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PMC:3589482 / 2675-2909 JSONTXT

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bionlp-st-ge-2016-spacy-parsed

Id Subject Object Predicate Lexical cue
T2674 233-234 . denotes .
T2673 232-233 NNP denotes ]
T2672 231-232 CD denotes 9
T2671 230-231 NNP denotes [
T2670 228-229 : denotes ;
T2669 227-228 NNP denotes ]
T2668 226-227 CD denotes 7
T2667 225-226 NN denotes [
T2666 213-224 NN denotes plasminogen
T2665 210-212 IN denotes of
T2664 199-209 NN denotes activation
T2663 195-198 DT denotes the
T2662 187-194 IN denotes through
T2661 180-186 NN denotes matrix
T2660 166-179 JJ denotes extracellular
T2659 162-165 DT denotes the
T2658 159-161 IN denotes of
T2657 150-158 NN denotes turnover
T2656 146-149 CC denotes and
T2655 134-145 NN denotes degradation
T2654 130-133 DT denotes the
T2653 127-129 IN denotes in
T2652 118-126 VBN denotes involved
T2651 109-117 NN denotes protease
T2650 102-108 NN denotes serine
T2649 100-101 DT denotes a
T2648 98-99 , denotes ,
T2647 97-98 NNP denotes ]
T2646 96-97 CD denotes 8
T2645 95-96 NN denotes [
T2644 93-94 NNP denotes ]
T2643 92-93 CD denotes 6
T2642 91-92 NNP denotes [
T2641 90-91 -RRB- denotes )
T2640 87-90 NNP denotes uPA
T2639 86-87 -LRB- denotes (
T2638 76-85 NN denotes activator
T2637 64-75 NN denotes plasminogen
T2636 49-63 JJ denotes urokinase-type
T2635 46-48 IN denotes of
T2634 36-45 NN denotes inhibitor
T2633 33-35 DT denotes an
T2632 30-32 IN denotes as
T2631 19-29 VBN denotes identified
T2630 13-18 RB denotes first
T2629 9-12 VBD denotes was
T2628 0-8 CD denotes SerpinB2
R1752 T2636 T2637 amod urokinase-type,plasminogen
R1759 T2637 T2635 pobj plasminogen,of
R1762 T2638 T2634 conj activator,inhibitor
R1766 T2639 T2634 punct (,inhibitor
R1772 T2640 T2634 appos uPA,inhibitor
R1775 T2628 T2631 nsubjpass SerpinB2,identified
R1776 T2629 T2631 auxpass was,identified
R1777 T2641 T2631 punct ),identified
R1778 T2630 T2631 advmod first,identified
R1779 T2642 T2644 compound [,]
R1780 T2631 T2631 ROOT identified,identified
R1781 T2643 T2644 compound 6,]
R1782 T2632 T2631 prep as,identified
R1783 T2633 T2634 det an,inhibitor
R1784 T2634 T2632 pobj inhibitor,as
R1785 T2644 T2644 ROOT ],]
R1786 T2635 T2634 prep of,inhibitor
R1787 T2645 T2647 nmod [,]
R1788 T2646 T2647 nummod 8,]
R1789 T2647 T2647 ROOT ],]
R1790 T2648 T2647 punct ",",]
R1793 T2649 T2651 det a,protease
R1797 T2650 T2651 compound serine,protease
R1801 T2651 T2647 appos protease,]
R1805 T2652 T2651 amod involved,protease
R1812 T2653 T2652 prep in,involved
R1816 T2654 T2655 det the,degradation
R1820 T2655 T2653 pobj degradation,in
R1824 T2656 T2655 cc and,degradation
R1828 T2657 T2655 conj turnover,degradation
R1832 T2658 T2655 prep of,degradation
R1835 T2659 T2661 det the,matrix
R1839 T2660 T2661 amod extracellular,matrix
R1844 T2661 T2658 pobj matrix,of
R1847 T2662 T2652 prep through,involved
R1852 T2663 T2664 det the,activation
R1859 T2664 T2662 pobj activation,through
R1863 T2665 T2664 prep of,activation
R1864 T2666 T2665 pobj plasminogen,of
R1866 T2667 T2664 conj [,activation
R1869 T2668 T2667 nummod 7,[
R1872 T2669 T2667 conj ],[
R1876 T2670 T2647 punct ;,]
R1880 T2671 T2673 nmod [,]
R1883 T2672 T2673 nummod 9,]
R1887 T2673 T2647 appos ],]
R1891 T2674 T2644 punct .,]

2_test

Id Subject Object Predicate Lexical cue
23472114-3257578-87899166 92-93 3257578 denotes 6
23472114-1833420-87899167 226-227 1833420 denotes 7
23472114-7492756-87899168 231-232 7492756 denotes 9
T63054 92-93 3257578 denotes 6
T46167 226-227 1833420 denotes 7
T62789 231-232 7492756 denotes 9

pmc-enju-pas

Id Subject Object Predicate Lexical cue
T1603 216-217 -RRB- denotes s
T1602 215-216 CD denotes a
T1601 214-215 -LRB- denotes l
T1600 213-214 -COLON- denotes p
T1599 211-212 -RRB- denotes f
T1598 210-211 CD denotes o
T1597 208-209 -LRB- denotes n
T1596 197-208 NN denotes e activatio
T1595 195-197 IN denotes th
T1594 184-194 NN denotes ix through
T1593 181-184 DT denotes atr
T1592 174-181 IN denotes lular m
T1591 168-174 NN denotes tracel
T1590 155-168 JJ denotes ver of the ex
T1589 152-155 DT denotes rno
T1588 150-152 IN denotes tu
T1587 141-149 NN denotes tion and
T1586 138-141 CC denotes ada
T1585 127-138 NN denotes in the degr
T1584 124-127 DT denotes ed
T1583 122-124 IN denotes lv
T1582 114-122 VB denotes ase invo
T1581 106-114 NN denotes ne prote
T1580 100-106 NN denotes a seri
T1579 98-99 DT denotes ,
T1578 97-98 -COMMA- denotes ]
T1577 96-97 -RRB- denotes 8
T1576 95-96 CD denotes [
T1575 94-95 -LRB- denotes –
T1574 93-94 -RRB- denotes ]
T1573 92-93 CD denotes 6
T1572 91-92 -LRB- denotes [
T1571 90-91 -RRB- denotes )
T1570 87-90 NN denotes uPA
T1569 86-87 -LRB- denotes (
T1568 76-85 NN denotes activator
T1567 64-75 NN denotes plasminogen
T1566 49-63 JJ denotes urokinase-type
T1565 46-48 IN denotes of
T1564 36-45 NN denotes inhibitor
T1563 33-35 DT denotes an
T1562 30-32 IN denotes as
T1561 19-29 VB denotes identified
T1560 13-18 RB denotes first
T1559 9-12 VB denotes was
T1558 0-8 NN denotes SerpinB2
R958 T1558 T1559 arg1Of SerpinB2,was
R959 T1558 T1561 arg2Of SerpinB2,identified
R960 T1561 T1559 arg2Of identified,was
R961 T1561 T1560 arg1Of identified,first
R962 T1561 T1562 arg1Of identified,as
R963 T1561 T1597 arg1Of identified,n
R964 T1561 T1600 arg1Of identified,p
R965 T1561 T1601 arg1Of identified,l
R966 T1564 T1562 arg2Of inhibitor,as
R967 T1564 T1563 arg1Of inhibitor,an
R968 T1564 T1565 arg1Of inhibitor,of
R969 T1564 T1572 arg1Of inhibitor,[
R970 T1564 T1575 arg1Of inhibitor,–
R971 T1564 T1578 arg1Of inhibitor,]
R972 T1568 T1565 arg2Of activator,of
R973 T1568 T1566 arg1Of activator,urokinase-type
R974 T1568 T1567 arg1Of activator,plasminogen
R975 T1568 T1569 arg1Of activator,(
R976 T1570 T1569 arg2Of uPA,(
R977 T1571 T1569 arg3Of ),(
R978 T1573 T1572 arg2Of 6,[
R979 T1574 T1572 arg3Of ],[
R980 T1576 T1575 arg2Of [,–
R981 T1577 T1575 arg3Of 8,–
R982 T1581 T1578 arg2Of ne prote,]
R983 T1581 T1579 arg1Of ne prote,","
R984 T1581 T1580 arg1Of ne prote,a seri
R985 T1581 T1582 arg2Of ne prote,ase invo
R986 T1582 T1583 arg1Of ase invo,lv
R987 T1585 T1586 arg1Of in the degr,ada
R988 T1586 T1583 arg2Of ada,lv
R989 T1586 T1584 arg1Of ada,ed
R990 T1586 T1588 arg1Of ada,tu
R991 T1586 T1592 arg1Of ada,lular m
R992 T1587 T1586 arg2Of tion and,ada
R993 T1591 T1588 arg2Of tracel,tu
R994 T1591 T1589 arg1Of tracel,rno
R995 T1591 T1590 arg1Of tracel,ver of the ex
R996 T1594 T1592 arg2Of ix through,lular m
R997 T1594 T1593 arg1Of ix through,atr
R998 T1594 T1595 arg1Of ix through,th
R999 T1596 T1595 arg2Of e activatio,th
R1000 T1598 T1597 arg2Of o,n
R1001 T1599 T1597 arg3Of f,n
R1002 T1602 T1601 arg2Of a,l
R1003 T1603 T1601 arg3Of s,l

bionlp-st-ge-2016-coref

Id Subject Object Predicate Lexical cue
T1288 36-45 Antecedent denotes inhibitor

bionlp-st-ge-2016-test-proteins

Id Subject Object Predicate Lexical cue
T1303 213-224 Protein denotes plasminogen
T1302 87-90 Protein denotes uPA
T1301 49-85 Protein denotes urokinase-type plasminogen activator
T1300 0-8 Protein denotes SerpinB2

bionlp-st-ge-2016-uniprot

Id Subject Object Predicate Lexical cue
T2106 0-8 http://www.uniprot.org/uniprot/P05120 denotes SerpinB2
T2120 36-58 http://www.uniprot.org/uniprot/P05120 denotes inhibitor of urokinase

GO-BP

Id Subject Object Predicate Lexical cue
T1352 134-145 http://purl.obolibrary.org/obo/GO_0009056 denotes degradation
T1351 199-224 http://purl.obolibrary.org/obo/GO_0031639 denotes activation of plasminogen
T1350 64-85 http://purl.obolibrary.org/obo/GO_0031639 denotes plasminogen activator

GO-CC

Id Subject Object Predicate Lexical cue
T1394 166-186 http://purl.obolibrary.org/obo/GO_0031012 denotes extracellular matrix
T1393 166-179 http://purl.obolibrary.org/obo/GO_0005576 denotes extracellular

sentences

Id Subject Object Predicate Lexical cue
T1209 0-234 Sentence denotes SerpinB2 was first identified as an inhibitor of urokinase-type plasminogen activator (uPA)[6]–[8], a serine protease involved in the degradation and turnover of the extracellular matrix through the activation of plasminogen [7]; [9].
T19 0-234 Sentence denotes SerpinB2 was first identified as an inhibitor of urokinase-type plasminogen activator (uPA)[6]–[8], a serine protease involved in the degradation and turnover of the extracellular matrix through the activation of plasminogen [7]; [9].

simple1

Id Subject Object Predicate Lexical cue
T1401 213-224 Protein denotes plasminogen
T1400 87-90 Protein denotes uPA
T1399 49-85 Protein denotes urokinase-type plasminogen activator
T1398 0-8 Protein denotes SerpinB2

BioNLP16_DUT

Id Subject Object Predicate Lexical cue
T2082 36-45 Negative_regulation denotes inhibitor
T2081 199-209 Positive_regulation denotes activation
T2059 213-224 Protein denotes plasminogen
T2058 87-90 Protein denotes uPA
T2057 49-85 Protein denotes urokinase-type plasminogen activator
T2056 0-8 Protein denotes SerpinB2
R1447 T2056 T2082 themeOf SerpinB2,inhibitor
R1448 T2057 T2082 themeOf urokinase-type plasminogen activator,inhibitor
R1449 T2058 T2082 themeOf uPA,inhibitor
R1450 T2059 T2081 themeOf plasminogen,activation

BioNLP16_Messiy

Id Subject Object Predicate Lexical cue
T2218 213-224 Protein denotes plasminogen
T2217 87-90 Protein denotes uPA
T2216 49-85 Protein denotes urokinase-type plasminogen activator
T2215 0-8 Protein denotes SerpinB2
T2241 199-209 Positive_regulation denotes activation
T2240 36-45 Negative_regulation denotes inhibitor
R1506 T2216 T2240 themeOf urokinase-type plasminogen activator,inhibitor
R1507 T2217 T2240 themeOf uPA,inhibitor
R1509 T2218 T2241 themeOf plasminogen,activation

DLUT931

Id Subject Object Predicate Lexical cue
T2161 199-209 Positive_regulation denotes activation
T2160 134-145 Protein_catabolism denotes degradation
T2159 36-45 Negative_regulation denotes inhibitor
T2137 213-224 Protein denotes plasminogen
T2136 87-90 Protein denotes uPA
T2135 49-85 Protein denotes urokinase-type plasminogen activator
T2134 0-8 Protein denotes SerpinB2
R1475 T2135 T2159 themeOf urokinase-type plasminogen activator,inhibitor
R1476 T2136 T2160 themeOf uPA,degradation
R1477 T2136 T2159 themeOf uPA,inhibitor
R1478 T2137 T2161 themeOf plasminogen,activation

bionlp-st-ge-2016-test-ihmc

Id Subject Object Predicate Lexical cue
T2469 195-224 Positive_regulation denotes the activation of plasminogen
T2463 102-228 Protein denotes serine protease involved in the degradation and turnover of the extracellular matrix through the activation of plasminogen [7]
T2462 162-186 Entity denotes the extracellular matrix
T2458 102-108 Entity denotes serine
T2452 210-224 Protein denotes of plasminogen
T2438 87-90 Protein denotes uPA
T2417 36-94 Entity denotes inhibitor of urokinase-type plasminogen activator (uPA)[6]
T2416 0-8 Protein denotes SerpinB2
T2401 49-91 Protein denotes urokinase-type plasminogen activator (uPA)
R1646 T2452 T2469 themeOf of plasminogen,the activation of plasminogen

bionlp-st-ge-2016-test-tees

Id Subject Object Predicate Lexical cue
T2273 134-145 Protein_catabolism denotes degradation
T2272 134-145 Protein_catabolism denotes degradation
T2271 134-145 Protein_catabolism denotes degradation
T2270 36-45 Negative_regulation denotes inhibitor
T2269 36-45 Negative_regulation denotes inhibitor
T2268 36-45 Negative_regulation denotes inhibitor
T2267 102-117 Protein denotes serine protease
T2266 87-90 Protein denotes uPA
T2265 49-85 Protein denotes urokinase-type plasminogen activator
T2264 0-8 Protein denotes SerpinB2
R1546 T2265 T2271 themeOf urokinase-type plasminogen activator,degradation
R1548 T2266 T2269 themeOf uPA,inhibitor
R1549 T2266 T2272 themeOf uPA,degradation
R1550 T2267 T2270 themeOf serine protease,inhibitor
R1551 T2267 T2273 themeOf serine protease,degradation
R1545 T2265 T2268 themeOf urokinase-type plasminogen activator,inhibitor

testone

Id Subject Object Predicate Lexical cue
T1098 213-224 Protein denotes plasminogen
T1097 87-90 Protein denotes uPA
T1096 49-85 Protein denotes urokinase-type plasminogen activator
T1095 0-8 Protein denotes SerpinB2
R743 T1097 T1096 equivalentTo uPA,urokinase-type plasminogen activator

test3

Id Subject Object Predicate Lexical cue
T1165 213-224 Protein denotes plasminogen
T1164 87-90 Protein denotes uPA
T1163 49-85 Protein denotes urokinase-type plasminogen activator
T1162 0-8 Protein denotes SerpinB2
T1139 213-224 Protein denotes plasminogen
T1138 87-90 Protein denotes uPA
T1137 49-85 Protein denotes urokinase-type plasminogen activator
T1136 0-8 Protein denotes SerpinB2
R756 T1164 T1163 equivalentTo uPA,urokinase-type plasminogen activator