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Inflammaging

Id Subject Object Predicate Lexical cue
T1 0-106 Sentence denotes Cellular immune and cytokine pathways resulting in tissue factor expression and relevance to septic shock.
T2 107-189 Sentence denotes Cells of monocyte lineage serve as effector cells in the cellular immune response.
T3 190-364 Sentence denotes In addition, they respond to LPS and cytokines with activation and expression of inflammatory effector gene products similar to those elicited by the antigen driven response.
T4 365-505 Sentence denotes The response to antigen proceeds at the T helper cell level through two independent forms of cellular collaboration, contact and lymphokine.
T5 506-608 Sentence denotes We review the control of expression of the Tissue Factor (TF) gene and the function of the TF protein.
T6 609-849 Sentence denotes The enhanced initiation of transcription of the TF gene appears to require engagement of a 56 bp LPS Response Element, an enhancer that is engaged by both AP-1 type heterodimeric complexes as well as NF kappa B like heterodimeric complexes.
T7 850-1041 Sentence denotes Dissociation of NF kappa B from Ig kappa B by cytokine and LPS stimulation, and possibly activated T cells, may represent a common pathway to induction of the TF and other inflammatory genes.
T8 1042-1212 Sentence denotes Enhancement of expression of TF is observed upon adhesion of Mo to endothelial cells and extracellular matrix proteins, as well as upon engagement of leukocyte integrins.
T9 1213-1413 Sentence denotes The biological effects that follow from expression of TF by vascular cells have been resolved by analysis of function aided by the use of recombinant full length TF and truncated surface domain of TF.
T10 1414-1707 Sentence denotes The rules of assembly of the cognate ligands of TF, namely the zymogen plasma factors VII and the serine protease factor VIIa, with the soluble surface domain of TF in free solution, in the presence of phospholipid surfaces and cell surface and of the anchored TF molecule have been described.
T11 1708-1956 Sentence denotes It is evident that assembly of the surface domain of TF with VIIa to form the binary TF.VIIa complex induces a significant increase in the Kcat of the catalytic domain of VIIa for small peptidyl substrates and more profoundly for protein substrate.
T12 1957-2114 Sentence denotes This provides substantial evidence for an allosteric effect on the catalytic cleft of VIIa that is imparted by binding to TF, its cognate catalytic cofactor.
T13 2115-2453 Sentence denotes It is also evident that the TF.VIIa complex is proteolytically active and can activate the zymogen plasma factor X to the serine protease Xa in free solution, inferring that extended substrate recognition by induced structural loci of the TF.VIIa complex are created from either or both proteins to constitute a new recognition structure.
T14 2454-2746 Sentence denotes It is also evident that association of X with charged phospholipid surfaces enhances the proteolytic activation of this zymogen by increasing recognition and susceptibility of the sessile peptide bond deduced from the markedly decreased Km and increased Kcat.(ABSTRACT TRUNCATED AT 400 WORDS)
T1 0-106 Sentence denotes Cellular immune and cytokine pathways resulting in tissue factor expression and relevance to septic shock.
T2 107-189 Sentence denotes Cells of monocyte lineage serve as effector cells in the cellular immune response.
T3 190-364 Sentence denotes In addition, they respond to LPS and cytokines with activation and expression of inflammatory effector gene products similar to those elicited by the antigen driven response.
T4 365-505 Sentence denotes The response to antigen proceeds at the T helper cell level through two independent forms of cellular collaboration, contact and lymphokine.
T5 506-608 Sentence denotes We review the control of expression of the Tissue Factor (TF) gene and the function of the TF protein.
T6 609-849 Sentence denotes The enhanced initiation of transcription of the TF gene appears to require engagement of a 56 bp LPS Response Element, an enhancer that is engaged by both AP-1 type heterodimeric complexes as well as NF kappa B like heterodimeric complexes.
T7 850-1041 Sentence denotes Dissociation of NF kappa B from Ig kappa B by cytokine and LPS stimulation, and possibly activated T cells, may represent a common pathway to induction of the TF and other inflammatory genes.
T8 1042-1212 Sentence denotes Enhancement of expression of TF is observed upon adhesion of Mo to endothelial cells and extracellular matrix proteins, as well as upon engagement of leukocyte integrins.
T9 1213-1413 Sentence denotes The biological effects that follow from expression of TF by vascular cells have been resolved by analysis of function aided by the use of recombinant full length TF and truncated surface domain of TF.
T10 1414-1707 Sentence denotes The rules of assembly of the cognate ligands of TF, namely the zymogen plasma factors VII and the serine protease factor VIIa, with the soluble surface domain of TF in free solution, in the presence of phospholipid surfaces and cell surface and of the anchored TF molecule have been described.
T11 1708-1956 Sentence denotes It is evident that assembly of the surface domain of TF with VIIa to form the binary TF.VIIa complex induces a significant increase in the Kcat of the catalytic domain of VIIa for small peptidyl substrates and more profoundly for protein substrate.
T12 1957-2114 Sentence denotes This provides substantial evidence for an allosteric effect on the catalytic cleft of VIIa that is imparted by binding to TF, its cognate catalytic cofactor.
T13 2115-2453 Sentence denotes It is also evident that the TF.VIIa complex is proteolytically active and can activate the zymogen plasma factor X to the serine protease Xa in free solution, inferring that extended substrate recognition by induced structural loci of the TF.VIIa complex are created from either or both proteins to constitute a new recognition structure.
T14 2454-2746 Sentence denotes It is also evident that association of X with charged phospholipid surfaces enhances the proteolytic activation of this zymogen by increasing recognition and susceptibility of the sessile peptide bond deduced from the markedly decreased Km and increased Kcat.(ABSTRACT TRUNCATED AT 400 WORDS)

jnlpba-st-training

Id Subject Object Predicate Lexical cue
T1 51-64 protein denotes tissue factor
T2 142-156 cell_type denotes effector cells
T3 271-306 protein denotes inflammatory effector gene products
T4 405-418 cell_type denotes T helper cell
T5 494-504 protein denotes lymphokine
T6 549-572 DNA denotes Tissue Factor (TF) gene
T7 597-607 protein denotes TF protein
T8 706-726 DNA denotes LPS Response Element
T9 764-797 protein denotes AP-1 type heterodimeric complexes
T10 809-848 protein denotes NF kappa B like heterodimeric complexes
T11 866-876 protein denotes NF kappa B
T12 882-892 protein denotes Ig kappa B
T13 939-956 cell_type denotes activated T cells
T14 1009-1040 DNA denotes TF and other inflammatory genes
T15 1071-1073 protein denotes TF
T16 1109-1126 cell_type denotes endothelial cells
T17 1192-1211 protein denotes leukocyte integrins
T18 1267-1269 protein denotes TF
T19 1351-1377 protein denotes recombinant full length TF
T20 1382-1406 protein denotes truncated surface domain
T21 1410-1412 protein denotes TF
T22 1462-1464 protein denotes TF
T23 1477-1503 protein denotes zymogen plasma factors VII
T24 1512-1539 protein denotes serine protease factor VIIa
T25 1550-1572 protein denotes soluble surface domain
T26 1576-1578 protein denotes TF
T27 1666-1686 protein denotes anchored TF molecule
T28 1743-1757 protein denotes surface domain
T29 1761-1763 protein denotes TF
T30 1769-1773 protein denotes VIIa
T31 1793-1808 protein denotes TF.VIIa complex
T32 1859-1875 protein denotes catalytic domain
T33 1879-1883 protein denotes VIIa
T34 1938-1955 protein denotes protein substrate
T35 2043-2047 protein denotes VIIa
T36 2079-2081 protein denotes TF
T37 2105-2113 protein denotes cofactor
T38 2143-2158 protein denotes TF.VIIa complex
T39 2206-2229 protein denotes zymogen plasma factor X
T40 2237-2255 protein denotes serine protease Xa
T41 2354-2369 protein denotes TF.VIIa complex
T42 2427-2452 protein denotes new recognition structure
T43 2493-2494 protein denotes X
T44 2574-2581 protein denotes zymogen

GENIAcorpus

Id Subject Object Predicate Lexical cue
T44 1761-1763 protein_molecule denotes TF
T1 51-64 protein_family_or_group denotes tissue factor
T2 93-105 other_name denotes septic shock
T3 142-156 cell_type denotes effector cells
T4 164-188 other_name denotes cellular immune response
T5 219-222 lipid denotes LPS
T6 227-236 other_name denotes cytokines
T7 271-306 protein_family_or_group denotes inflammatory effector gene products
T8 340-363 other_name denotes antigen driven response
T9 405-418 cell_type denotes T helper cell
T10 458-480 other_name denotes cellular collaboration
T11 494-504 protein_family_or_group denotes lymphokine
T12 549-562 protein_molecule denotes Tissue Factor
T13 564-566 protein_molecule denotes TF
T14 597-607 protein_family_or_group denotes TF protein
T15 657-664 DNA_substructure denotes TF gene
T16 706-709 lipid denotes LPS
T17 764-768 protein_molecule denotes AP-1
T18 809-848 protein_complex denotes NF kappa B like heterodimeric complexes
T19 866-876 protein_molecule denotes NF kappa B
T20 882-892 protein_molecule denotes Ig kappa B
T21 896-904 other_name denotes cytokine
T22 909-912 lipid denotes LPS
T23 939-948 cell_type denotes activated
T24 949-956 cell_type denotes T cells
T25 1009-1040 DNA_domain_or_region denotes TF and other inflammatory genes
T26 1071-1073 protein_molecule denotes TF
T27 1109-1126 cell_type denotes endothelial cells
T28 1192-1211 protein_family_or_group denotes leukocyte integrins
T29 1267-1269 protein_molecule denotes TF
T30 1351-1374 protein_molecule denotes recombinant full length
T31 1375-1377 protein_molecule denotes TF
T32 1382-1406 protein_domain_or_region denotes truncated surface domain
T33 1410-1412 protein_molecule denotes TF
T34 1462-1464 protein_molecule denotes TF
T35 1477-1503 protein_family_or_group denotes zymogen plasma factors VII
T36 1512-1539 protein_molecule denotes serine protease factor VIIa
T37 1550-1572 protein_domain_or_region denotes soluble surface domain
T38 1576-1578 protein_molecule denotes TF
T39 1616-1637 lipid denotes phospholipid surfaces
T40 1642-1654 cell_component denotes cell surface
T41 1666-1674 protein_family_or_group denotes anchored
T42 1675-1677 protein_molecule denotes TF
T43 1743-1757 protein_domain_or_region denotes surface domain
T45 1769-1773 protein_molecule denotes VIIa
T46 1793-1808 protein_complex denotes TF.VIIa complex
T47 1847-1851 other_name denotes Kcat
T48 1859-1875 protein_domain_or_region denotes catalytic domain
T49 1879-1883 protein_molecule denotes VIIa
T50 1888-1913 peptide denotes small peptidyl substrates
T51 1938-1955 protein_family_or_group denotes protein substrate
T52 1999-2016 other_name denotes allosteric effect
T53 2043-2047 protein_molecule denotes VIIa
T54 2079-2081 protein_molecule denotes TF
T55 2087-2104 other_name denotes cognate catalytic
T56 2105-2113 protein_family_or_group denotes cofactor
T57 2143-2158 protein_complex denotes TF.VIIa complex
T58 2162-2184 other_name denotes proteolytically active
T59 2206-2229 protein_family_or_group denotes zymogen plasma factor X
T60 2237-2255 protein_molecule denotes serine protease Xa
T61 2289-2319 other_name denotes extended substrate recognition
T62 2354-2369 protein_complex denotes TF.VIIa complex
T63 2493-2494 protein_molecule denotes X
T64 2508-2529 lipid denotes phospholipid surfaces
T65 2543-2565 other_name denotes proteolytic activation
T66 2574-2581 protein_family_or_group denotes zymogen
T67 2634-2654 peptide denotes sessile peptide bond
T68 2691-2693 other_name denotes Km
T69 2708-2712 other_name denotes Kcat

pubmed-sentences-benchmark

Id Subject Object Predicate Lexical cue
S1 0-106 Sentence denotes Cellular immune and cytokine pathways resulting in tissue factor expression and relevance to septic shock.
S2 107-189 Sentence denotes Cells of monocyte lineage serve as effector cells in the cellular immune response.
S3 190-364 Sentence denotes In addition, they respond to LPS and cytokines with activation and expression of inflammatory effector gene products similar to those elicited by the antigen driven response.
S4 365-505 Sentence denotes The response to antigen proceeds at the T helper cell level through two independent forms of cellular collaboration, contact and lymphokine.
S5 506-608 Sentence denotes We review the control of expression of the Tissue Factor (TF) gene and the function of the TF protein.
S6 609-849 Sentence denotes The enhanced initiation of transcription of the TF gene appears to require engagement of a 56 bp LPS Response Element, an enhancer that is engaged by both AP-1 type heterodimeric complexes as well as NF kappa B like heterodimeric complexes.
S7 850-1041 Sentence denotes Dissociation of NF kappa B from Ig kappa B by cytokine and LPS stimulation, and possibly activated T cells, may represent a common pathway to induction of the TF and other inflammatory genes.
S8 1042-1212 Sentence denotes Enhancement of expression of TF is observed upon adhesion of Mo to endothelial cells and extracellular matrix proteins, as well as upon engagement of leukocyte integrins.
S9 1213-1413 Sentence denotes The biological effects that follow from expression of TF by vascular cells have been resolved by analysis of function aided by the use of recombinant full length TF and truncated surface domain of TF.
S10 1414-1707 Sentence denotes The rules of assembly of the cognate ligands of TF, namely the zymogen plasma factors VII and the serine protease factor VIIa, with the soluble surface domain of TF in free solution, in the presence of phospholipid surfaces and cell surface and of the anchored TF molecule have been described.
S11 1708-1956 Sentence denotes It is evident that assembly of the surface domain of TF with VIIa to form the binary TF.VIIa complex induces a significant increase in the Kcat of the catalytic domain of VIIa for small peptidyl substrates and more profoundly for protein substrate.
S12 1957-2114 Sentence denotes This provides substantial evidence for an allosteric effect on the catalytic cleft of VIIa that is imparted by binding to TF, its cognate catalytic cofactor.
S13 2115-2453 Sentence denotes It is also evident that the TF.VIIa complex is proteolytically active and can activate the zymogen plasma factor X to the serine protease Xa in free solution, inferring that extended substrate recognition by induced structural loci of the TF.VIIa complex are created from either or both proteins to constitute a new recognition structure.
S14 2454-2713 Sentence denotes It is also evident that association of X with charged phospholipid surfaces enhances the proteolytic activation of this zymogen by increasing recognition and susceptibility of the sessile peptide bond deduced from the markedly decreased Km and increased Kcat.

genia-medco-coref

Id Subject Object Predicate Lexical cue
C1 107-132 NP denotes Cells of monocyte lineage
C2 203-207 NP denotes they
C3 433-480 NP denotes two independent forms of cellular collaboration
C4 482-504 NP denotes contact and lymphokine
C5 545-572 NP denotes the Tissue Factor (TF) gene
C6 653-664 NP denotes the TF gene
C7 698-726 NP denotes a 56 bp LPS Response Element
C9 728-739 NP denotes an enhancer
C10 740-744 NP denotes that
C8 728-848 NP denotes an enhancer that is engaged by both AP-1 type heterodimeric complexes as well as NF kappa B like heterodimeric complexes
C11 1005-1011 NP denotes the TF
C12 1071-1073 NP denotes TF
C13 1213-1235 NP denotes The biological effects
C14 1236-1240 NP denotes that
C15 1267-1269 NP denotes TF
C16 1410-1412 NP denotes TF
C17 1462-1464 NP denotes TF
C18 1508-1539 NP denotes the serine protease factor VIIa
C19 1576-1578 NP denotes TF
C20 1761-1763 NP denotes TF
C21 1769-1773 NP denotes VIIa
C22 1782-1808 NP denotes the binary TF.VIIa complex
C23 1879-1883 NP denotes VIIa
C25 2043-2047 NP denotes VIIa
C24 2020-2047 NP denotes the catalytic cleft of VIIa
C26 2048-2052 NP denotes that
C27 2079-2081 NP denotes TF
C29 2083-2086 NP denotes its
C28 2083-2113 NP denotes its cognate catalytic cofactor
C30 2139-2158 NP denotes the TF.VIIa complex
C31 2202-2229 NP denotes the zymogen plasma factor X
C32 2350-2369 NP denotes the TF.VIIa complex
C33 2493-2494 NP denotes X
R1 C2 C1 coref-pron they,Cells of monocyte lineage
R2 C4 C3 coref-appos contact and lymphokine,two independent forms of cellular collaboration
R3 C6 C5 coref-ident the TF gene,the Tissue Factor (TF) gene
R4 C10 C9 coref-relat that,an enhancer
R5 C8 C7 coref-appos an enhancer that is engaged by both AP-1 type heterodimeric complexes as well as NF kappa B like heterodimeric complexes,a 56 bp LPS Response Element
R6 C11 C6 coref-ident the TF,the TF gene
R7 C12 C11 coref-ident TF,the TF
R8 C14 C13 coref-relat that,The biological effects
R9 C15 C12 coref-ident TF,TF
R10 C16 C15 coref-ident TF,TF
R11 C17 C16 coref-ident TF,TF
R12 C19 C17 coref-ident TF,TF
R13 C20 C19 coref-ident TF,TF
R14 C21 C18 coref-ident VIIa,the serine protease factor VIIa
R15 C23 C21 coref-ident VIIa,VIIa
R16 C25 C23 coref-ident VIIa,VIIa
R17 C26 C24 coref-relat that,the catalytic cleft of VIIa
R18 C27 C20 coref-ident TF,TF
R19 C29 C25 coref-pron its,VIIa
R20 C28 C27 coref-appos its cognate catalytic cofactor,TF
R21 C30 C22 coref-other the TF.VIIa complex,the binary TF.VIIa complex
R22 C32 C30 coref-ident the TF.VIIa complex,the TF.VIIa complex
R23 C33 C31 coref-ident X,the zymogen plasma factor X