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PMC:2626671 / 2578-3048 JSONTXT

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pmc-enju-pas

Id Subject Object Predicate Lexical cue
T1736 1-9 NN denotes effector
T1737 10-18 NN denotes cytokine
T1738 19-22 CC denotes and
T1739 23-32 JJ denotes cytolytic
T1740 33-44 NN denotes genes. Runx
T1741 45-53 NN denotes proteins
T1742 53-54 -COMMA- denotes ,
T1743 55-56 DT denotes a
T1744 57-63 NN denotes family
T1745 64-66 IN denotes of
T1746 67-72 CD denotes three
T1747 73-84 JJ denotes DNA-binding
T1748 85-98 NN denotes transcription
T1749 99-106 NN denotes factors
T1750 106-107 -COMMA- denotes ,
T1751 108-115 NN denotes control
T1752 116-125 NN denotes thymocyte
T1753 126-141 NN denotes differentiation
T1754 142-145 CC denotes and
T1755 146-149 DT denotes the
T1756 150-157 NN denotes CD4/CD8
T1757 158-165 NN denotes lineage
T1758 166-174 NN denotes decision
T1759 175-176 -LRB- denotes (
T1760 176-181 CD denotes 10–13
T1761 181-182 -RRB- denotes )
T1762 184-189 NN denotes Runx3
T1763 190-193 CC denotes and
T1764 194-202 NN denotes perforin
T1765 203-207 NN denotes mRNA
T1766 208-211 VB denotes are
T1767 212-221 VB denotes expressed
T1768 222-224 IN denotes by
T1769 225-240 JJ denotes double-positive
T1770 241-242 -LRB- denotes (
T1771 242-244 NN denotes DP
T1772 244-245 -RRB- denotes )
T1773 246-256 NN denotes thymocytes
T1774 257-260 CC denotes and
T1775 261-281 JJ denotes CD8+ single-positive
T1776 282-283 -LRB- denotes (
T1777 283-285 NN denotes SP
T1778 285-286 -RRB- denotes )
T1779 287-297 NN denotes thymocytes
T1780 298-301 CC denotes but
T1781 302-305 RB denotes not
T1782 306-308 IN denotes in
T1783 309-316 NN denotes CD4+ SP
T1784 317-322 NN denotes cells
T1785 323-324 -LRB- denotes (
T1786 324-326 CD denotes 14
T1787 326-327 -RRB- denotes )
T1788 329-337 IN denotes Although
T1789 338-343 NN denotes Runx3
T1790 344-346 VB denotes is
T1791 347-350 RB denotes not
T1792 351-360 VB denotes expressed
T1793 361-363 IN denotes in
T1794 364-369 JJ denotes naive
T1795 370-376 NN denotes CD4+ T
T1796 377-382 NN denotes cells
T1797 382-383 -COMMA- denotes ,
T1798 384-387 PRP-DOLLAR- denotes its
T1799 388-398 NN denotes expression
T1800 399-401 VB denotes is
T1801 402-414 VB denotes up-regulated
T1802 415-421 IN denotes during
T1803 422-425 NN denotes Th1
T1804 426-430 NN denotes cell
T1805 431-446 NN denotes differentiation
T1806 446-447 -COMMA- denotes ,
T1807 448-451 CC denotes and
T1808 452-457 NN denotes Runx3
T1809 458-468 VB denotes influences
R1471 T1799 T1798 arg1Of expression,its
R1472 T1799 T1800 arg1Of expression,is
R1473 T1799 T1801 arg2Of expression,up-regulated
R1474 T1801 T1800 arg2Of up-regulated,is
R1475 T1801 T1802 arg1Of up-regulated,during
R1476 T1801 T1807 arg1Of up-regulated,and
R1477 T1737 T1736 arg1Of cytokine,effector
R1478 T1737 T1738 arg1Of cytokine,and
R1479 T1804 T1803 arg1Of cell,Th1
R1481 T1805 T1802 arg2Of differentiation,during
R1482 T1805 T1804 arg1Of differentiation,cell
R1483 T1738 T1742 arg1Of and,","
R1484 T1807 T1788 arg1Of and,Although
R1485 T1807 T1797 arg1Of and,","
R1486 T1807 T1806 arg1Of and,","
R1487 T1808 T1809 arg1Of Runx3,influences
R1488 T1738 T1750 arg1Of and,","
R1489 T1809 T1807 arg2Of influences,and
R1491 T1741 T1738 arg2Of proteins,and
R1497 T1741 T1739 arg1Of proteins,cytolytic
R1504 T1741 T1740 arg1Of proteins,"genes. Runx"
R1505 T1744 T1742 arg2Of family,","
R1509 T1744 T1743 arg1Of family,a
R1510 T1744 T1745 arg1Of family,of
R1511 T1749 T1745 arg2Of factors,of
R1527 T1749 T1746 arg1Of factors,three
R1529 T1749 T1747 arg1Of factors,DNA-binding
R1530 T1749 T1748 arg1Of factors,transcription
R1532 T1753 T1751 arg1Of differentiation,control
R1537 T1753 T1752 arg1Of differentiation,thymocyte
R1542 T1753 T1754 arg1Of differentiation,and
R1544 T1754 T1750 arg2Of and,","
R1547 T1758 T1754 arg2Of decision,and
R1553 T1758 T1755 arg1Of decision,the
R1554 T1758 T1756 arg1Of decision,CD4/CD8
R1555 T1758 T1757 arg1Of decision,lineage
R1560 T1758 T1759 arg1Of decision,(
R1563 T1760 T1759 arg2Of 10–13,(
R1566 T1761 T1759 arg3Of ),(
R1569 T1762 T1763 arg1Of Runx3,and
R1576 T1763 T1766 arg1Of and,are
R1580 T1763 T1767 arg2Of and,expressed
R1582 T1765 T1763 arg2Of mRNA,and
R1591 T1765 T1764 arg1Of mRNA,perforin
R1593 T1767 T1766 arg2Of expressed,are
R1596 T1767 T1768 arg1Of expressed,by
R1597 T1767 T1782 arg1Of expressed,in
R1607 T1768 T1780 arg1Of by,but
R1608 T1771 T1770 arg2Of DP,(
R1609 T1772 T1770 arg3Of ),(
R1612 T1773 T1769 arg1Of thymocytes,double-positive
R1617 T1773 T1770 arg1Of thymocytes,(
R1618 T1773 T1774 arg1Of thymocytes,and
R1623 T1774 T1768 arg2Of and,by
R1626 T1777 T1776 arg2Of SP,(
R1632 T1778 T1776 arg3Of ),(
R1637 T1779 T1774 arg2Of thymocytes,and
R1641 T1779 T1775 arg1Of thymocytes,CD8+ single-positive
R1643 T1779 T1776 arg1Of thymocytes,(
R1644 T1782 T1780 arg2Of in,but
R1653 T1782 T1781 arg1Of in,not
R1654 T1784 T1782 arg2Of cells,in
R1656 T1784 T1783 arg1Of cells,CD4+ SP
R1660 T1784 T1785 arg1Of cells,(
R1666 T1786 T1785 arg2Of 14,(
R1668 T1787 T1785 arg3Of ),(
R1673 T1789 T1790 arg1Of Runx3,is
R1679 T1789 T1792 arg2Of Runx3,expressed
R1681 T1792 T1788 arg2Of expressed,Although
R1688 T1792 T1790 arg2Of expressed,is
R1690 T1792 T1791 arg1Of expressed,not
R1691 T1792 T1793 arg1Of expressed,in
R1692 T1796 T1793 arg2Of cells,in
R1704 T1796 T1794 arg1Of cells,naive
R1705 T1796 T1795 arg1Of cells,CD4+ T

bionlp-st-ge-2016-coref

Id Subject Object Predicate Lexical cue
T1998 384-387 Anaphor denotes its
T1999 338-343 Antecedent denotes Runx3
R1730 T1998 T1999 boundBy its,Runx3

bionlp-st-ge-2016-spacy-parsed

Id Subject Object Predicate Lexical cue
T1126 1-9 NN denotes effector
T1127 10-18 NN denotes cytokine
T1128 19-22 CC denotes and
T1129 23-32 JJ denotes cytolytic
T1130 33-44 NNP denotes genes. Runx
T1131 45-53 NNS denotes proteins
T1132 53-54 , denotes ,
T1133 55-56 DT denotes a
T1134 57-63 NN denotes family
T1135 64-66 IN denotes of
T1136 67-72 CD denotes three
T1137 73-84 JJ denotes DNA-binding
T1138 85-98 NN denotes transcription
T1139 99-106 NNS denotes factors
T1140 106-107 , denotes ,
T1141 108-115 NN denotes control
T1142 116-125 NN denotes thymocyte
T1143 126-141 NN denotes differentiation
T1144 142-145 CC denotes and
T1145 146-149 DT denotes the
T1146 150-157 NNP denotes CD4/CD8
T1147 158-165 NN denotes lineage
T1148 166-174 NN denotes decision
T1149 175-176 -LRB- denotes (
T1150 176-178 CD denotes 10
T1151 179-181 CD denotes 13
T1152 181-182 -RRB- denotes )
T1153 182-183 . denotes .
T1154 184-189 JJ denotes Runx3
T1155 190-193 CC denotes and
T1156 194-202 JJ denotes perforin
T1157 203-207 NNP denotes mRNA
T1158 208-211 VBP denotes are
T1159 212-221 VBN denotes expressed
T1160 222-224 IN denotes by
T1161 225-240 JJ denotes double-positive
T1162 241-242 -LRB- denotes (
T1163 242-244 NNP denotes DP
T1164 244-245 -RRB- denotes )
T1165 246-256 NNS denotes thymocytes
T1166 257-260 CC denotes and
T1167 261-264 CD denotes CD8
T1168 264-265 CD denotes +
T1169 266-281 JJ denotes single-positive
T1170 282-283 -LRB- denotes (
T1171 283-285 NNP denotes SP
T1172 285-286 -RRB- denotes )
T1173 287-297 NNS denotes thymocytes
T1174 298-301 CC denotes but
T1175 302-305 RB denotes not
T1176 306-308 IN denotes in
T1177 309-312 CD denotes CD4
T1178 312-313 CD denotes +
T1179 314-316 NNP denotes SP
T1180 317-322 NNS denotes cells
T1181 323-324 -LRB- denotes (
T1182 324-326 CD denotes 14
T1183 326-327 -RRB- denotes )
T1184 327-328 . denotes .
T1185 329-337 IN denotes Although
T1186 338-343 NNP denotes Runx3
T1187 344-346 VBZ denotes is
T1188 347-350 RB denotes not
T1189 351-360 VBN denotes expressed
T1190 361-363 IN denotes in
T1191 364-369 JJ denotes naive
T1192 370-373 NNP denotes CD4
T1193 373-374 CD denotes +
T1194 375-376 NNP denotes T
T1195 377-382 NNS denotes cells
T1196 382-383 , denotes ,
T1197 384-387 PRP$ denotes its
T1198 388-398 NN denotes expression
T1199 399-401 VBZ denotes is
T1200 402-414 JJ denotes up-regulated
T1201 415-421 IN denotes during
T1202 422-425 NNP denotes Th1
T1203 426-430 NN denotes cell
T1204 431-446 NN denotes differentiation
T1205 446-447 , denotes ,
T1206 448-451 CC denotes and
T1207 452-457 JJ denotes Runx3
T1208 458-468 NNS denotes influences
R892 T1126 T1127 compound effector,cytokine
R894 T1128 T1127 cc and,cytokine
R895 T1129 T1131 amod cytolytic,proteins
R896 T1130 T1131 compound "genes. Runx",proteins
R897 T1131 T1127 conj proteins,cytokine
R898 T1132 T1131 punct ",",proteins
R899 T1133 T1134 det a,family
R900 T1134 T1131 conj family,proteins
R901 T1135 T1134 prep of,family
R902 T1136 T1139 nummod three,factors
R903 T1137 T1139 amod DNA-binding,factors
R904 T1138 T1139 compound transcription,factors
R905 T1139 T1135 pobj factors,of
R906 T1140 T1139 punct ",",factors
R907 T1141 T1143 compound control,differentiation
R908 T1142 T1143 compound thymocyte,differentiation
R909 T1143 T1139 appos differentiation,factors
R910 T1144 T1143 cc and,differentiation
R911 T1145 T1148 det the,decision
R912 T1146 T1148 compound CD4/CD8,decision
R913 T1147 T1148 compound lineage,decision
R914 T1148 T1143 conj decision,differentiation
R915 T1149 T1151 punct (,13
R916 T1150 T1151 nummod 10,13
R917 T1151 T1148 appos 13,decision
R918 T1152 T1139 punct ),factors
R920 T1154 T1159 nsubjpass Runx3,expressed
R921 T1155 T1154 cc and,Runx3
R922 T1156 T1157 compound perforin,mRNA
R923 T1157 T1154 conj mRNA,Runx3
R924 T1158 T1159 auxpass are,expressed
R925 T1159 T1159 ROOT expressed,expressed
R926 T1160 T1159 agent by,expressed
R927 T1161 T1160 pobj double-positive,by
R928 T1162 T1163 punct (,DP
R929 T1163 T1161 appos DP,double-positive
R930 T1164 T1163 punct ),DP
R931 T1165 T1161 conj thymocytes,double-positive
R932 T1166 T1165 cc and,thymocytes
R933 T1167 T1169 nummod CD8,single-positive
R934 T1168 T1169 nummod +,single-positive
R935 T1169 T1165 conj single-positive,thymocytes
R936 T1170 T1169 punct (,single-positive
R937 T1171 T1169 appos SP,single-positive
R938 T1172 T1169 punct ),single-positive
R939 T1173 T1165 conj thymocytes,thymocytes
R940 T1174 T1173 cc but,thymocytes
R941 T1175 T1176 neg not,in
R942 T1176 T1161 prep in,double-positive
R943 T1177 T1180 nummod CD4,cells
R944 T1178 T1180 nummod +,cells
R945 T1179 T1180 compound SP,cells
R946 T1180 T1176 pobj cells,in
R947 T1181 T1182 punct (,14
R948 T1182 T1159 npadvmod 14,expressed
R949 T1183 T1182 punct ),14
R950 T1184 T1159 punct .,expressed
R951 T1185 T1189 mark Although,expressed
R952 T1186 T1189 nsubjpass Runx3,expressed
R953 T1187 T1189 auxpass is,expressed
R954 T1188 T1189 neg not,expressed
R955 T1189 T1199 advcl expressed,is
R956 T1190 T1189 prep in,expressed
R957 T1191 T1195 amod naive,cells
R958 T1192 T1195 compound CD4,cells
R959 T1193 T1195 nummod +,cells
R960 T1194 T1195 compound T,cells
R961 T1195 T1190 pobj cells,in
R962 T1196 T1199 punct ",",is
R963 T1197 T1198 poss its,expression
R964 T1198 T1199 nsubj expression,is
R965 T1199 T1199 ROOT is,is
R966 T1200 T1199 acomp up-regulated,is
R967 T1201 T1199 prep during,is
R968 T1202 T1204 compound Th1,differentiation
R969 T1203 T1204 compound cell,differentiation
R970 T1204 T1201 pobj differentiation,during
R971 T1205 T1204 punct ",",differentiation
R972 T1206 T1204 cc and,differentiation
R973 T1207 T1208 amod Runx3,influences

GO-BP

Id Subject Object Predicate Lexical cue
T825 116-141 http://purl.obolibrary.org/obo/GO_0033077 denotes thymocyte differentiation
T866 426-446 http://purl.obolibrary.org/obo/GO_0030154 denotes cell differentiation
T874 85-98 http://purl.obolibrary.org/obo/GO_0006351 denotes transcription

GO-MF

Id Subject Object Predicate Lexical cue
T2073 73-84 http://purl.obolibrary.org/obo/GO_0003677 denotes DNA-binding
T2074 77-84 http://purl.obolibrary.org/obo/GO_0005488 denotes binding
T2075 77-106 http://purl.obolibrary.org/obo/GO_0008134 denotes binding transcription factors
T2076 77-106 http://purl.obolibrary.org/obo/GO_0033613 denotes binding transcription factors
T2077 77-106 http://purl.obolibrary.org/obo/GO_0043425 denotes binding transcription factors
T2078 77-106 http://purl.obolibrary.org/obo/GO_0070491 denotes binding transcription factors

GO-CC

Id Subject Object Predicate Lexical cue
T2083 317-322 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T2084 377-382 http://purl.obolibrary.org/obo/GO_0005623 denotes cells

sentences

Id Subject Object Predicate Lexical cue
T834 184-328 Sentence denotes Runx3 and perforin mRNA are expressed by double-positive (DP) thymocytes and CD8+ single-positive (SP) thymocytes but not in CD4+ SP cells (14).
T16 40-183 Sentence denotes Runx proteins, a family of three DNA-binding transcription factors, control thymocyte differentiation and the CD4/CD8 lineage decision (10–13).
T17 184-328 Sentence denotes Runx3 and perforin mRNA are expressed by double-positive (DP) thymocytes and CD8+ single-positive (SP) thymocytes but not in CD4+ SP cells (14).

events-check-again

Id Subject Object Predicate Lexical cue Negation
T2583 150-153 Protein denotes CD4
T2584 154-157 Protein denotes CD8
T2585 184-189 Protein denotes Runx3
T2586 194-202 Protein denotes perforin
T2587 212-221 Transcription denotes expressed true
T2588 212-221 Transcription denotes expressed true
T2589 261-264 Protein denotes CD8
T2590 309-312 Protein denotes CD4
T2591 338-343 Protein denotes Runx3
T2592 351-360 Gene_expression denotes expressed true
T2593 370-373 Protein denotes CD4
T2594 388-398 Gene_expression denotes expression
T2595 402-414 Positive_regulation denotes up-regulated
T2596 452-457 Protein denotes Runx3
R2018 T2585 T2588 themeOf Runx3,expressed
R2019 T2586 T2587 themeOf perforin,expressed
R2021 T2591 T2592 themeOf Runx3,expressed
R2022 T2591 T2594 themeOf Runx3,expression
R2025 T2594 T2595 themeOf expression,up-regulated

bionlp-st-ge-2016-reference

Id Subject Object Predicate Lexical cue Negation
T1444 212-221 Transcription denotes expressed true
T1454 150-153 Protein denotes CD4
T1456 154-157 Protein denotes CD8
T1457 184-189 Protein denotes Runx3
T1458 194-202 Protein denotes perforin
T1459 261-264 Protein denotes CD8
T1460 309-312 Protein denotes CD4
T1461 338-343 Protein denotes Runx3
T1462 370-373 Protein denotes CD4
T1463 452-457 Protein denotes Runx3
T1404 212-221 Transcription denotes expressed true
T1405 351-360 Gene_expression denotes expressed true
T1406 388-398 Gene_expression denotes expression
T1407 402-414 Positive_regulation denotes up-regulated
R1169 T1406 T1407 themeOf expression,up-regulated
R1188 T1457 T1444 themeOf Runx3,expressed
R1189 T1458 T1404 themeOf perforin,expressed
R1190 T1461 T1405 themeOf Runx3,expressed
R1191 T1461 T1406 themeOf Runx3,expression

bionlp-st-ge-2016-uniprot

Id Subject Object Predicate Lexical cue
T2017 40-44 Q01196 denotes Runx
T2018 40-44 Q13761 denotes Runx
T2019 40-44 Q13950 denotes Runx
T2020 150-153 P01730 denotes CD4
T2021 154-157 P10966 denotes CD8
T2022 154-157 P01732 denotes CD8
T2023 184-189 Q13761 denotes Runx3
T2024 194-202 P14222 denotes perforin
T2025 261-264 P10966 denotes CD8
T2026 261-264 P01732 denotes CD8
T2027 309-312 P01730 denotes CD4
T2028 338-343 Q13761 denotes Runx3
T2029 370-373 P01730 denotes CD4
T2030 452-457 Q13761 denotes Runx3

test2

Id Subject Object Predicate Lexical cue Negation
T765 150-153 Protein denotes CD4
T766 154-157 Protein denotes CD8
T767 184-189 Protein denotes Runx3
T768 194-202 Protein denotes perforin
T769 212-221 Gene_expression denotes expressed
T770 261-264 Protein denotes CD8 true
T771 309-312 Protein denotes CD4
T772 338-343 Protein denotes Runx3
T773 351-360 Gene_expression denotes expressed
T774 370-373 Protein denotes CD4
T775 388-398 Gene_expression denotes expression
T776 402-414 Positive_regulation denotes up-regulated
T777 452-457 Protein denotes Runx3
R602 T767 T769 themeOf Runx3,expressed
R603 T768 T769 themeOf perforin,expressed
R604 T772 T773 themeOf Runx3,expressed
R605 T772 T775 themeOf Runx3,expression
R606 T773 T776 themeOf expressed,up-regulated
R607 T775 T776 themeOf expression,up-regulated
R608 T777 T776 causeOf Runx3,up-regulated