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PubMed:18182054 JSONTXT

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PubTator4TogoVar

Id Subject Object Predicate Lexical cue proteinmutation
18182054_0 21-27 ProteinMutation denotes G2019S rs34637584
18182054_1 711-717 ProteinMutation denotes G2019S rs34637584
18182054_2 882-888 ProteinMutation denotes G2019S rs34637584
18182054_3 1344-1350 ProteinMutation denotes G2019S rs34637584

c_corpus

Id Subject Object Predicate Lexical cue
T1 8-17 GO:0016236 denotes autophagy
T2 8-17 GO:0006914 denotes autophagy
T3 28-33 PR:Q5S006 denotes LRRK2
T4 28-33 PR:000003033 denotes LRRK2
T5 28-33 PR:Q5S007 denotes LRRK2
T6 45-52 GO:0043005 denotes neurite
T7 82-89 CVCL_0019 denotes SH-SY5Y
T10 207-214 6308 denotes leucine
T11 207-214 SO:0001437 denotes leucine
T9 207-214 CHEBI:15603 denotes leucine
T12 207-214 D007930 denotes leucine
T13 207-214 CHEBI:25017 denotes leucine
T14 207-214 D007930 denotes leucine
T15 220-226 SO:0001068 denotes repeat
T16 237-242 PR:Q5S006 denotes LRRK2
T17 237-242 PR:000003033 denotes LRRK2
T18 237-242 PR:Q5S007 denotes LRRK2
T19 267-285 C566739 denotes autosomal dominant
T24 313-332 D010300 denotes Parkinson's disease
T25 313-332 D010300 denotes Parkinson's disease
T28 349-363 GO:0016236 denotes macroautophagy
T29 378-388 GO:0009056 denotes catabolism
T34 441-460 D010300 denotes Parkinson's disease
T35 441-460 D010300 denotes Parkinson's disease
T38 489-502 D014212 denotes retinoic-acid
T39 489-502 D014212 denotes retinoic-acid
T40 489-502 CHEBI:15367 denotes retinoic-acid
T41 489-502 CHEBI:26536 denotes retinoic-acid
T43 518-525 CVCL_0019 denotes SH-SY5Y
T45 553-562 GO:0016236 denotes autophagy
T46 553-562 GO:0006914 denotes autophagy
T47 585-590 PR:Q5S006 denotes LRRK2
T48 585-590 PR:000003033 denotes LRRK2
T49 585-590 PR:Q5S007 denotes LRRK2
T50 602-609 GO:0043005 denotes neurite
T53 640-643 SO:0002045 denotes pre
T52 640-643 PR:Q8LLD0 denotes pre
T54 640-643 UBERON:0001782 denotes pre
T51 640-643 GO:0003904 denotes pre
T55 659-666 CVCL_0019 denotes SH-SY5Y
T57 678-683 PR:Q5S006 denotes LRRK2
T58 678-683 PR:000003033 denotes LRRK2
T59 678-683 PR:Q5S007 denotes LRRK2
T60 684-688 SO:0000756 denotes cDNA
T61 684-688 D018076 denotes cDNA
T62 718-726 SO:0000109 denotes mutation
T63 764-771 GO:0043005 denotes neurite
T64 830-839 SO:0000817 denotes wild type
T65 840-845 PR:Q5S006 denotes LRRK2
T66 840-845 PR:000003033 denotes LRRK2
T67 840-845 PR:Q5S007 denotes LRRK2
T68 872-880 SO:0000109 denotes mutation
T69 889-894 PR:Q5S006 denotes LRRK2
T70 889-894 PR:000003033 denotes LRRK2
T71 889-894 PR:Q5S007 denotes LRRK2
T72 1078-1087 GO:0016236 denotes autophagy
T73 1078-1087 GO:0006914 denotes autophagy
T74 1095-1120 P42212 denotes green fluorescent protein
T76 1113-1120 CHEBI:36080 denotes protein
T77 1113-1120 CHEBI:11122 denotes protein
T79 1113-1120 SO:0000104 denotes protein
T75 1113-1120 GO:0003675 denotes protein
T80 1128-1139 GO:0005874 denotes microtubule
T81 1128-1158 Q9DCV4 denotes microtubule-associated protein
T83 1151-1158 CHEBI:36080 denotes protein
T84 1151-1158 CHEBI:11122 denotes protein
T86 1151-1158 SO:0000104 denotes protein
T82 1151-1158 GO:0003675 denotes protein
T87 1159-1164 PR:Q9QYH9 denotes Light
T88 1159-1164 CHEBI:30212 denotes Light
T89 1165-1172 Q00285 denotes Chain 3
T90 1193-1201 CHEBI:10545 denotes electron
T93 1214-1217 GO:0005562 denotes RNA
T94 1214-1217 SO:0000356 denotes RNA
T91 1214-1217 CHEBI:33697 denotes RNA
T92 1214-1217 D012313 denotes RNA
T95 1214-1230 GO:0016246 denotes RNA interference
T96 1244-1247 P82160 denotes LC3
T97 1251-1255 PR:O95352 denotes Atg7
T98 1251-1255 PR:Q86CR9 denotes Atg7
T99 1251-1255 PR:000004419 denotes Atg7
T100 1251-1255 PR:Q94CD5 denotes Atg7
T101 1251-1255 PR:Q59PZ3 denotes Atg7
T102 1251-1255 PR:P38862 denotes Atg7
T103 1251-1255 PR:Q641Y5 denotes Atg7
T104 1251-1255 PR:Q9D906 denotes Atg7
T105 1251-1255 PR:Q5ZKY2 denotes Atg7
T106 1251-1255 PR:O43069 denotes Atg7
T107 1289-1298 SO:0000856 denotes conserved
T108 1299-1308 GO:0016236 denotes autophagy
T109 1299-1308 GO:0006914 denotes autophagy
T110 1351-1356 PR:Q5S006 denotes LRRK2
T111 1351-1356 PR:000003033 denotes LRRK2
T112 1351-1356 PR:Q5S007 denotes LRRK2
T113 1404-1413 CHEBI:9168 denotes rapamycin
T114 1404-1413 D020123 denotes rapamycin
T115 1404-1413 D020123 denotes rapamycin
T116 1445-1452 CHEBI:52290 denotes mitogen
T117 1445-1477 PR:000000019 denotes mitogen activated protein kinase
T118 1445-1477 Q00859 denotes mitogen activated protein kinase
T123 1463-1470 SO:0000104 denotes protein
T119 1463-1470 GO:0003675 denotes protein
T124 1463-1477 D011494 denotes protein kinase
T125 1478-1491 GO:0005576 denotes extracellular
T126 1492-1498 SO:0000725 denotes signal
T127 1492-1498 SO:0000418 denotes signal
T128 1499-1508 SO:0000119 denotes regulated
T133 1509-1516 SO:0000104 denotes protein
T132 1509-1516 PR:000000001 denotes protein
T129 1509-1516 GO:0003675 denotes protein
T134 1509-1523 D011494 denotes protein kinase
T135 1525-1529 PR:P63086 denotes MAPK
T136 1525-1529 PR:P63085 denotes MAPK
T137 1525-1529 P27638 denotes MAPK
T138 1525-1529 PR:000000103 denotes MAPK
T140 1525-1529 PR:P40417 denotes MAPK
T141 1525-1529 PR:000000019 denotes MAPK
T139 1525-1529 GO:0004707 denotes MAPK
T142 1530-1533 PR:P29323 denotes ERK
T143 1530-1533 PR:000007130 denotes ERK
T144 1530-1533 GO:0004707 denotes ERK
T146 1543-1557 CHEBI:88286 denotes MEK) inhibitor
T147 1543-1557 CHEBI:79091 denotes MEK) inhibitor
T149 1558-1617 C113580 denotes 1,4-diamino-2,3-dicyano-1,4-bis[2-aminophenylthio]butadiene
T150 1558-1617 C113580 denotes 1,4-diamino-2,3-dicyano-1,4-bis[2-aminophenylthio]butadiene
T151 1586-1589 GO:0033815 denotes bis
T155 1586-1591 PR:Q8S307 denotes bis[2
T156 1586-1591 PR:000028348 denotes bis[2
T160 1619-1624 C113580 denotes U0126
T161 1619-1624 C113580 denotes U0126
T162 1619-1624 CHEBI:90693 denotes U0126
T163 1634-1639 PR:Q5S006 denotes LRRK2
T164 1634-1639 PR:000003033 denotes LRRK2
T165 1634-1639 PR:Q5S007 denotes LRRK2
T166 1657-1666 GO:0016236 denotes autophagy
T167 1657-1666 GO:0006914 denotes autophagy
T168 1671-1678 GO:0043005 denotes neurite
T169 1703-1707 PR:P63086 denotes MAPK
T170 1703-1707 PR:P63085 denotes MAPK
T171 1703-1707 P27638 denotes MAPK
T172 1703-1707 PR:000000103 denotes MAPK
T174 1703-1707 PR:P40417 denotes MAPK
T175 1703-1707 PR:000000019 denotes MAPK
T173 1703-1707 GO:0004707 denotes MAPK
T176 1708-1711 PR:P29323 denotes ERK
T177 1708-1711 PR:000007130 denotes ERK
T178 1708-1711 GO:0004707 denotes ERK
T179 1720-1729 GO:0023052 denotes signaling
T180 1773-1782 GO:0016236 denotes autophagy
T181 1773-1782 GO:0006914 denotes autophagy
T182 1786-1793 GO:0043005 denotes neurite
T183 1827-1835 SO:0000109 denotes mutation
T184 1839-1844 PR:Q5S006 denotes LRRK2
T185 1839-1844 PR:000003033 denotes LRRK2
T186 1839-1844 PR:Q5S007 denotes LRRK2

PMID_GLOBAL

Id Subject Object Predicate Lexical cue mondo_id
T1 215-219 DiseaseOrPhenotypicFeature denotes rich 0015404
T2 313-332 DiseaseOrPhenotypicFeature denotes Parkinson's disease 0005180
T3 441-460 DiseaseOrPhenotypicFeature denotes Parkinson's disease 0005180

UseCases_ArguminSci_Discourse

Id Subject Object Predicate Lexical cue
T1 0-96 DRI_Background denotes Role of autophagy in G2019S-LRRK2-associated neurite shortening in differentiated SH-SY5Y cells.
T2 97-333 DRI_Challenge denotes Neuritic retraction represents a prominent feature of the degenerative phenotype associated with mutations in leucine rich repeat kinase 2 (LRRK2) that are implicated in autosomal dominant and some cases of sporadic Parkinson's disease.
T3 334-461 DRI_Background denotes Alterations in macroautophagy, the vacuolar catabolism of cytoplasmic constituents, have been described in Parkinson's disease.
T4 462-623 DRI_Approach denotes In this study, we utilized retinoic-acid differentiated SH-SY5Y cells to determine whether autophagy contributes to mutant LRRK2-associated neurite degeneration.
T5 624-639 DRI_Background denotes Transfection of
T6 640-666 Token_Label.OUTSIDE denotes pre-differentiated SH-SY5Y
T7 667-852 DRI_Background denotes cells with LRRK2 cDNA containing the common G2019S mutation resulted in significant decreases in neurite length, which were not observed in cells transfected with wild type LRRK2 or its
T8 853-871 Token_Label.OUTSIDE denotes kinase-dead K1906M
T9 872-881 DRI_Background denotes mutation.
T10 882-888 REPLACED denotes G2019S
T11 889-894 Token_Label.OUTSIDE denotes LRRK2
T12 895-1213 DRI_Outcome denotes transfected cells also exhibited striking increases in autophagic vacuoles in both neuritic and somatic compartments, as demonstrated by fluorescence and western blot analysis of the autophagy marker green fluorescent protein-tagged microtubule-associated protein Light Chain 3 and by transmission electron microscopy.
T13 1214-1343 DRI_Background denotes RNA interference knockdown of LC3 or Atg7, two essential components of the conserved autophagy machinery, reversed the effects of
T14 1344-1356 Token_Label.OUTSIDE denotes G2019S LRRK2
T15 1357-1440 DRI_Background denotes expression on neuronal process length, whereas rapamycin potentiated these effects.
T16 1441-1633 DRI_Background denotes The mitogen activated protein kinase/extracellular signal regulated protein kinase (MAPK/ERK) kinase (MEK) inhibitor 1,4-diamino-2,3-dicyano-1,4-bis[2-aminophenylthio]butadiene (U0126) reduced
T17 1634-1656 Token_Label.OUTSIDE denotes LRRK2-induced neuritic
T18 1657-1730 DRI_Background denotes autophagy and neurite shortening, implicating MAPK/ERK-related signaling.
T19 1731-1845 DRI_Background denotes These results indicate an active role for autophagy in neurite remodeling induced by pathogenic mutation of LRRK2.

PubMed_ArguminSci

Id Subject Object Predicate Lexical cue
T1 97-333 DRI_Challenge denotes Neuritic retraction represents a prominent feature of the degenerative phenotype associated with mutations in leucine rich repeat kinase 2 (LRRK2) that are implicated in autosomal dominant and some cases of sporadic Parkinson's disease.
T2 334-461 DRI_Background denotes Alterations in macroautophagy, the vacuolar catabolism of cytoplasmic constituents, have been described in Parkinson's disease.
T3 462-623 DRI_Approach denotes In this study, we utilized retinoic-acid differentiated SH-SY5Y cells to determine whether autophagy contributes to mutant LRRK2-associated neurite degeneration.
T4 624-639 DRI_Background denotes Transfection of
T5 667-852 DRI_Background denotes cells with LRRK2 cDNA containing the common G2019S mutation resulted in significant decreases in neurite length, which were not observed in cells transfected with wild type LRRK2 or its
T6 872-881 DRI_Background denotes mutation.
T7 882-888 REPLACED denotes G2019S
T8 895-1213 DRI_Outcome denotes transfected cells also exhibited striking increases in autophagic vacuoles in both neuritic and somatic compartments, as demonstrated by fluorescence and western blot analysis of the autophagy marker green fluorescent protein-tagged microtubule-associated protein Light Chain 3 and by transmission electron microscopy.
T9 1214-1343 DRI_Background denotes RNA interference knockdown of LC3 or Atg7, two essential components of the conserved autophagy machinery, reversed the effects of
T10 1357-1440 DRI_Background denotes expression on neuronal process length, whereas rapamycin potentiated these effects.
T11 1441-1633 DRI_Background denotes The mitogen activated protein kinase/extracellular signal regulated protein kinase (MAPK/ERK) kinase (MEK) inhibitor 1,4-diamino-2,3-dicyano-1,4-bis[2-aminophenylthio]butadiene (U0126) reduced
T12 1657-1730 DRI_Background denotes autophagy and neurite shortening, implicating MAPK/ERK-related signaling.
T13 1731-1845 DRI_Background denotes These results indicate an active role for autophagy in neurite remodeling induced by pathogenic mutation of LRRK2.

DisGeNET5_gene_disease

Id Subject Object Predicate Lexical cue
18182054-1#110#138#gene120892 207-235 gene120892 denotes leucine rich repeat kinase 2
18182054-1#140#145#gene120892 237-242 gene120892 denotes LRRK2
18182054-1#216#235#diseaseC0030567 313-332 diseaseC0030567 denotes Parkinson's disease
110#138#gene120892216#235#diseaseC0030567 18182054-1#110#138#gene120892 18182054-1#216#235#diseaseC0030567 associated_with leucine rich repeat kinase 2,Parkinson's disease
140#145#gene120892216#235#diseaseC0030567 18182054-1#140#145#gene120892 18182054-1#216#235#diseaseC0030567 associated_with LRRK2,Parkinson's disease