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PMC:1892049 / 12021-13155 JSONTXT

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craft-ca-core-ex-dev

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

Id Subject Object Predicate Lexical cue
T6187 30-44,65-73 SO_EXT:0001415 denotes breakpoints of deletion
T6188 182-189 SO_EXT:sequence_deletion_process denotes deleted
T6189 211-220 SO_EXT:biological_sequence denotes sequences
T6190 269-270 CHEBI_SO_EXT:base denotes b
T6191 278-287 GO_SO_EXT:telomere_or_telomeric_region_or_telomeric_orientation denotes telomeric
T6192 301-302 CHEBI_SO_EXT:base denotes b
T6193 310-321 GO_SO_EXT:centromere_or_centromeric_region_or_centromeric_orientation denotes centromeric
T6194 365-392 SO_EXT:0000121 denotes forward orientation primers
T6195 427-436 GO_SO_EXT:telomere_or_telomeric_region_or_telomeric_orientation denotes telomeric
T6196 453-480 SO_EXT:0000132 denotes reverse orientation primers
T6197 515-526 GO_SO_EXT:centromere_or_centromeric_region_or_centromeric_orientation denotes centromeric
T6198 586-594 SO_EXT:sequence_deletion_entity_or_process denotes deletion
T6199 633-640 SO_EXT:0000112 denotes primers
T6200 686-687 CHEBI_SO_EXT:base denotes b
T6201 734-736 SO_EXT:0000028 denotes bp
T6202 751-754 CHEBI_SO_EXT:DNA denotes DNA
T6203 854-862 SO_EXT:sequence_deletion_entity_or_process denotes deletion
T6204 874-876 SO_EXT:0000028 denotes bp
T6205 927-932 SO_EXT:0000147 denotes exons
T6206 936-941 PR_EXT:000015827 denotes SUMF1
T6207 970-975 SO_EXT:0000147 denotes exons
T6208 979-984 PR_EXT:000009158 denotes ITPR1
T6209 1016-1024 SO_EXT:sequence_deletion_entity_or_process denotes deletion
T6210 1103-1117 UBERON:0001016 denotes neurologically

craft-ca-core-dev

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

Id Subject Object Predicate Lexical cue
T5916 30-44,65-73 SO:0001415 denotes breakpoints of deletion
T5917 365-392 SO:0000121 denotes forward orientation primers
T5918 453-480 SO:0000132 denotes reverse orientation primers
T5919 633-640 SO:0000112 denotes primers
T5920 734-736 SO:0000028 denotes bp
T5921 874-876 SO:0000028 denotes bp
T5922 927-932 SO:0000147 denotes exons
T5923 936-941 PR:000015827 denotes SUMF1
T5924 970-975 SO:0000147 denotes exons
T5925 979-984 PR:000009158 denotes ITPR1
T5926 1103-1117 UBERON:0001016 denotes neurologically

craft-sa-dev

Id Subject Object Predicate Lexical cue
T7414 0-2 IN denotes In
T7415 77-86 VBD denotes performed
T7416 3-5 DT denotes an
T7417 6-13 NN denotes attempt
T7418 14-16 TO denotes to
T7419 22-25 VB denotes map
T7420 17-21 RB denotes fine
T7421 21-22 HYPH denotes -
T7422 26-29 DT denotes the
T7423 30-41 NNS denotes breakpoints
T7424 42-44 IN denotes of
T7425 45-48 DT denotes the
T7426 65-73 NN denotes deletion
T7427 49-56 NN denotes disease
T7428 57-64 VBG denotes causing
T7429 56-57 HYPH denotes -
T7430 74-76 PRP denotes we
T7431 87-88 DT denotes a
T7432 89-95 NN denotes series
T7433 96-98 IN denotes of
T7434 99-110 NNS denotes experiments
T7435 111-119 VBN denotes designed
T7436 120-122 TO denotes to
T7437 123-129 VB denotes refine
T7438 130-133 DT denotes the
T7439 142-151 NNS denotes intervals
T7440 134-141 JJ denotes unknown
T7441 152-154 IN denotes at
T7442 155-158 DT denotes the
T7443 159-164 NNS denotes edges
T7444 165-172 IN denotes between
T7445 173-181 JJ denotes definite
T7446 182-189 VBN denotes deleted
T7447 211-220 NNS denotes sequences
T7448 190-193 CC denotes and
T7449 194-202 JJ denotes definite
T7450 203-210 JJ denotes diploid
T7451 220-221 . denotes .
T7452 221-327 sentence denotes These data narrowed the unknown borders to ~4 kb on the telomeric side and ~7 kb on the centromeric side.
T7453 222-227 DT denotes These
T7454 228-232 NNS denotes data
T7455 233-241 VBD denotes narrowed
T7456 242-245 DT denotes the
T7457 254-261 NNS denotes borders
T7458 246-253 JJ denotes unknown
T7459 262-264 IN denotes to
T7460 265-266 SYM denotes ~
T7461 266-267 CD denotes 4
T7462 268-270 NN denotes kb
T7463 271-273 IN denotes on
T7464 274-277 DT denotes the
T7465 288-292 NN denotes side
T7466 278-287 JJ denotes telomeric
T7467 293-296 CC denotes and
T7468 297-298 SYM denotes ~
T7469 298-299 CD denotes 7
T7470 300-302 NN denotes kb
T7471 303-305 IN denotes on
T7472 306-309 DT denotes the
T7473 322-326 NN denotes side
T7474 310-321 JJ denotes centromeric
T7475 326-327 . denotes .
T7476 327-622 sentence denotes We used all possible combinations of forward orientation primers designed within the newly defined telomeric boundary and of reverse orientation primers designed within the newly defined centromeric boundary in PCR assays in an attempt to amplify across the deletion in affected family members.
T7477 328-330 PRP denotes We
T7478 331-335 VBD denotes used
T7479 336-339 DT denotes all
T7480 349-361 NNS denotes combinations
T7481 340-348 JJ denotes possible
T7482 362-364 IN denotes of
T7483 365-372 JJ denotes forward
T7484 373-384 NN denotes orientation
T7485 385-392 NNS denotes primers
T7486 393-401 VBN denotes designed
T7487 402-408 IN denotes within
T7488 409-412 DT denotes the
T7489 437-445 NN denotes boundary
T7490 413-418 RB denotes newly
T7491 419-426 VBN denotes defined
T7492 427-436 JJ denotes telomeric
T7493 446-449 CC denotes and
T7494 450-452 IN denotes of
T7495 453-460 JJ denotes reverse
T7496 461-472 NN denotes orientation
T7497 473-480 NNS denotes primers
T7498 481-489 VBN denotes designed
T7499 490-496 IN denotes within
T7500 497-500 DT denotes the
T7501 527-535 NN denotes boundary
T7502 501-506 RB denotes newly
T7503 507-514 VBN denotes defined
T7504 515-526 JJ denotes centromeric
T7505 536-538 IN denotes in
T7506 539-542 NN denotes PCR
T7507 543-549 NNS denotes assays
T7508 550-552 IN denotes in
T7509 553-555 DT denotes an
T7510 556-563 NN denotes attempt
T7511 564-566 TO denotes to
T7512 567-574 VB denotes amplify
T7513 575-581 IN denotes across
T7514 582-585 DT denotes the
T7515 586-594 NN denotes deletion
T7516 595-597 IN denotes in
T7517 598-606 VBN denotes affected
T7518 614-621 NNS denotes members
T7519 607-613 NN denotes family
T7520 621-622 . denotes .
T7521 622-814 sentence denotes Using PCR primers T3F and C11R, which should be more than 200 kb apart, we were able to amplify a fragment 953 bp in size using DNA from each of the three affected family members as template.
T7522 623-628 VBG denotes Using
T7523 698-702 VBD denotes were
T7524 629-632 NN denotes PCR
T7525 633-640 NNS denotes primers
T7526 641-644 NN denotes T3F
T7527 645-648 CC denotes and
T7528 649-653 NN denotes C11R
T7529 653-655 , denotes ,
T7530 655-660 WDT denotes which
T7531 668-670 VB denotes be
T7532 661-667 MD denotes should
T7533 671-675 JJR denotes more
T7534 681-684 CD denotes 200
T7535 676-680 IN denotes than
T7536 685-687 NN denotes kb
T7537 688-693 RB denotes apart
T7538 693-695 , denotes ,
T7539 695-697 PRP denotes we
T7540 703-707 JJ denotes able
T7541 708-710 TO denotes to
T7542 711-718 VB denotes amplify
T7543 719-720 DT denotes a
T7544 721-729 NN denotes fragment
T7545 730-733 CD denotes 953
T7546 734-736 NN denotes bp
T7547 737-739 IN denotes in
T7548 740-744 NN denotes size
T7549 745-750 VBG denotes using
T7550 751-754 NN denotes DNA
T7551 755-759 IN denotes from
T7552 760-764 DT denotes each
T7553 765-767 IN denotes of
T7554 768-771 DT denotes the
T7555 794-801 NNS denotes members
T7556 772-777 CD denotes three
T7557 778-786 VBN denotes affected
T7558 787-793 NN denotes family
T7559 802-804 IN denotes as
T7560 805-813 NN denotes template
T7561 813-814 . denotes .
T7562 814-985 sentence denotes Sequencing of this fragment revealed a deletion of 201,509 bp (Figure S3), removing the first three of the nine exons of SUMF1 and the first ten of the 58 exons of ITPR1.
T7563 815-825 NN denotes Sequencing
T7564 843-851 VBD denotes revealed
T7565 826-828 IN denotes of
T7566 829-833 DT denotes this
T7567 834-842 NN denotes fragment
T7568 852-853 DT denotes a
T7569 854-862 NN denotes deletion
T7570 863-865 IN denotes of
T7571 866-873 CD denotes 201,509
T7572 874-876 NN denotes bp
T7573 877-878 -LRB- denotes (
T7574 885-887 NN denotes S3
T7575 878-884 NN denotes Figure
T7576 887-888 -RRB- denotes )
T7577 888-890 , denotes ,
T7578 890-898 VBG denotes removing
T7579 899-902 DT denotes the
T7580 909-914 CD denotes three
T7581 903-908 JJ denotes first
T7582 915-917 IN denotes of
T7583 918-921 DT denotes the
T7584 927-932 NNS denotes exons
T7585 922-926 CD denotes nine
T7586 933-935 IN denotes of
T7587 936-941 NN denotes SUMF1
T7588 942-945 CC denotes and
T7589 946-949 DT denotes the
T7590 956-959 CD denotes ten
T7591 950-955 JJ denotes first
T7592 960-962 IN denotes of
T7593 963-966 DT denotes the
T7594 970-975 NNS denotes exons
T7595 967-969 CD denotes 58
T7596 976-978 IN denotes of
T7597 979-984 NN denotes ITPR1
T7598 984-985 . denotes .
T7599 985-1134 sentence denotes We were unable to amplify the deletion-specific fragment in the family member of unknown affection status, or in 275 neurologically normal controls.
T7600 986-988 PRP denotes We
T7601 989-993 VBD denotes were
T7602 994-1000 JJ denotes unable
T7603 1001-1003 TO denotes to
T7604 1004-1011 VB denotes amplify
T7605 1012-1015 DT denotes the
T7606 1034-1042 NN denotes fragment
T7607 1016-1024 NN denotes deletion
T7608 1025-1033 JJ denotes specific
T7609 1024-1025 HYPH denotes -
T7610 1043-1045 IN denotes in
T7611 1046-1049 DT denotes the
T7612 1057-1063 NN denotes member
T7613 1050-1056 NN denotes family
T7614 1064-1066 IN denotes of
T7615 1067-1074 JJ denotes unknown
T7616 1085-1091 NN denotes status
T7617 1075-1084 NN denotes affection
T7618 1091-1093 , denotes ,
T7619 1093-1095 CC denotes or
T7620 1096-1098 IN denotes in
T7621 1099-1102 CD denotes 275
T7622 1125-1133 NNS denotes controls
T7623 1103-1117 RB denotes neurologically
T7624 1118-1124 JJ denotes normal
T7625 1133-1134 . denotes .
R1372 T7414 T7415 prep In,performed
R1374 T7416 T7417 det an,attempt
R1375 T7417 T7414 pobj attempt,In
R1377 T7418 T7419 aux to,map
R1378 T7419 T7417 acl map,attempt
R1379 T7420 T7419 advmod fine,map
R1380 T7421 T7419 punct -,map
R1382 T7422 T7423 det the,breakpoints
R1383 T7423 T7419 dobj breakpoints,map
R1384 T7424 T7423 prep of,breakpoints
R1385 T7425 T7426 det the,deletion
R1388 T7426 T7424 pobj deletion,of
R1390 T7427 T7428 npadvmod disease,causing
R1391 T7428 T7426 amod causing,deletion
R1393 T7429 T7428 punct -,causing
R1394 T7430 T7415 nsubj we,performed
R1395 T7431 T7432 det a,series
R1397 T7432 T7415 dobj series,performed
R1398 T7433 T7432 prep of,series
R1400 T7434 T7433 pobj experiments,of
R1401 T7435 T7434 acl designed,experiments
R1402 T7436 T7437 aux to,refine
R1403 T7437 T7435 advcl refine,designed
R1405 T7438 T7439 det the,intervals
R1406 T7439 T7437 dobj intervals,refine
R1408 T7440 T7439 amod unknown,intervals
R1409 T7441 T7437 prep at,refine
R1410 T7442 T7443 det the,edges
R1413 T7443 T7441 pobj edges,at
R1414 T7444 T7443 prep between,edges
R1416 T7445 T7446 amod definite,deleted
R1417 T7446 T7447 amod deleted,sequences
R1419 T7447 T7444 pobj sequences,between
R1420 T7448 T7446 cc and,deleted
R1421 T7449 T7450 amod definite,diploid
R1423 T7450 T7446 conj diploid,deleted
R1424 T7451 T7415 punct .,performed
R1426 T7453 T7454 det These,data
R1428 T7454 T7455 nsubj data,narrowed
R1430 T7456 T7457 det the,borders
R1431 T7457 T7455 dobj borders,narrowed
R1432 T7458 T7457 amod unknown,borders
R1434 T7459 T7455 prep to,narrowed
R1435 T7460 T7461 punct ~,4
R1437 T7461 T7462 nummod 4,kb
R1438 T7462 T7459 pobj kb,to
R1439 T7463 T7462 prep on,kb
R1440 T7464 T7465 det the,side
R1441 T7465 T7463 pobj side,on
R1442 T7466 T7465 amod telomeric,side
R1444 T7467 T7462 cc and,kb
R1445 T7468 T7469 punct ~,7
R1446 T7469 T7470 nummod 7,kb
R1448 T7470 T7462 conj kb,kb
R1449 T7471 T7470 prep on,kb
R1450 T7472 T7473 det the,side
R1452 T7473 T7471 pobj side,on
R1453 T7474 T7473 amod centromeric,side
R1455 T7475 T7455 punct .,narrowed
R1456 T7477 T7478 nsubj We,used
R1458 T7479 T7480 det all,combinations
R1460 T7480 T7478 dobj combinations,used
R1461 T7481 T7480 amod possible,combinations
R1462 T7482 T7480 prep of,combinations
R1464 T7483 T7484 amod forward,orientation
R1465 T7484 T7485 compound orientation,primers
R1466 T7485 T7482 pobj primers,of
R1467 T7533 T7534 amod more,200
R1468 T7486 T7485 acl designed,primers
R1469 T7487 T7486 prep within,designed
R1470 T7488 T7489 det the,boundary
R1471 T7489 T7487 pobj boundary,within
R1472 T7534 T7536 nummod 200,kb
R1473 T7490 T7491 advmod newly,defined
R1474 T7491 T7489 amod defined,boundary
R1475 T7492 T7489 amod telomeric,boundary
R1476 T7493 T7482 cc and,of
R1477 T7535 T7534 quantmod than,200
R1478 T7494 T7482 conj of,of
R1479 T7495 T7496 amod reverse,orientation
R1480 T7496 T7497 compound orientation,primers
R1481 T7536 T7537 npadvmod kb,apart
R1482 T7497 T7494 pobj primers,of
R1483 T7498 T7497 acl designed,primers
R1484 T7537 T7531 advmod apart,be
R1485 T7499 T7498 prep within,designed
R1486 T7500 T7501 det the,boundary
R1487 T7501 T7499 pobj boundary,within
R1488 T7538 T7523 punct ", ",were
R1489 T7502 T7503 advmod newly,defined
R1490 T7503 T7501 amod defined,boundary
R1491 T7504 T7501 amod centromeric,boundary
R1492 T7505 T7478 prep in,used
R1493 T7506 T7507 compound PCR,assays
R1494 T7507 T7505 pobj assays,in
R1495 T7539 T7523 nsubj we,were
R1496 T7508 T7478 prep in,used
R1497 T7509 T7510 det an,attempt
R1498 T7510 T7508 pobj attempt,in
R1499 T7511 T7512 aux to,amplify
R1500 T7512 T7510 acl amplify,attempt
R1501 T7540 T7523 acomp able,were
R1502 T7513 T7512 prep across,amplify
R1503 T7514 T7515 det the,deletion
R1504 T7515 T7513 pobj deletion,across
R1505 T7541 T7542 aux to,amplify
R1506 T7516 T7515 prep in,deletion
R1507 T7517 T7518 amod affected,members
R1508 T7518 T7516 pobj members,in
R1509 T7542 T7540 xcomp amplify,able
R1510 T7519 T7518 compound family,members
R1511 T7520 T7478 punct .,used
R1512 T7543 T7544 det a,fragment
R1513 T7522 T7523 advcl Using,were
R1514 T7544 T7542 dobj fragment,amplify
R1515 T7524 T7525 compound PCR,primers
R1516 T7525 T7522 dobj primers,Using
R1517 T7526 T7525 appos T3F,primers
R1518 T7545 T7546 nummod 953,bp
R1519 T7527 T7526 cc and,T3F
R1520 T7528 T7526 conj C11R,T3F
R1521 T7546 T7544 npadvmod bp,fragment
R1522 T7529 T7525 punct ", ",primers
R1523 T7547 T7546 prep in,bp
R1524 T7530 T7531 dep which,be
R1525 T7531 T7525 relcl be,primers
R1526 T7548 T7547 pobj size,in
R1527 T7532 T7531 aux should,be
R1528 T7549 T7542 advcl using,amplify
R1529 T7550 T7549 dobj DNA,using
R1530 T7551 T7550 prep from,DNA
R1531 T7552 T7551 pobj each,from
R1535 T7553 T7552 prep of,each
R1539 T7554 T7555 det the,members
R1545 T7555 T7553 pobj members,of
R1549 T7556 T7555 nummod three,members
R1553 T7557 T7555 amod affected,members
R1557 T7558 T7555 compound family,members
R1560 T7559 T7549 prep as,using
R1564 T7560 T7559 pobj template,as
R1567 T7561 T7523 punct .,were
R1570 T7563 T7564 nsubj Sequencing,revealed
R1574 T7565 T7563 prep of,Sequencing
R1579 T7566 T7567 det this,fragment
R1582 T7567 T7565 pobj fragment,of
R1586 T7568 T7569 det a,deletion
R1590 T7569 T7564 dobj deletion,revealed
R1598 T7570 T7569 prep of,deletion
R1601 T7571 T7572 nummod "201,509",bp
R1604 T7572 T7570 pobj bp,of
R1607 T7573 T7574 punct (,S3
R1609 T7574 T7564 parataxis S3,revealed
R1611 T7575 T7574 compound Figure,S3
R1615 T7576 T7574 punct ),S3
R1618 T7577 T7564 punct ", ",revealed
R1619 T7578 T7564 advcl removing,revealed
R1622 T7579 T7580 det the,three
R1625 T7580 T7578 dobj three,removing
R1628 T7581 T7580 amod first,three
R1630 T7582 T7580 prep of,three
R1633 T7583 T7584 det the,exons
R1637 T7584 T7582 pobj exons,of
R1640 T7585 T7584 nummod nine,exons
R1644 T7586 T7584 prep of,exons
R1650 T7587 T7586 pobj SUMF1,of
R1653 T7588 T7580 cc and,three
R1657 T7589 T7590 det the,ten
R1661 T7590 T7580 conj ten,three
R1665 T7591 T7590 amod first,ten
R1667 T7592 T7590 prep of,ten
R1668 T7593 T7594 det the,exons
R1670 T7594 T7592 pobj exons,of
R1674 T7595 T7594 nummod 58,exons
R1677 T7596 T7594 prep of,exons
R1680 T7597 T7596 pobj ITPR1,of
R1684 T7598 T7564 punct .,revealed
R1688 T7600 T7601 nsubj We,were
R1692 T7602 T7601 acomp unable,were
R1697 T7603 T7604 aux to,amplify
R1704 T7604 T7602 xcomp amplify,unable
R1708 T7605 T7606 det the,fragment
R1712 T7606 T7604 dobj fragment,amplify
R1716 T7607 T7608 npadvmod deletion,specific
R1720 T7608 T7606 amod specific,fragment
R1723 T7609 T7608 punct -,specific
R1725 T7610 T7606 prep in,fragment
R1728 T7611 T7612 det the,member
R1732 T7612 T7610 pobj member,in
R1736 T7613 T7612 compound family,member
R1739 T7614 T7612 prep of,member
R1744 T7615 T7616 amod unknown,status
R1747 T7616 T7614 pobj status,of
R1753 T7617 T7616 compound affection,status
R1757 T7618 T7610 punct ", ",in
R1760 T7619 T7610 cc or,in
R1764 T7620 T7610 conj in,in
R1768 T7621 T7622 nummod 275,controls
R1772 T7622 T7620 pobj controls,in
R1776 T7623 T7624 advmod neurologically,normal
R1779 T7624 T7622 amod normal,controls
R1783 T7625 T7601 punct .,were