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PubMed:19536134 JSONTXT

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LitCoin-sentences

Id Subject Object Predicate Lexical cue
T1 0-62 Sentence denotes TAK1 is an essential regulator of BMP signalling in cartilage.
T2 63-252 Sentence denotes TGFbeta activated kinase 1 (TAK1), a member of the MAPKKK family, controls diverse functions ranging from innate and adaptive immune system activation to vascular development and apoptosis.
T3 253-395 Sentence denotes To analyse the in vivo function of TAK1 in cartilage, we generated mice with a conditional deletion of Tak1 driven by the collagen 2 promoter.
T4 396-587 Sentence denotes Tak1(col2) mice displayed severe chondrodysplasia with runting, impaired formation of secondary centres of ossification, and joint abnormalities including elbow dislocation and tarsal fusion.
T5 588-689 Sentence denotes This phenotype resembled that of bone morphogenetic protein receptor (BMPR)1 and Gdf5-deficient mice.
T6 690-896 Sentence denotes BMPR signalling was markedly impaired in TAK1-deficient chondrocytes as evidenced by reduced expression of known BMP target genes as well as reduced phosphorylation of Smad1/5/8 and p38/Jnk/Erk MAP kinases.
T7 897-963 Sentence denotes TAK1 mediates Smad1 phosphorylation at C-terminal serine residues.
T8 964-1202 Sentence denotes These findings provide the first in vivo evidence in a mammalian system that TAK1 is required for BMP signalling and functions as an upstream activating kinase for Smad1/5/8 in addition to its known role in regulating MAP kinase pathways.
T9 1203-1312 Sentence denotes Our experiments reveal an essential role for TAK1 in the morphogenesis, growth, and maintenance of cartilage.

LitCoin-entities-OrganismTaxon-PD

Id Subject Object Predicate Lexical cue db_id
T1 320-324 OrganismTaxon denotes mice NCBItxid:10095|NCBItxid:10088
T3 407-411 OrganismTaxon denotes mice NCBItxid:10095|NCBItxid:10088
T5 684-688 OrganismTaxon denotes mice NCBItxid:10095|NCBItxid:10088

LitCoin-entities

Id Subject Object Predicate Lexical cue db_id
6195 0-4 GeneOrGeneProduct denotes TAK1 NCBIGene:26409
6196 34-37 GeneOrGeneProduct denotes BMP NCBIGene:12159
6197 63-89 GeneOrGeneProduct denotes TGFbeta activated kinase 1 NCBIGene:26409
6198 91-95 GeneOrGeneProduct denotes TAK1 NCBIGene:26409
6199 114-120 GeneOrGeneProduct denotes MAPKKK NCBIGene:26409
6200 288-292 GeneOrGeneProduct denotes TAK1 NCBIGene:26409
6201 320-324 OrganismTaxon denotes mice NCBITaxon:10090
6202 356-360 GeneOrGeneProduct denotes Tak1 NCBIGene:26409
6203 375-385 GeneOrGeneProduct denotes collagen 2 NCBIGene:12824
6204 396-400 GeneOrGeneProduct denotes Tak1 NCBIGene:26409
6205 401-405 GeneOrGeneProduct denotes col2 NCBIGene:12824
6206 407-411 OrganismTaxon denotes mice NCBITaxon:10090
6207 429-445 DiseaseOrPhenotypicFeature denotes chondrodysplasia MESH:D010009
6208 521-540 DiseaseOrPhenotypicFeature denotes joint abnormalities MESH:D007592
6209 551-568 DiseaseOrPhenotypicFeature denotes elbow dislocation MESH:D004204
6210 573-586 DiseaseOrPhenotypicFeature denotes tarsal fusion MESH:D000070604
6211 621-664 GeneOrGeneProduct denotes bone morphogenetic protein receptor (BMPR)1 NCBIGene:12166
6212 669-673 GeneOrGeneProduct denotes Gdf5 NCBIGene:14563
6213 684-688 OrganismTaxon denotes mice NCBITaxon:10090
6214 690-694 GeneOrGeneProduct denotes BMPR NCBIGene:12166
6215 731-735 GeneOrGeneProduct denotes TAK1 NCBIGene:26409
6216 803-806 GeneOrGeneProduct denotes BMP NCBIGene:12159
6217 858-867 GeneOrGeneProduct denotes Smad1/5/8 NCBIGene:17125|NCBIGene:17129|NCBIGene:55994
6218 872-875 GeneOrGeneProduct denotes p38 NCBIGene:26416
6219 876-879 GeneOrGeneProduct denotes Jnk NCBIGene:26419
6220 880-883 GeneOrGeneProduct denotes Erk NCBIGene:26413
6221 884-895 GeneOrGeneProduct denotes MAP kinases NCBIGene:26413|NCBIGene:26416|NCBIGene:26419
6222 897-901 GeneOrGeneProduct denotes TAK1 NCBIGene:26409
6223 911-916 GeneOrGeneProduct denotes Smad1 NCBIGene:17125
6224 1041-1045 GeneOrGeneProduct denotes TAK1 NCBIGene:26409
6225 1062-1065 GeneOrGeneProduct denotes BMP NCBIGene:12159
6226 1128-1137 GeneOrGeneProduct denotes Smad1/5/8 NCBIGene:17125|NCBIGene:17129|NCBIGene:55994
6227 1182-1192 GeneOrGeneProduct denotes MAP kinase NCBIGene:26413|NCBIGene:26416|NCBIGene:26419
6228 1248-1252 GeneOrGeneProduct denotes TAK1 NCBIGene:26409

LitCoin_Mondo

Id Subject Object Predicate Lexical cue mondo_id
T1 429-445 DiseaseOrPhenotypicFeature denotes chondrodysplasia 0022723

LitCoin-SeqVar

Id Subject Object Predicate Lexical cue
T1 344-359 SequenceVariant denotes deletion of Tak

LitCoin-GeneOrGeneProduct-v0

Id Subject Object Predicate Lexical cue
T1 0-4 GeneOrGeneProduct denotes TAK1
T2 21-30 GeneOrGeneProduct denotes regulator
T3 63-70 GeneOrGeneProduct denotes TGFbeta
T4 71-80 GeneOrGeneProduct denotes activated
T5 81-89 GeneOrGeneProduct denotes kinase 1
T6 91-95 GeneOrGeneProduct denotes TAK1
T7 114-120 GeneOrGeneProduct denotes MAPKKK
T8 156-163 GeneOrGeneProduct denotes ranging
T9 189-195 GeneOrGeneProduct denotes immune
T10 203-213 GeneOrGeneProduct denotes activation
T11 242-251 GeneOrGeneProduct denotes apoptosis
T12 288-292 GeneOrGeneProduct denotes TAK1
T13 320-324 GeneOrGeneProduct denotes mice
T14 356-360 GeneOrGeneProduct denotes Tak1
T15 375-383 GeneOrGeneProduct denotes collagen
T16 396-400 GeneOrGeneProduct denotes Tak1
T17 401-405 GeneOrGeneProduct denotes col2
T18 407-411 GeneOrGeneProduct denotes mice
T19 451-458 GeneOrGeneProduct denotes runting
T20 469-478 GeneOrGeneProduct denotes formation
T21 551-556 GeneOrGeneProduct denotes elbow
T22 580-586 GeneOrGeneProduct denotes fusion
T23 621-647 GeneOrGeneProduct denotes bone morphogenetic protein
T24 648-656 GeneOrGeneProduct denotes receptor
T25 657-664 GeneOrGeneProduct denotes (BMPR)1
T26 669-673 GeneOrGeneProduct denotes Gdf5
T27 684-688 GeneOrGeneProduct denotes mice
T28 690-694 GeneOrGeneProduct denotes BMPR
T29 710-718 GeneOrGeneProduct denotes markedly
T30 731-735 GeneOrGeneProduct denotes TAK1
T31 775-782 GeneOrGeneProduct denotes reduced
T32 831-838 GeneOrGeneProduct denotes reduced
T33 858-865 GeneOrGeneProduct denotes Smad1/5
T34 880-895 GeneOrGeneProduct denotes Erk MAP kinases
T35 897-901 GeneOrGeneProduct denotes TAK1
T36 902-910 GeneOrGeneProduct denotes mediates
T37 911-916 GeneOrGeneProduct denotes Smad1
T38 936-946 GeneOrGeneProduct denotes C-terminal
T39 970-978 GeneOrGeneProduct denotes findings
T40 1014-1018 GeneOrGeneProduct denotes in a
T41 1041-1045 GeneOrGeneProduct denotes TAK1
T42 1106-1116 GeneOrGeneProduct denotes activating
T43 1117-1123 GeneOrGeneProduct denotes kinase
T44 1128-1135 GeneOrGeneProduct denotes Smad1/5
T45 1171-1181 GeneOrGeneProduct denotes regulating
T46 1182-1192 GeneOrGeneProduct denotes MAP kinase
T47 1248-1252 GeneOrGeneProduct denotes TAK1
T48 1275-1281 GeneOrGeneProduct denotes growth

LitCoin-GeneOrGeneProduct-v2

Id Subject Object Predicate Lexical cue
T1 0-4 GeneOrGeneProduct denotes TAK1
T2 21-30 GeneOrGeneProduct denotes regulator
T3 63-70 GeneOrGeneProduct denotes TGFbeta
T4 81-89 GeneOrGeneProduct denotes kinase 1
T5 91-95 GeneOrGeneProduct denotes TAK1
T6 114-120 GeneOrGeneProduct denotes MAPKKK
T7 242-251 GeneOrGeneProduct denotes apoptosis
T8 288-292 GeneOrGeneProduct denotes TAK1
T9 356-360 GeneOrGeneProduct denotes Tak1
T10 375-383 GeneOrGeneProduct denotes collagen
T11 396-400 GeneOrGeneProduct denotes Tak1
T12 401-405 GeneOrGeneProduct denotes col2
T13 551-556 GeneOrGeneProduct denotes elbow
T14 580-586 GeneOrGeneProduct denotes fusion
T15 621-647 GeneOrGeneProduct denotes bone morphogenetic protein
T16 648-656 GeneOrGeneProduct denotes receptor
T17 657-664 GeneOrGeneProduct denotes (BMPR)1
T18 669-673 GeneOrGeneProduct denotes Gdf5
T19 731-735 GeneOrGeneProduct denotes TAK1
T20 775-782 GeneOrGeneProduct denotes reduced
T21 831-838 GeneOrGeneProduct denotes reduced
T22 858-865 GeneOrGeneProduct denotes Smad1/5
T23 880-895 GeneOrGeneProduct denotes Erk MAP kinases
T24 897-901 GeneOrGeneProduct denotes TAK1
T25 911-916 GeneOrGeneProduct denotes Smad1
T26 936-946 GeneOrGeneProduct denotes C-terminal
T27 1041-1045 GeneOrGeneProduct denotes TAK1
T28 1117-1123 GeneOrGeneProduct denotes kinase
T29 1128-1135 GeneOrGeneProduct denotes Smad1/5
T30 1182-1192 GeneOrGeneProduct denotes MAP kinase
T31 1248-1252 GeneOrGeneProduct denotes TAK1
T32 1275-1281 GeneOrGeneProduct denotes growth

LitCoin-Chemical-MeSH-CHEBI

Id Subject Object Predicate Lexical cue ID:
T1 375-383 ChemicalEntity denotes collagen http://purl.obolibrary.org/obo/CHEBI_3815
T2 884-887 ChemicalEntity denotes MAP http://purl.obolibrary.org/obo/CHEBI_6716
T3 947-962 ChemicalEntity denotes serine residues http://purl.obolibrary.org/obo/CHEBI_32848
T4 1182-1185 ChemicalEntity denotes MAP http://purl.obolibrary.org/obo/CHEBI_6716

LitCoin-GeneOrGeneProduct-v3

Id Subject Object Predicate Lexical cue
T1 0-4 GeneOrGeneProduct denotes TAK1
T2 63-70 GeneOrGeneProduct denotes TGFbeta
T3 81-89 GeneOrGeneProduct denotes kinase 1
T4 91-95 GeneOrGeneProduct denotes TAK1
T5 114-120 GeneOrGeneProduct denotes MAPKKK
T6 288-292 GeneOrGeneProduct denotes TAK1
T7 356-360 GeneOrGeneProduct denotes Tak1
T8 375-383 GeneOrGeneProduct denotes collagen
T9 396-400 GeneOrGeneProduct denotes Tak1
T10 401-405 GeneOrGeneProduct denotes col2
T11 551-556 GeneOrGeneProduct denotes elbow
T12 621-647 GeneOrGeneProduct denotes bone morphogenetic protein
T13 657-664 GeneOrGeneProduct denotes (BMPR)1
T14 669-673 GeneOrGeneProduct denotes Gdf5
T15 731-735 GeneOrGeneProduct denotes TAK1
T16 858-865 GeneOrGeneProduct denotes Smad1/5
T17 880-895 GeneOrGeneProduct denotes Erk MAP kinases
T18 897-901 GeneOrGeneProduct denotes TAK1
T19 911-916 GeneOrGeneProduct denotes Smad1
T20 1041-1045 GeneOrGeneProduct denotes TAK1
T21 1128-1135 GeneOrGeneProduct denotes Smad1/5
T22 1182-1192 GeneOrGeneProduct denotes MAP kinase
T23 1248-1252 GeneOrGeneProduct denotes TAK1

LitCoin_Mondo_095

Id Subject Object Predicate Lexical cue mondo_id
T1 429-445 DiseaseOrPhenotypicFeature denotes chondrodysplasia 0022723
T2 573-586 DiseaseOrPhenotypicFeature denotes tarsal fusion 0008527
T3 884-887 DiseaseOrPhenotypicFeature denotes MAP 0012041
T4 1182-1185 DiseaseOrPhenotypicFeature denotes MAP 0012041

LitCoin-MeSH-Disease-2

Id Subject Object Predicate Lexical cue ID:
T1 429-445 DiseaseOrPhenotypicFeature denotes chondrodysplasia DISEASE
T2 521-540 DiseaseOrPhenotypicFeature denotes joint abnormalities DISEASE
T3 551-568 DiseaseOrPhenotypicFeature denotes elbow dislocation DISEASE
T4 573-586 DiseaseOrPhenotypicFeature denotes tarsal fusion DISEASE

LitCoin-MONDO_bioort2019

Id Subject Object Predicate Lexical cue #label
T1 429-445 DiseaseOrPhenotypicFeature denotes chondrodysplasia DISEASE
T2 521-540 DiseaseOrPhenotypicFeature denotes joint abnormalities DISEASE
T3 551-568 DiseaseOrPhenotypicFeature denotes elbow dislocation DISEASE
T4 573-586 DiseaseOrPhenotypicFeature denotes tarsal fusion DISEASE

LitCoin-NCBITaxon-2

Id Subject Object Predicate Lexical cue
T1 320-324 OrganismTaxon denotes mice
T2 407-411 OrganismTaxon denotes mice
T3 684-688 OrganismTaxon denotes mice

LitCoin-training-merged

Id Subject Object Predicate Lexical cue #label ID:
T4 1182-1185 ChemicalEntity denotes MAP http://purl.obolibrary.org/obo/CHEBI_6716
T3 947-962 ChemicalEntity denotes serine residues http://purl.obolibrary.org/obo/CHEBI_32848
T2 884-887 ChemicalEntity denotes MAP http://purl.obolibrary.org/obo/CHEBI_6716
T1 375-383 ChemicalEntity denotes collagen http://purl.obolibrary.org/obo/CHEBI_3815
T23 1248-1252 GeneOrGeneProduct denotes TAK1
T22 1182-1192 GeneOrGeneProduct denotes MAP kinase
T21 1128-1135 GeneOrGeneProduct denotes Smad1/5
T20 1041-1045 GeneOrGeneProduct denotes TAK1
T19 911-916 GeneOrGeneProduct denotes Smad1
T18 897-901 GeneOrGeneProduct denotes TAK1
T17 880-895 GeneOrGeneProduct denotes Erk MAP kinases
T16 858-865 GeneOrGeneProduct denotes Smad1/5
T15 731-735 GeneOrGeneProduct denotes TAK1
T14 669-673 GeneOrGeneProduct denotes Gdf5
T13 657-664 GeneOrGeneProduct denotes (BMPR)1
T12 621-647 GeneOrGeneProduct denotes bone morphogenetic protein
T11 551-556 GeneOrGeneProduct denotes elbow
T10 401-405 GeneOrGeneProduct denotes col2
T9 396-400 GeneOrGeneProduct denotes Tak1
T8 375-383 GeneOrGeneProduct denotes collagen
T7 356-360 GeneOrGeneProduct denotes Tak1
T6 288-292 GeneOrGeneProduct denotes TAK1
T5 114-120 GeneOrGeneProduct denotes MAPKKK
T55441 91-95 GeneOrGeneProduct denotes TAK1
T82195 81-89 GeneOrGeneProduct denotes kinase 1
T28780 63-70 GeneOrGeneProduct denotes TGFbeta
T53383 0-4 GeneOrGeneProduct denotes TAK1
T4311 573-586 DiseaseOrPhenotypicFeature denotes tarsal fusion DISEASE
T23775 551-568 DiseaseOrPhenotypicFeature denotes elbow dislocation DISEASE
T32819 521-540 DiseaseOrPhenotypicFeature denotes joint abnormalities DISEASE
T55252 429-445 DiseaseOrPhenotypicFeature denotes chondrodysplasia DISEASE
T11381 684-688 OrganismTaxon denotes mice
T31398 407-411 OrganismTaxon denotes mice
T65626 320-324 OrganismTaxon denotes mice
T80680 344-359 SequenceVariant denotes deletion of Tak

PMID_GLOBAL

Id Subject Object Predicate Lexical cue mondo_id
T1 429-445 DiseaseOrPhenotypicFeature denotes chondrodysplasia 0022723
T2 573-586 DiseaseOrPhenotypicFeature denotes tarsal fusion 0008527
T3 884-887 DiseaseOrPhenotypicFeature denotes MAP 0012041
T4 1182-1185 DiseaseOrPhenotypicFeature denotes MAP 0012041