in Fig. 1A.
T10395 93-96 DT denotes The
T10396 105-113 NN denotes strategy
T10397 97-104 JJ denotes overall
T10398 144-155 VBN denotes illustrated
T10399 114-117 IN denotes for
T10400 118-128 VBG denotes disrupting
T10401 129-132 DT denotes the
T10402 136-140 NN denotes gene
T10403 133-135 NN denotes E2
T10404 141-143 VBZ denotes is
T10405 156-158 IN denotes in
T10406 159-163 NN denotes Fig.
T10407 164-166 NN denotes 1A
T10408 166-167 . denotes .
T10409 167-352 sentence denotes The gene targeting construct was designed to replace a 1.67 kb EcoRV/Smal genomic DNA fragment encompassing part of Exon 4 and all of Exon 5 with the PGKneo selectable marker cassette.
T10410 168-171 DT denotes The
T10411 187-196 NN denotes construct
T10412 172-176 NN denotes gene
T10413 177-186 NN denotes targeting
T10414 201-209 VBN denotes designed
T10415 197-200 VBD denotes was
T10416 210-212 TO denotes to
T10417 213-220 VB denotes replace
T10418 221-222 DT denotes a
T10419 254-262 NN denotes fragment
T10420 223-227 CD denotes 1.67
T10421 228-230 NN denotes kb
T10422 231-236 NN denotes EcoRV
T10423 237-241 NN denotes Smal
T10424 236-237 HYPH denotes /
T10425 242-249 JJ denotes genomic
T10426 250-253 NN denotes DNA
T10427 263-275 VBG denotes encompassing
T10428 276-280 NN denotes part
T10429 281-283 IN denotes of
T10430 284-288 NN denotes Exon
T10431 289-290 CD denotes 4
T10432 291-294 CC denotes and
T10433 295-298 DT denotes all
T10434 299-301 IN denotes of
T10435 302-306 NN denotes Exon
T10436 307-308 CD denotes 5
T10437 309-313 IN denotes with
T10438 314-317 DT denotes the
T10439 343-351 NN denotes cassette
T10440 318-324 NN denotes PGKneo
T10441 325-335 JJ denotes selectable
T10442 336-342 NN denotes marker
T10443 351-352 . denotes .
T10444 352-544 sentence denotes Of 522 ES cell clones screened for targeting by Southern blot analysis, 29 (5%) displayed the predicted restriction fragment length polymorphisms indicative of gene targeting at the E2 locus.
T10445 353-355 IN denotes Of
T10446 433-442 VBD denotes displayed
T10448 368-374 NNS denotes clones
T10449 360-362 NN denotes ES
T10450 363-367 NN denotes cell
T10451 375-383 VBN denotes screened
T10452 384-387 IN denotes for
T10453 388-397 NN denotes targeting
T10454 398-400 IN denotes by
T10455 401-409 NNP denotes Southern
T10456 410-414 NN denotes blot
T10457 415-423 NN denotes analysis
T10458 423-425 , denotes ,
T10459 425-427 CD denotes 29
T10460 428-429 -LRB- denotes (
T10461 430-431 NN denotes %
T10462 429-430 CD denotes 5
T10463 431-432 -RRB- denotes )
T10464 443-446 DT denotes the
T10465 485-498 NNS denotes polymorphisms
T10466 447-456 VBN denotes predicted
T10467 457-468 NN denotes restriction
T10468 478-484 NN denotes length
T10469 469-477 NN denotes fragment
T10470 499-509 JJ denotes indicative
T10471 510-512 IN denotes of
T10472 513-517 NN denotes gene
T10473 518-527 VBG denotes targeting
T10474 528-530 IN denotes at
T10475 531-534 DT denotes the
T10476 538-543 NN denotes locus
T10477 535-537 NN denotes E2
T10478 543-544 . denotes .
T10479 544-766 sentence denotes As illustrated in Fig. 1A and 1B, an E2 Exon 6 specific probe, which is external to the targeting construct, hybridizes to only a ~16 kb BglI restriction fragment from the wild type allele in the parental R1 ES cell line.
T10480 545-547 IN denotes As
T10481 548-559 VBN denotes illustrated
T10482 654-664 VBZ denotes hybridizes
T10483 560-562 IN denotes in
T10484 563-567 NN denotes Fig.
T10485 568-570 NN denotes 1A
T10486 571-574 CC denotes and
T10487 575-577 NN denotes 1B
T10488 577-579 , denotes ,
T10489 579-581 DT denotes an
T10490 601-606 NN denotes probe
T10491 582-584 NN denotes E2
T10492 585-589 NN denotes Exon
T10493 590-591 CD denotes 6
T10494 592-600 JJ denotes specific
T10495 606-608 , denotes ,
T10496 608-613 WDT denotes which
T10497 614-616 VBZ denotes is
T10498 617-625 JJ denotes external
T10499 626-628 IN denotes to
T10500 629-632 DT denotes the
T10501 643-652 NN denotes construct
T10502 633-642 NN denotes targeting
T10503 652-654 , denotes ,
T10504 665-667 IN denotes to
T10505 668-672 RB denotes only
T10506 699-707 NN denotes fragment
T10507 673-674 DT denotes a
T10508 675-676 SYM denotes ~
T10509 676-678 CD denotes 16
T10510 679-681 NN denotes kb
T10511 682-686 NN denotes BglI
T10512 687-698 NN denotes restriction
T10513 708-712 IN denotes from
T10514 713-716 DT denotes the
T10515 727-733 NN denotes allele
T10516 717-721 JJ denotes wild
T10517 722-726 NN denotes type
T10518 734-736 IN denotes in
T10519 737-740 DT denotes the
T10520 761-765 NN denotes line
T10521 741-749 JJ denotes parental
T10522 750-752 NN denotes R1
T10523 753-755 NN denotes ES
T10524 756-760 NN denotes cell
T10525 765-766 . denotes .
T10526 766-864 sentence denotes In correctly targeted ES cells, this probe also hybridizes to a ~11 kb BglI restriction fragment.
T10527 767-769 IN denotes In
T10528 815-825 VBZ denotes hybridizes
T10529 770-779 RB denotes correctly
T10530 780-788 VBN denotes targeted
T10531 792-797 NNS denotes cells
T10532 789-791 NN denotes ES
T10533 797-799 , denotes ,
T10534 799-803 DT denotes this
T10535 804-809 NN denotes probe
T10536 810-814 RB denotes also
T10537 826-828 IN denotes to
T10538 829-830 DT denotes a
T10539 855-863 NN denotes fragment
T10540 831-832 SYM denotes ~
T10541 832-834 CD denotes 11
T10542 835-837 NN denotes kb
T10543 838-842 NN denotes BglI
T10544 843-854 NN denotes restriction
T10545 863-864 . denotes .
T10546 864-961 sentence denotes Targeting was confirmed with several additional restriction enzymes and probes (data not shown).
T10547 865-874 NN denotes Targeting
T10548 879-888 VBN denotes confirmed
T10549 875-878 VBD denotes was
T10550 889-893 IN denotes with
T10551 894-901 JJ denotes several
T10552 925-932 NNS denotes enzymes
T10553 902-912 JJ denotes additional
T10554 913-924 NN denotes restriction
T10555 933-936 CC denotes and
T10556 937-943 NNS denotes probes
T10557 944-945 -LRB- denotes (
T10558 954-959 VBN denotes shown
T10559 945-949 NNS denotes data
T10560 950-953 RB denotes not
T10561 959-960 -RRB- denotes )
T10562 960-961 . denotes .
R2783 T10374 T10375 aux To,create
R2784 T10375 T10376 advcl create,used
R2785 T10377 T10378 compound E2,mice
R2786 T10378 T10375 dobj mice,create
R2787 T10379 T10378 compound knockout,mice
R2788 T10380 T10376 punct ", ",used
R2789 T10381 T10376 nsubj we,used
R2790 T10382 T10383 compound gene,targeting
R2791 T10383 T10376 dobj targeting,used
R2792 T10384 T10376 prep in,used
R2793 T10385 T10386 compound mouse,cells
R2794 T10386 T10384 pobj cells,in
R2795 T10387 T10386 compound ES,cells
R2796 T10388 T10389 aux to,disrupt
R2797 T10389 T10376 advcl disrupt,used
R2798 T10390 T10391 det the,gene
R2799 T10391 T10389 dobj gene,disrupt
R2800 T10392 T10391 compound E2,gene
R2801 T10393 T10376 punct .,used
R2802 T10395 T10396 det The,strategy
R2803 T10396 T10398 nsubjpass strategy,illustrated
R2804 T10397 T10396 amod overall,strategy
R2805 T10399 T10396 prep for,strategy
R2806 T10400 T10399 pcomp disrupting,for
R2807 T10401 T10402 det the,gene
R2808 T10402 T10400 dobj gene,disrupting
R2809 T10403 T10402 compound E2,gene
R2810 T10404 T10398 auxpass is,illustrated
R2811 T10405 T10398 prep in,illustrated
R2812 T10406 T10407 compound Fig.,1A
R2813 T10407 T10405 pobj 1A,in
R2814 T10408 T10398 punct .,illustrated
R2815 T10410 T10411 det The,construct
R2816 T10411 T10414 nsubjpass construct,designed
R2817 T10412 T10413 compound gene,targeting
R2818 T10413 T10411 compound targeting,construct
R2819 T10415 T10414 auxpass was,designed
R2820 T10416 T10417 aux to,replace
R2821 T10417 T10414 advcl replace,designed
R2822 T10418 T10419 det a,fragment
R2823 T10419 T10417 dobj fragment,replace
R2824 T10420 T10421 nummod 1.67,kb
R2825 T10421 T10419 nmod kb,fragment
R2826 T10422 T10423 nmod EcoRV,Smal
R2827 T10423 T10419 nmod Smal,fragment
R2828 T10424 T10423 punct /,Smal
R2829 T10425 T10419 amod genomic,fragment
R2830 T10426 T10419 compound DNA,fragment
R2831 T10427 T10419 acl encompassing,fragment
R2832 T10428 T10427 dobj part,encompassing
R2833 T10429 T10428 prep of,part
R2834 T10430 T10429 pobj Exon,of
R2835 T10431 T10430 nummod 4,Exon
R2836 T10432 T10428 cc and,part
R2837 T10433 T10428 conj all,part
R2838 T10434 T10433 prep of,all
R2839 T10435 T10434 pobj Exon,of
R2840 T10436 T10435 nummod 5,Exon
R2841 T10437 T10417 prep with,replace
R2842 T10438 T10439 det the,cassette
R2843 T10439 T10437 pobj cassette,with
R2844 T10440 T10439 nmod PGKneo,cassette
R2845 T10441 T10439 amod selectable,cassette
R2846 T10442 T10439 compound marker,cassette
R2847 T10443 T10414 punct .,designed
R2848 T10445 T10446 prep Of,displayed
R2849 T10447 T10448 nummod 522,clones
R2850 T10448 T10445 pobj clones,Of
R2851 T10449 T10450 compound ES,cell
R2852 T10450 T10448 compound cell,clones
R2853 T10451 T10448 acl screened,clones
R2854 T10452 T10451 prep for,screened
R2855 T10453 T10452 pobj targeting,for
R2856 T10454 T10451 prep by,screened
R2857 T10455 T10456 compound Southern,blot
R2858 T10456 T10457 compound blot,analysis
R2859 T10457 T10454 pobj analysis,by
R2860 T10458 T10446 punct ", ",displayed
R2861 T10459 T10446 nsubj 29,displayed
R2862 T10460 T10461 punct (,%
R2863 T10461 T10459 parataxis %,29
R2864 T10462 T10461 nummod 5,%
R2865 T10463 T10461 punct ),%
R2866 T10464 T10465 det the,polymorphisms
R2867 T10465 T10446 dobj polymorphisms,displayed
R2868 T10466 T10465 amod predicted,polymorphisms
R2869 T10467 T10468 compound restriction,length
R2870 T10468 T10465 compound length,polymorphisms
R2871 T10469 T10468 compound fragment,length
R2872 T10470 T10465 amod indicative,polymorphisms
R2873 T10471 T10470 prep of,indicative
R2874 T10472 T10471 pobj gene,of
R2875 T10473 T10472 amod targeting,gene
R2876 T10474 T10446 prep at,displayed
R2877 T10475 T10476 det the,locus
R2878 T10476 T10474 pobj locus,at
R2879 T10477 T10476 compound E2,locus
R2880 T10478 T10446 punct .,displayed
R2881 T10480 T10481 mark As,illustrated
R2882 T10481 T10482 advcl illustrated,hybridizes
R2883 T10483 T10481 prep in,illustrated
R2884 T10484 T10485 compound Fig.,1A
R2885 T10485 T10483 pobj 1A,in
R2886 T10486 T10485 cc and,1A
R2887 T10487 T10485 conj 1B,1A
R2888 T10488 T10482 punct ", ",hybridizes
R2889 T10489 T10490 det an,probe
R2890 T10490 T10482 nsubj probe,hybridizes
R2891 T10491 T10490 nmod E2,probe
R2892 T10492 T10490 nmod Exon,probe
R2893 T10493 T10492 nummod 6,Exon
R2894 T10494 T10490 amod specific,probe
R2895 T10495 T10490 punct ", ",probe
R2896 T10496 T10497 dep which,is
R2897 T10497 T10490 relcl is,probe
R2898 T10498 T10497 acomp external,is
R2899 T10499 T10498 prep to,external
R2900 T10500 T10501 det the,construct
R2901 T10501 T10499 pobj construct,to
R2902 T10502 T10501 compound targeting,construct
R2903 T10503 T10482 punct ", ",hybridizes
R2904 T10504 T10482 prep to,hybridizes
R2905 T10505 T10506 advmod only,fragment
R2906 T10506 T10504 pobj fragment,to
R2907 T10507 T10506 det a,fragment
R2908 T10508 T10509 punct ~,16
R2909 T10509 T10510 nummod 16,kb
R2910 T10510 T10506 compound kb,fragment
R2911 T10511 T10506 compound BglI,fragment
R2912 T10512 T10506 compound restriction,fragment
R2913 T10513 T10506 prep from,fragment
R2914 T10514 T10515 det the,allele
R2915 T10515 T10513 pobj allele,from
R2916 T10516 T10517 amod wild,type
R2917 T10517 T10515 compound type,allele
R2918 T10518 T10515 prep in,allele
R2919 T10519 T10520 det the,line
R2920 T10520 T10518 pobj line,in
R2921 T10521 T10520 amod parental,line
R2922 T10522 T10520 compound R1,line
R2923 T10523 T10524 compound ES,cell
R2924 T10524 T10520 compound cell,line
R2925 T10525 T10482 punct .,hybridizes
R2926 T10527 T10528 prep In,hybridizes
R2927 T10529 T10530 advmod correctly,targeted
R2928 T10530 T10531 amod targeted,cells
R2929 T10531 T10527 pobj cells,In
R2930 T10532 T10531 compound ES,cells
R2931 T10533 T10528 punct ", ",hybridizes
R2932 T10534 T10535 det this,probe
R2933 T10535 T10528 nsubj probe,hybridizes
R2934 T10536 T10528 advmod also,hybridizes
R2935 T10537 T10528 prep to,hybridizes
R2936 T10538 T10539 det a,fragment
R2937 T10539 T10537 pobj fragment,to
R2938 T10540 T10541 punct ~,11
R2939 T10541 T10542 nummod 11,kb
R2940 T10542 T10539 compound kb,fragment
R2941 T10543 T10539 compound BglI,fragment
R2942 T10544 T10539 compound restriction,fragment
R2943 T10545 T10528 punct .,hybridizes
R2944 T10547 T10548 nsubjpass Targeting,confirmed
R2945 T10549 T10548 auxpass was,confirmed
R2946 T10550 T10548 prep with,confirmed
R2947 T10551 T10552 amod several,enzymes
R2948 T10552 T10550 pobj enzymes,with
R2949 T10553 T10552 amod additional,enzymes
R2950 T10554 T10552 compound restriction,enzymes
R2951 T10555 T10552 cc and,enzymes
R2952 T10556 T10552 conj probes,enzymes
R2953 T10557 T10558 punct (,shown
R2954 T10558 T10548 parataxis shown,confirmed
R2955 T10559 T10558 nsubj data,shown
R2956 T10560 T10558 neg not,shown
R2957 T10561 T10558 punct ),shown
R2958 T10562 T10548 punct .,confirmed

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
T10233 10-12 PR_EXT:000006300 denotes E2
T10234 22-26 NCBITaxon:10088 denotes mice
T10235 36-40 SO_EXT:0000704 denotes gene
T10236 54-59 NCBITaxon:10088 denotes mouse
T10237 60-68 CL:0002322 denotes ES cells
T10238 63-68 CL_GO_EXT:cell denotes cells
T10239 84-86 PR_EXT:000006300 denotes E2
T10240 87-91 SO_EXT:0000704 denotes gene
T10241 133-135 PR_EXT:000006300 denotes E2
T10242 136-140 SO_EXT:0000704 denotes gene
T10243 172-176 SO_EXT:0000704 denotes gene
T10244 187-196 SO_EXT:engineered_biological_sequence denotes construct
T10245 213-220 SO_EXT:sequence_substitution_process denotes replace
T10246 229-230 CHEBI_SO_EXT:base denotes b
T10247 242-253 SO_EXT:genomic_DNA denotes genomic DNA
T10248 250-253 CHEBI_SO_EXT:DNA denotes DNA
T10249 276-288 SO_EXT:0000852 denotes part of Exon
T10250 302-306 SO_EXT:0000147 denotes Exon
T10251 336-342 CHEBI_SO_EXT:molecular_indicator_or_label_or_marker_or_tag denotes marker
T10252 360-367 CL:0002322 denotes ES cell
T10253 363-367 CL_GO_EXT:cell denotes cell
T10254 368-374 SO_EXT:sequence_cloned_entity denotes clones
T10255 457-498 SO_EXT:0000193 denotes restriction fragment length polymorphisms
T10256 513-517 SO_EXT:0000704 denotes gene
T10257 535-537 PR_EXT:000006300 denotes E2
T10258 582-584 PR_EXT:000006300 denotes E2
T10259 585-589 SO_EXT:0000147 denotes Exon
T10260 601-606 CHEBI_SO_EXT:molecular_probe denotes probe
T10261 643-652 SO_EXT:engineered_biological_sequence denotes construct
T10262 654-664 GO:0097617 denotes hybridizes
T10263 680-681 CHEBI_SO_EXT:base denotes b
T10264 687-707 SO_EXT:0000412 denotes restriction fragment
T10265 717-726 SO_EXT:wild_type_entity_or_quality denotes wild type
T10266 727-733 SO_EXT:0001023 denotes allele
T10267 753-760 CL:0002322 denotes ES cell
T10268 756-760 CL_GO_EXT:cell denotes cell
T10269 789-797 CL:0002322 denotes ES cells
T10270 792-797 CL_GO_EXT:cell denotes cells
T10271 804-809 CHEBI_SO_EXT:molecular_probe denotes probe
T10272 815-825 GO:0097617 denotes hybridizes
T10273 836-837 CHEBI_SO_EXT:base denotes b
T10274 843-863 SO_EXT:0000412 denotes restriction fragment
T10275 913-932 GO_EXT:0015666 denotes restriction enzymes
T10276 925-932 CHEBI_GO_SO_EXT:enzyme denotes enzymes
T10277 937-943 CHEBI_SO_EXT:molecular_probe denotes probes

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
T10169 10-12 PR:000006300 denotes E2
T10170 22-26 NCBITaxon:10088 denotes mice
T10171 36-40 SO:0000704 denotes gene
T10172 54-59 NCBITaxon:10088 denotes mouse
T10173 60-68 CL:0002322 denotes ES cells
T10174 84-86 PR:000006300 denotes E2
T10175 87-91 SO:0000704 denotes gene
T10176 133-135 PR:000006300 denotes E2
T10177 136-140 SO:0000704 denotes gene
T10178 172-176 SO:0000704 denotes gene
T10179 242-249 SO:0001026 denotes genomic
T10180 276-288 SO:0000852 denotes part of Exon
T10181 302-306 SO:0000147 denotes Exon
T10182 360-367 CL:0002322 denotes ES cell
T10183 457-498 SO:0000193 denotes restriction fragment length polymorphisms
T10184 513-517 SO:0000704 denotes gene
T10185 535-537 PR:000006300 denotes E2
T10186 582-584 PR:000006300 denotes E2
T10187 585-589 SO:0000147 denotes Exon
T10188 654-664 GO:0097617 denotes hybridizes
T10189 687-707 SO:0000412 denotes restriction fragment
T10190 727-733 SO:0001023 denotes allele
T10191 753-760 CL:0002322 denotes ES cell
T10192 789-797 CL:0002322 denotes ES cells
T10193 815-825 GO:0097617 denotes hybridizes
T10194 843-863 SO:0000412 denotes restriction fragment