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PMC:1440874 / 50085-51110 JSONTXT

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craft-sa-dev

Id Subject Object Predicate Lexical cue
T11189 0-10 NN denotes Generation
T11190 11-13 IN denotes of
T11191 14-16 NN denotes ES
T11192 17-22 NNS denotes cells
T11193 23-30 VBG denotes bearing
T11194 31-34 DT denotes the
T11195 45-51 NN denotes allele
T11196 35-44 NN denotes Atrx flox
T11197 51-52 . denotes .
T11198 52-217 sentence denotes Briefly, the targeting vector (shown in Figure 2A) places a loxP site within intron 18 and a loxP-flanked MC1neopA selection cassette in intron 17 of the Atrx gene.
T11199 53-60 RB denotes Briefly
T11200 104-110 VBZ denotes places
T11201 60-62 , denotes ,
T11202 62-65 DT denotes the
T11203 76-82 NN denotes vector
T11204 66-75 NN denotes targeting
T11205 83-84 -LRB- denotes (
T11206 84-89 VBN denotes shown
T11207 90-92 IN denotes in
T11208 93-99 NN denotes Figure
T11209 100-102 NN denotes 2A
T11210 102-103 -RRB- denotes )
T11211 111-112 DT denotes a
T11212 118-122 NN denotes site
T11213 113-117 NN denotes loxP
T11214 123-129 IN denotes within
T11215 130-136 NN denotes intron
T11216 137-139 CD denotes 18
T11217 140-143 CC denotes and
T11218 144-145 DT denotes a
T11219 178-186 NN denotes cassette
T11220 146-150 NN denotes loxP
T11221 151-158 VBN denotes flanked
T11222 150-151 HYPH denotes -
T11223 159-167 NN denotes MC1neopA
T11224 168-177 NN denotes selection
T11225 187-189 IN denotes in
T11226 190-196 NN denotes intron
T11227 197-199 CD denotes 17
T11228 200-202 IN denotes of
T11229 203-206 DT denotes the
T11230 212-216 NN denotes gene
T11231 207-211 NN denotes Atrx
T11232 216-217 . denotes .
T11233 217-288 sentence denotes A detailed description of the targeting construct is provided in [20].
T11234 218-219 DT denotes A
T11235 229-240 NN denotes description
T11236 220-228 VBN denotes detailed
T11237 271-279 VBN denotes provided
T11238 241-243 IN denotes of
T11239 244-247 DT denotes the
T11240 258-267 NN denotes construct
T11241 248-257 NN denotes targeting
T11242 268-270 VBZ denotes is
T11243 280-282 IN denotes in
T11244 283-284 -LRB- denotes [
T11245 284-286 CD denotes 20
T11246 286-287 -RRB- denotes ]
T11247 287-288 . denotes .
T11248 288-428 sentence denotes Linearised plasmid (150 μg) was electroporated into 1 × 108 E14Tg2a ES cells, and colonies resistant to G418 and ganciclovir were isolated.
T11249 289-299 VBN denotes Linearised
T11250 300-307 NN denotes plasmid
T11251 321-335 VBN denotes electroporated
T11252 308-309 -LRB- denotes (
T11253 313-315 NNS denotes μg
T11254 309-312 CD denotes 150
T11255 315-316 -RRB- denotes )
T11256 317-320 VBD denotes was
T11257 336-340 IN denotes into
T11258 341-342 CD denotes 1
T11259 345-348 CD denotes 108
T11260 343-344 SYM denotes ×
T11261 360-365 NNS denotes cells
T11262 349-356 NN denotes E14Tg2a
T11263 357-359 NN denotes ES
T11264 365-367 , denotes ,
T11265 367-370 CC denotes and
T11266 371-379 NNS denotes colonies
T11267 419-427 VBN denotes isolated
T11268 380-389 JJ denotes resistant
T11269 390-392 IN denotes to
T11270 393-397 NN denotes G418
T11271 398-401 CC denotes and
T11272 402-413 NN denotes ganciclovir
T11273 414-418 VBD denotes were
T11274 427-428 . denotes .
T11275 428-662 sentence denotes Homologous targeting events were identified by Southern blot of EcoRI-digested DNA and hybridisation with a 5′ probe (generated with primers PPS1.20 and PPS1.27) and a 3′ probe (a 0.9-kb HaeIII fragment) as shown in Figure 2A and 2B.
T11276 429-439 JJ denotes Homologous
T11277 450-456 NNS denotes events
T11278 440-449 NN denotes targeting
T11279 462-472 VBN denotes identified
T11280 457-461 VBD denotes were
T11281 473-475 IN denotes by
T11282 476-484 NNP denotes Southern
T11283 485-489 NN denotes blot
T11284 490-492 IN denotes of
T11285 493-498 NN denotes EcoRI
T11286 499-507 VBN denotes digested
T11287 498-499 HYPH denotes -
T11288 508-511 NN denotes DNA
T11289 512-515 CC denotes and
T11290 516-529 NN denotes hybridisation
T11291 530-534 IN denotes with
T11292 535-536 DT denotes a
T11293 540-545 NN denotes probe
T11294 537-538 CD denotes 5
T11295 538-539 SYM denotes ′
T11296 546-547 -LRB- denotes (
T11297 547-556 VBN denotes generated
T11298 557-561 IN denotes with
T11299 562-569 NNS denotes primers
T11300 570-577 NN denotes PPS1.20
T11301 578-581 CC denotes and
T11302 582-589 NN denotes PPS1.27
T11303 589-590 -RRB- denotes )
T11304 591-594 CC denotes and
T11305 595-596 DT denotes a
T11306 600-605 NN denotes probe
T11307 597-598 CD denotes 3
T11308 598-599 SYM denotes ′
T11309 606-607 -LRB- denotes (
T11310 607-608 DT denotes a
T11311 623-631 NN denotes fragment
T11312 609-612 CD denotes 0.9
T11313 613-615 NN denotes kb
T11314 612-613 HYPH denotes -
T11315 616-622 NN denotes HaeIII
T11316 631-632 -RRB- denotes )
T11317 633-635 IN denotes as
T11318 636-641 VBN denotes shown
T11319 642-644 IN denotes in
T11320 645-651 NN denotes Figure
T11321 652-654 NN denotes 2A
T11322 655-658 CC denotes and
T11323 659-661 NN denotes 2B
T11324 661-662 . denotes .
T11325 662-981 sentence denotes DNA from correctly targeted clones was also digested with SacI and analysed by Southern blot and hybridisation with a probe from within intron 17 (a PCR product generated with primers PPS1.15 and Xnp46) to confirm that the loxP site within intron 18 had been included within the crossed-over region (Figure 2A and 2C).
T11326 663-666 NN denotes DNA
T11327 707-715 VBN denotes digested
T11328 667-671 IN denotes from
T11329 672-681 RB denotes correctly
T11330 682-690 VBN denotes targeted
T11331 691-697 NNS denotes clones
T11332 698-701 VBD denotes was
T11333 702-706 RB denotes also
T11334 716-720 IN denotes with
T11335 721-725 NN denotes SacI
T11336 726-729 CC denotes and
T11337 730-738 VBN denotes analysed
T11338 739-741 IN denotes by
T11339 742-750 NNP denotes Southern
T11340 751-755 NN denotes blot
T11341 756-759 CC denotes and
T11342 760-773 NN denotes hybridisation
T11343 774-778 IN denotes with
T11344 779-780 DT denotes a
T11345 781-786 NN denotes probe
T11346 787-791 IN denotes from
T11347 792-798 IN denotes within
T11348 799-805 NN denotes intron
T11349 806-808 CD denotes 17
T11350 809-810 -LRB- denotes (
T11351 810-811 DT denotes a
T11352 816-823 NN denotes product
T11353 812-815 NN denotes PCR
T11354 824-833 VBN denotes generated
T11355 834-838 IN denotes with
T11356 839-846 NNS denotes primers
T11357 847-854 NN denotes PPS1.15
T11358 855-858 CC denotes and
T11359 859-864 NN denotes Xnp46
T11360 864-865 -RRB- denotes )
T11361 866-868 TO denotes to
T11362 869-876 VB denotes confirm
T11363 877-881 IN denotes that
T11364 922-930 VBN denotes included
T11365 882-885 DT denotes the
T11366 891-895 NN denotes site
T11367 886-890 NN denotes loxP
T11368 896-902 IN denotes within
T11369 903-909 NN denotes intron
T11370 910-912 CD denotes 18
T11371 913-916 VBD denotes had
T11372 917-921 VBN denotes been
T11373 931-937 IN denotes within
T11374 938-941 DT denotes the
T11375 955-961 NN denotes region
T11376 942-949 VBN denotes crossed
T11377 949-950 HYPH denotes -
T11378 950-954 RP denotes over
T11379 962-963 -LRB- denotes (
T11380 970-972 NN denotes 2A
T11381 963-969 NN denotes Figure
T11382 973-976 CC denotes and
T11383 977-979 NN denotes 2C
T11384 979-980 -RRB- denotes )
T11385 980-981 . denotes .
T11386 981-1025 sentence denotes Sequences of primers are shown in Table S1.
T11387 982-991 NNS denotes Sequences
T11388 1007-1012 VBN denotes shown
T11389 992-994 IN denotes of
T11390 995-1002 NNS denotes primers
T11391 1003-1006 VBP denotes are
T11392 1013-1015 IN denotes in
T11393 1016-1021 NN denotes Table
T11394 1022-1024 NN denotes S1
T11395 1024-1025 . denotes .
R6941 T11190 T11189 prep of,Generation
R6942 T11191 T11192 compound ES,cells
R6943 T11192 T11190 pobj cells,of
R6944 T11193 T11192 acl bearing,cells
R6945 T11194 T11195 det the,allele
R6946 T11195 T11193 dobj allele,bearing
R6947 T11196 T11195 compound Atrx flox,allele
R6948 T11197 T11189 punct .,Generation
R6949 T11199 T11200 advmod Briefly,places
R6950 T11201 T11200 punct ", ",places
R6951 T11202 T11203 det the,vector
R6952 T11203 T11200 nsubj vector,places
R6953 T11204 T11203 compound targeting,vector
R6954 T11205 T11203 punct (,vector
R6955 T11206 T11203 acl shown,vector
R6956 T11207 T11206 prep in,shown
R6957 T11208 T11209 compound Figure,2A
R6958 T11209 T11207 pobj 2A,in
R6959 T11210 T11200 punct ),places
R6960 T11211 T11212 det a,site
R6961 T11212 T11200 dobj site,places
R6962 T11213 T11212 compound loxP,site
R6963 T11214 T11200 prep within,places
R6964 T11215 T11214 pobj intron,within
R6965 T11216 T11215 nummod 18,intron
R6966 T11217 T11200 cc and,places
R6967 T11218 T11219 det a,cassette
R6968 T11219 T11200 conj cassette,places
R6969 T11220 T11221 npadvmod loxP,flanked
R6970 T11221 T11219 amod flanked,cassette
R6971 T11222 T11221 punct -,flanked
R6972 T11223 T11224 compound MC1neopA,selection
R6973 T11224 T11219 compound selection,cassette
R6974 T11225 T11219 prep in,cassette
R6975 T11226 T11225 pobj intron,in
R6976 T11227 T11226 nummod 17,intron
R6977 T11228 T11226 prep of,intron
R6978 T11229 T11230 det the,gene
R6979 T11230 T11228 pobj gene,of
R6980 T11231 T11230 compound Atrx,gene
R6981 T11232 T11200 punct .,places
R6982 T11234 T11235 det A,description
R6983 T11235 T11237 nsubjpass description,provided
R6984 T11236 T11235 amod detailed,description
R6985 T11238 T11235 prep of,description
R6986 T11239 T11240 det the,construct
R6987 T11240 T11238 pobj construct,of
R6988 T11241 T11240 compound targeting,construct
R6989 T11242 T11237 auxpass is,provided
R6990 T11243 T11237 prep in,provided
R6991 T11244 T11243 punct [,in
R6992 T11245 T11243 pobj 20,in
R6993 T11246 T11237 punct ],provided
R6994 T11247 T11237 punct .,provided
R6995 T11249 T11250 amod Linearised,plasmid
R6996 T11250 T11251 nsubjpass plasmid,electroporated
R6997 T11252 T11253 punct (,μg
R6998 T11253 T11250 parataxis μg,plasmid
R6999 T11254 T11253 nummod 150,μg
R7000 T11255 T11253 punct ),μg
R7001 T11256 T11251 auxpass was,electroporated
R7002 T11257 T11251 prep into,electroporated
R7003 T11258 T11259 quantmod 1,108
R7004 T11259 T11261 nummod 108,cells
R7005 T11260 T11259 punct ×,108
R7006 T11261 T11257 pobj cells,into
R7007 T11262 T11261 compound E14Tg2a,cells
R7008 T11263 T11261 compound ES,cells
R7009 T11264 T11251 punct ", ",electroporated
R7010 T11265 T11251 cc and,electroporated
R7011 T11266 T11267 nsubjpass colonies,isolated
R7012 T11267 T11251 conj isolated,electroporated
R7013 T11268 T11266 amod resistant,colonies
R7014 T11269 T11268 prep to,resistant
R7015 T11270 T11269 pobj G418,to
R7016 T11271 T11270 cc and,G418
R7017 T11272 T11270 conj ganciclovir,G418
R7018 T11273 T11267 auxpass were,isolated
R7019 T11274 T11267 punct .,isolated
R7020 T11276 T11277 amod Homologous,events
R7021 T11277 T11279 nsubjpass events,identified
R7022 T11278 T11277 compound targeting,events
R7023 T11280 T11279 auxpass were,identified
R7024 T11281 T11279 prep by,identified
R7025 T11282 T11283 compound Southern,blot
R7026 T11283 T11281 pobj blot,by
R7027 T11284 T11283 prep of,blot
R7028 T11285 T11286 npadvmod EcoRI,digested
R7029 T11286 T11288 amod digested,DNA
R7030 T11287 T11286 punct -,digested
R7031 T11288 T11284 pobj DNA,of
R7032 T11289 T11283 cc and,blot
R7033 T11290 T11283 conj hybridisation,blot
R7034 T11291 T11290 prep with,hybridisation
R7035 T11292 T11293 det a,probe
R7036 T11293 T11291 pobj probe,with
R7037 T11294 T11293 nummod 5,probe
R7038 T11295 T11294 punct ′,5
R7039 T11296 T11293 punct (,probe
R7040 T11297 T11293 acl generated,probe
R7041 T11298 T11297 prep with,generated
R7042 T11299 T11300 compound primers,PPS1.20
R7043 T11300 T11298 pobj PPS1.20,with
R7044 T11301 T11300 cc and,PPS1.20
R7045 T11302 T11300 conj PPS1.27,PPS1.20
R7046 T11303 T11293 punct ),probe
R7047 T11304 T11293 cc and,probe
R7048 T11305 T11306 det a,probe
R7049 T11306 T11293 conj probe,probe
R7050 T11307 T11306 nummod 3,probe
R7051 T11308 T11307 punct ′,3
R7052 T11309 T11306 punct (,probe
R7053 T11310 T11311 det a,fragment
R7054 T11311 T11306 appos fragment,probe
R7055 T11312 T11313 nummod 0.9,kb
R7056 T11313 T11311 compound kb,fragment
R7057 T11314 T11313 punct -,kb
R7058 T11315 T11311 compound HaeIII,fragment
R7059 T11316 T11279 punct ),identified
R7060 T11317 T11318 mark as,shown
R7061 T11318 T11279 advcl shown,identified
R7062 T11319 T11318 prep in,shown
R7063 T11320 T11321 compound Figure,2A
R7064 T11321 T11319 pobj 2A,in
R7065 T11322 T11321 cc and,2A
R7066 T11323 T11321 conj 2B,2A
R7067 T11324 T11279 punct .,identified
R7068 T11326 T11327 nsubj DNA,digested
R7069 T11328 T11326 prep from,DNA
R7070 T11329 T11330 advmod correctly,targeted
R7071 T11330 T11331 amod targeted,clones
R7072 T11331 T11328 pobj clones,from
R7073 T11332 T11327 aux was,digested
R7074 T11333 T11327 advmod also,digested
R7075 T11334 T11327 prep with,digested
R7076 T11335 T11334 pobj SacI,with
R7077 T11336 T11327 cc and,digested
R7078 T11337 T11327 conj analysed,digested
R7079 T11338 T11337 prep by,analysed
R7080 T11339 T11340 compound Southern,blot
R7081 T11340 T11338 pobj blot,by
R7082 T11341 T11340 cc and,blot
R7083 T11342 T11340 conj hybridisation,blot
R7084 T11343 T11342 prep with,hybridisation
R7085 T11344 T11345 det a,probe
R7086 T11345 T11343 pobj probe,with
R7087 T11346 T11345 prep from,probe
R7088 T11347 T11346 prep within,from
R7089 T11348 T11347 pobj intron,within
R7090 T11349 T11348 nummod 17,intron
R7091 T11350 T11345 punct (,probe
R7092 T11351 T11352 det a,product
R7093 T11352 T11345 appos product,probe
R7094 T11353 T11352 compound PCR,product
R7095 T11354 T11352 acl generated,product
R7096 T11355 T11354 prep with,generated
R7097 T11356 T11357 compound primers,PPS1.15
R7098 T11357 T11355 pobj PPS1.15,with
R7099 T11358 T11357 cc and,PPS1.15
R7100 T11359 T11357 conj Xnp46,PPS1.15
R7101 T11360 T11327 punct ),digested
R7102 T11361 T11362 aux to,confirm
R7103 T11362 T11327 advcl confirm,digested
R7104 T11363 T11364 mark that,included
R7105 T11364 T11362 ccomp included,confirm
R7106 T11365 T11366 det the,site
R7107 T11366 T11364 nsubjpass site,included
R7108 T11367 T11366 compound loxP,site
R7109 T11368 T11366 prep within,site
R7110 T11369 T11368 pobj intron,within
R7111 T11370 T11369 nummod 18,intron
R7112 T11371 T11364 aux had,included
R7113 T11372 T11364 auxpass been,included
R7114 T11373 T11364 prep within,included
R7115 T11374 T11375 det the,region
R7116 T11375 T11373 pobj region,within
R7117 T11376 T11375 amod crossed,region
R7118 T11377 T11376 punct -,crossed
R7119 T11378 T11376 prt over,crossed
R7120 T11379 T11380 punct (,2A
R7121 T11380 T11327 parataxis 2A,digested
R7122 T11381 T11380 compound Figure,2A
R7123 T11382 T11380 cc and,2A
R7124 T11383 T11380 conj 2C,2A
R7125 T11384 T11380 punct ),2A
R7126 T11385 T11327 punct .,digested
R7127 T11387 T11388 nsubjpass Sequences,shown
R7128 T11389 T11387 prep of,Sequences
R7129 T11390 T11389 pobj primers,of
R7130 T11391 T11388 auxpass are,shown
R7131 T11392 T11388 prep in,shown
R7132 T11393 T11394 compound Table,S1
R7133 T11394 T11392 pobj S1,in
R7134 T11395 T11388 punct .,shown

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
T11149 0-13 _FRAGMENT denotes Generation of
T11150 17-22 GO:0048468 denotes cells
T11151 14-22 CL:0002322 denotes ES cells
T11152 17-22 CL_GO_EXT:cell denotes cells
T11153 35-39 PR_EXT:000004503 denotes Atrx
T11154 40-44 SO:0000359 denotes flox
T11155 45-51 SO_EXT:0001023 denotes allele
T11156 66-82 SO_EXT:0001644 denotes targeting vector
T11157 113-122 SO_EXT:0000346 denotes loxP site
T11158 130-136 SO_EXT:0000188 denotes intron
T11159 146-158 SO:0000359 denotes loxP-flanked
T11160 178-186 SO_EXT:0005853 denotes cassette
T11161 190-196 SO_EXT:0000188 denotes intron
T11162 207-211 PR_EXT:000004503 denotes Atrx
T11163 212-216 SO_EXT:0000704 denotes gene
T11164 258-267 SO_EXT:engineered_biological_sequence denotes construct
T11165 289-299 SO_EXT:sequence_linearization denotes Linearised
T11166 300-307 SO_EXT:0000155 denotes plasmid
T11167 357-365 CL:0002322 denotes ES cells
T11168 360-365 CL_GO_EXT:cell denotes cells
T11169 393-397 CHEBI:42768 denotes G418
T11170 402-413 CHEBI:465284 denotes ganciclovir
T11171 508-511 CHEBI_SO_EXT:DNA denotes DNA
T11172 516-529 GO:0097617 denotes hybridisation
T11173 540-545 CHEBI_SO_EXT:molecular_probe denotes probe
T11174 562-569 SO_EXT:0000112 denotes primers
T11175 600-605 CHEBI_SO_EXT:molecular_probe denotes probe
T11176 614-615 CHEBI_SO_EXT:base denotes b
T11177 663-666 CHEBI_SO_EXT:DNA denotes DNA
T11178 691-697 SO_EXT:sequence_cloned_entity denotes clones
T11179 760-773 GO:0097617 denotes hybridisation
T11180 781-786 CHEBI_SO_EXT:molecular_probe denotes probe
T11181 799-805 SO_EXT:0000188 denotes intron
T11182 812-823 SO_EXT:0000006 denotes PCR product
T11183 839-846 SO_EXT:0000112 denotes primers
T11184 886-895 SO_EXT:0000346 denotes loxP site
T11185 903-909 SO_EXT:0000188 denotes intron
T11186 942-954 GO:0035825 denotes crossed-over
T11187 982-991 SO_EXT:biological_sequence denotes Sequences
T11188 995-1002 SO_EXT:0000112 denotes primers
R6940 T11150 T11149 _lexicallyChainedTo cells,Generation of

2_test

Id Subject Object Predicate Lexical cue
16628246-15668733-85799784 284-286 15668733 denotes 20
T64563 284-286 15668733 denotes 20

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
T11121 0-13 _FRAGMENT denotes Generation of
T11122 17-22 GO:0048468 denotes cells
T11123 14-22 CL:0002322 denotes ES cells
T11124 35-39 PR:000004503 denotes Atrx
T11125 40-44 SO:0000359 denotes flox
T11126 45-51 SO:0001023 denotes allele
T11127 66-82 SO:0001644 denotes targeting vector
T11128 113-122 SO:0000346 denotes loxP site
T11129 130-136 SO:0000188 denotes intron
T11130 146-158 SO:0000359 denotes loxP-flanked
T11131 178-186 SO:0005853 denotes cassette
T11132 190-196 SO:0000188 denotes intron
T11133 207-211 PR:000004503 denotes Atrx
T11134 212-216 SO:0000704 denotes gene
T11135 300-307 SO:0000155 denotes plasmid
T11136 357-365 CL:0002322 denotes ES cells
T11137 393-397 CHEBI:42768 denotes G418
T11138 402-413 CHEBI:465284 denotes ganciclovir
T11139 516-529 GO:0097617 denotes hybridisation
T11140 562-569 SO:0000112 denotes primers
T11141 760-773 GO:0097617 denotes hybridisation
T11142 799-805 SO:0000188 denotes intron
T11143 812-823 SO:0000006 denotes PCR product
T11144 839-846 SO:0000112 denotes primers
T11145 886-895 SO:0000346 denotes loxP site
T11146 903-909 SO:0000188 denotes intron
T11147 942-954 GO:0035825 denotes crossed-over
T11148 995-1002 SO:0000112 denotes primers
R6939 T11122 T11121 _lexicallyChainedTo cells,Generation of