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CL-cell

Id Subject Object Predicate Lexical cue cl_id
T1 54-65 Cell denotes granulocyte http://purl.obolibrary.org/obo/CL:0000094
T2 146-158 Cell denotes granulocytes http://purl.obolibrary.org/obo/CL:0000094
T3 201-211 Cell denotes phagocytes http://purl.obolibrary.org/obo/CL:0000234
T4 302-313 Cell denotes neutrophils http://purl.obolibrary.org/obo/CL:0000775
T5 318-329 Cell denotes eosinophils http://purl.obolibrary.org/obo/CL:0000771
T6 948-959 Cell denotes neutrophils http://purl.obolibrary.org/obo/CL:0000775
T7 1008-1018 Cell denotes eosinophil http://purl.obolibrary.org/obo/CL:0000771
T8 1033-1044 Cell denotes neutrophils http://purl.obolibrary.org/obo/CL:0000775
T9 1352-1362 Cell denotes neutrophil http://purl.obolibrary.org/obo/CL:0000775
T10 1529-1540 Cell denotes neutrophils http://purl.obolibrary.org/obo/CL:0000775
T11 1665-1676 Cell denotes granulocyte http://purl.obolibrary.org/obo/CL:0000094
T12 1831-1843 Cell denotes granulocytes http://purl.obolibrary.org/obo/CL:0000094

Inflammaging

Id Subject Object Predicate Lexical cue
T1 0-85 Sentence denotes NF-kappaB activation is a critical regulator of human granulocyte apoptosis in vitro.
T2 86-239 Sentence denotes During beneficial inflammation, potentially tissue-damaging granulocytes undergo apoptosis before being cleared by phagocytes in a non-phlogistic manner.
T3 240-491 Sentence denotes Here we show that the rate of constitutive apoptosis in human neutrophils and eosinophils is greatly accelerated in both a rapid and concentration-dependent manner by the fungal metabolite gliotoxin, but not by its inactive analog methylthiogliotoxin.
T4 492-823 Sentence denotes This induction of apoptosis was abolished by the caspase inhibitor zVAD-fmk, correlated with the inhibition of nuclear factor-kappa B (NF-kappaB), and was mimicked by a cell permeable inhibitory peptide of NF-kappaB, SN-50; other NF-kappaB inhibitors, curcumin and pyrrolidine dithiocarbamate; and the proteasome inhibitor, MG-132.
T5 824-1029 Sentence denotes Gliotoxin also augmented dramatically the early (2-6 h) pro-apoptotic effects of tumor necrosis factor-alpha (TNF-alpha) in neutrophils and unmasked the ability of TNF-alpha to induce eosinophil apoptosis.
T6 1030-1266 Sentence denotes In neutrophils, TNF-alpha caused a gliotoxin-inhibitable activation of an inducible form of NF-kappaB, a response that may underlie the ability of TNF-alpha to delay apoptosis at later times (12-24 h) and limit its early killing effect.
T7 1267-1581 Sentence denotes Furthermore, cycloheximide displayed a similar capacity to enhance TNF-alpha induced neutrophil apoptosis even at time points when cycloheximide alone had no pro-apoptotic effect, suggesting that NF-kappaB may regulate the production of protein(s) which protect neutrophils from the cytotoxic effects of TNF-alpha.
T8 1582-1844 Sentence denotes These data shed light on the biochemical and molecular mechanisms regulating human granulocyte apoptosis and, in particular, indicate that the transcription factor NF-kappaB plays a crucial role in regulating the physiological cell death pathway in granulocytes.
T1 0-85 Sentence denotes NF-kappaB activation is a critical regulator of human granulocyte apoptosis in vitro.
T2 86-239 Sentence denotes During beneficial inflammation, potentially tissue-damaging granulocytes undergo apoptosis before being cleared by phagocytes in a non-phlogistic manner.
T3 240-491 Sentence denotes Here we show that the rate of constitutive apoptosis in human neutrophils and eosinophils is greatly accelerated in both a rapid and concentration-dependent manner by the fungal metabolite gliotoxin, but not by its inactive analog methylthiogliotoxin.
T4 492-823 Sentence denotes This induction of apoptosis was abolished by the caspase inhibitor zVAD-fmk, correlated with the inhibition of nuclear factor-kappa B (NF-kappaB), and was mimicked by a cell permeable inhibitory peptide of NF-kappaB, SN-50; other NF-kappaB inhibitors, curcumin and pyrrolidine dithiocarbamate; and the proteasome inhibitor, MG-132.
T5 824-1029 Sentence denotes Gliotoxin also augmented dramatically the early (2-6 h) pro-apoptotic effects of tumor necrosis factor-alpha (TNF-alpha) in neutrophils and unmasked the ability of TNF-alpha to induce eosinophil apoptosis.
T6 1030-1266 Sentence denotes In neutrophils, TNF-alpha caused a gliotoxin-inhibitable activation of an inducible form of NF-kappaB, a response that may underlie the ability of TNF-alpha to delay apoptosis at later times (12-24 h) and limit its early killing effect.
T7 1267-1581 Sentence denotes Furthermore, cycloheximide displayed a similar capacity to enhance TNF-alpha induced neutrophil apoptosis even at time points when cycloheximide alone had no pro-apoptotic effect, suggesting that NF-kappaB may regulate the production of protein(s) which protect neutrophils from the cytotoxic effects of TNF-alpha.
T8 1582-1844 Sentence denotes These data shed light on the biochemical and molecular mechanisms regulating human granulocyte apoptosis and, in particular, indicate that the transcription factor NF-kappaB plays a crucial role in regulating the physiological cell death pathway in granulocytes.

sentences

Id Subject Object Predicate Lexical cue
T1 0-85 Sentence denotes NF-kappaB activation is a critical regulator of human granulocyte apoptosis in vitro.
T2 86-239 Sentence denotes During beneficial inflammation, potentially tissue-damaging granulocytes undergo apoptosis before being cleared by phagocytes in a non-phlogistic manner.
T3 240-491 Sentence denotes Here we show that the rate of constitutive apoptosis in human neutrophils and eosinophils is greatly accelerated in both a rapid and concentration-dependent manner by the fungal metabolite gliotoxin, but not by its inactive analog methylthiogliotoxin.
T4 492-823 Sentence denotes This induction of apoptosis was abolished by the caspase inhibitor zVAD-fmk, correlated with the inhibition of nuclear factor-kappa B (NF-kappaB), and was mimicked by a cell permeable inhibitory peptide of NF-kappaB, SN-50; other NF-kappaB inhibitors, curcumin and pyrrolidine dithiocarbamate; and the proteasome inhibitor, MG-132.
T5 824-1029 Sentence denotes Gliotoxin also augmented dramatically the early (2-6 h) pro-apoptotic effects of tumor necrosis factor-alpha (TNF-alpha) in neutrophils and unmasked the ability of TNF-alpha to induce eosinophil apoptosis.
T6 1030-1266 Sentence denotes In neutrophils, TNF-alpha caused a gliotoxin-inhibitable activation of an inducible form of NF-kappaB, a response that may underlie the ability of TNF-alpha to delay apoptosis at later times (12-24 h) and limit its early killing effect.
T7 1267-1581 Sentence denotes Furthermore, cycloheximide displayed a similar capacity to enhance TNF-alpha induced neutrophil apoptosis even at time points when cycloheximide alone had no pro-apoptotic effect, suggesting that NF-kappaB may regulate the production of protein(s) which protect neutrophils from the cytotoxic effects of TNF-alpha.
T8 1582-1844 Sentence denotes These data shed light on the biochemical and molecular mechanisms regulating human granulocyte apoptosis and, in particular, indicate that the transcription factor NF-kappaB plays a crucial role in regulating the physiological cell death pathway in granulocytes.

Glycosmos6-MAT

Id Subject Object Predicate Lexical cue
T1 1209-1214 http://purl.obolibrary.org/obo/MAT_0000488 denotes later

jnlpba-st-training

Id Subject Object Predicate Lexical cue
T1 0-9 protein denotes NF-kappaB
T2 130-158 cell_type denotes tissue-damaging granulocytes
T3 296-313 cell_type denotes human neutrophils
T4 318-329 cell_type denotes eosinophils
T5 603-625 protein denotes nuclear factor-kappa B
T6 627-636 protein denotes NF-kappaB
T7 698-707 protein denotes NF-kappaB
T8 722-731 protein denotes NF-kappaB
T9 905-932 protein denotes tumor necrosis factor-alpha
T10 934-943 protein denotes TNF-alpha
T11 948-959 cell_type denotes neutrophils
T12 988-997 protein denotes TNF-alpha
T13 1008-1018 cell_type denotes eosinophil
T14 1033-1044 cell_type denotes neutrophils
T15 1046-1055 protein denotes TNF-alpha
T16 1122-1131 protein denotes NF-kappaB
T17 1177-1186 protein denotes TNF-alpha
T18 1334-1343 protein denotes TNF-alpha
T19 1463-1472 protein denotes NF-kappaB
T20 1529-1540 cell_type denotes neutrophils
T21 1571-1580 protein denotes TNF-alpha
T22 1725-1745 protein denotes transcription factor
T23 1746-1755 protein denotes NF-kappaB
T24 1831-1843 cell_type denotes granulocytes

pubmed-sentences-benchmark

Id Subject Object Predicate Lexical cue
S1 0-85 Sentence denotes NF-kappaB activation is a critical regulator of human granulocyte apoptosis in vitro.
S2 86-239 Sentence denotes During beneficial inflammation, potentially tissue-damaging granulocytes undergo apoptosis before being cleared by phagocytes in a non-phlogistic manner.
S3 240-491 Sentence denotes Here we show that the rate of constitutive apoptosis in human neutrophils and eosinophils is greatly accelerated in both a rapid and concentration-dependent manner by the fungal metabolite gliotoxin, but not by its inactive analog methylthiogliotoxin.
S4 492-823 Sentence denotes This induction of apoptosis was abolished by the caspase inhibitor zVAD-fmk, correlated with the inhibition of nuclear factor-kappa B (NF-kappaB), and was mimicked by a cell permeable inhibitory peptide of NF-kappaB, SN-50; other NF-kappaB inhibitors, curcumin and pyrrolidine dithiocarbamate; and the proteasome inhibitor, MG-132.
S5 824-1029 Sentence denotes Gliotoxin also augmented dramatically the early (2-6 h) pro-apoptotic effects of tumor necrosis factor-alpha (TNF-alpha) in neutrophils and unmasked the ability of TNF-alpha to induce eosinophil apoptosis.
S6 1030-1266 Sentence denotes In neutrophils, TNF-alpha caused a gliotoxin-inhibitable activation of an inducible form of NF-kappaB, a response that may underlie the ability of TNF-alpha to delay apoptosis at later times (12-24 h) and limit its early killing effect.
S7 1267-1581 Sentence denotes Furthermore, cycloheximide displayed a similar capacity to enhance TNF-alpha induced neutrophil apoptosis even at time points when cycloheximide alone had no pro-apoptotic effect, suggesting that NF-kappaB may regulate the production of protein(s) which protect neutrophils from the cytotoxic effects of TNF-alpha.
S8 1582-1844 Sentence denotes These data shed light on the biochemical and molecular mechanisms regulating human granulocyte apoptosis and, in particular, indicate that the transcription factor NF-kappaB plays a crucial role in regulating the physiological cell death pathway in granulocytes.

genia-medco-coref

Id Subject Object Predicate Lexical cue
C1 167-176 NP denotes apoptosis
C2 407-438 NP denotes the fungal metabolite gliotoxin
C3 451-454 NP denotes its
C4 510-519 NP denotes apoptosis
C5 603-637 NP denotes nuclear factor-kappa B (NF-kappaB)
C7 698-707 NP denotes NF-kappaB
C6 659-707 NP denotes a cell permeable inhibitory peptide of NF-kappaB
C8 709-715 NP denotes SN-50;
C9 716-742 NP denotes other NF-kappaB inhibitors
C10 744-785 NP denotes curcumin and pyrrolidine dithiocarbamate;
C11 790-814 NP denotes the proteasome inhibitor
C12 816-822 NP denotes MG-132
C13 905-944 NP denotes tumor necrosis factor-alpha (TNF-alpha)
C14 948-959 NP denotes neutrophils
C15 988-997 NP denotes TNF-alpha
C16 1033-1044 NP denotes neutrophils
C17 1046-1055 NP denotes TNF-alpha
C18 1122-1131 NP denotes NF-kappaB
C19 1133-1143 NP denotes a response
C20 1144-1148 NP denotes that
C21 1177-1186 NP denotes TNF-alpha
C22 1196-1205 NP denotes apoptosis
C23 1241-1244 NP denotes its
C24 1280-1293 NP denotes cycloheximide
C25 1398-1417 NP denotes cycloheximide alone
C26 1463-1472 NP denotes NF-kappaB
C27 1504-1514 NP denotes protein(s)
C28 1515-1520 NP denotes which
C29 1529-1540 NP denotes neutrophils
C30 1571-1580 NP denotes TNF-alpha
C31 1721-1755 NP denotes the transcription factor NF-kappaB
R1 C3 C2 coref-pron its,the fungal metabolite gliotoxin
R2 C4 C1 coref-ident apoptosis,apoptosis
R3 C7 C5 coref-ident NF-kappaB,nuclear factor-kappa B (NF-kappaB)
R4 C8 C6 coref-appos SN-50;,a cell permeable inhibitory peptide of NF-kappaB
R5 C10 C9 coref-appos curcumin and pyrrolidine dithiocarbamate;,other NF-kappaB inhibitors
R6 C12 C11 coref-appos MG-132,the proteasome inhibitor
R7 C15 C13 coref-ident TNF-alpha,tumor necrosis factor-alpha (TNF-alpha)
R8 C16 C14 coref-ident neutrophils,neutrophils
R9 C17 C15 coref-ident TNF-alpha,TNF-alpha
R10 C18 C7 coref-ident NF-kappaB,NF-kappaB
R11 C20 C19 coref-relat that,a response
R12 C21 C17 coref-ident TNF-alpha,TNF-alpha
R13 C22 C4 coref-ident apoptosis,apoptosis
R14 C23 C22 coref-pron its,apoptosis
R15 C25 C24 coref-ident cycloheximide alone,cycloheximide
R16 C26 C18 coref-ident NF-kappaB,NF-kappaB
R17 C28 C27 coref-relat which,protein(s)
R18 C29 C16 coref-ident neutrophils,neutrophils
R19 C30 C21 coref-ident TNF-alpha,TNF-alpha
R20 C31 C26 coref-ident the transcription factor NF-kappaB,NF-kappaB

GENIAcorpus

Id Subject Object Predicate Lexical cue
T1 0-9 protein_complex denotes NF-kappaB
T2 48-75 other_name denotes human granulocyte apoptosis
T3 104-116 other_name denotes inflammation
T4 130-158 cell_type denotes tissue-damaging granulocytes
T5 167-176 other_name denotes apoptosis
T6 217-238 other_name denotes non-phlogistic manner
T7 283-292 other_name denotes apoptosis
T8 296-313 cell_type denotes human neutrophils
T9 318-329 cell_type denotes eosinophils
T10 373-403 other_name denotes concentration-dependent manner
T11 411-428 other_organic_compound denotes fungal metabolite
T12 429-438 other_organic_compound denotes gliotoxin
T13 471-490 other_organic_compound denotes methylthiogliotoxin
T14 510-519 other_name denotes apoptosis
T15 541-558 other_organic_compound denotes caspase inhibitor
T16 559-567 other_organic_compound denotes zVAD-fmk
T17 603-625 protein_complex denotes nuclear factor-kappa B
T18 627-636 protein_complex denotes NF-kappaB
T19 661-694 peptide denotes cell permeable inhibitory peptide
T20 698-707 protein_complex denotes NF-kappaB
T21 709-714 peptide denotes SN-50
T22 722-731 protein_complex denotes NF-kappaB
T23 744-752 other_organic_compound denotes curcumin
T24 757-784 other_organic_compound denotes pyrrolidine dithiocarbamate
T25 794-814 other_organic_compound denotes proteasome inhibitor
T26 816-822 other_organic_compound denotes MG-132
T27 824-833 other_organic_compound denotes Gliotoxin
T28 880-901 other_name denotes pro-apoptotic effects
T29 905-932 protein_molecule denotes tumor necrosis factor-alpha
T30 934-943 protein_molecule denotes TNF-alpha
T31 948-959 cell_type denotes neutrophils
T32 988-997 protein_molecule denotes TNF-alpha
T33 1008-1018 cell_type denotes eosinophil
T34 1019-1028 other_name denotes apoptosis
T35 1033-1044 cell_type denotes neutrophils
T36 1046-1055 protein_molecule denotes TNF-alpha
T37 1065-1074 other_organic_compound denotes gliotoxin
T38 1122-1131 protein_complex denotes NF-kappaB
T39 1177-1186 protein_molecule denotes TNF-alpha
T40 1196-1205 other_name denotes apoptosis
T41 1245-1265 other_name denotes early killing effect
T42 1280-1293 other_organic_compound denotes cycloheximide
T43 1334-1343 protein_molecule denotes TNF-alpha
T44 1363-1372 other_name denotes apoptosis
T45 1398-1411 other_organic_compound denotes cycloheximide
T46 1463-1472 protein_complex denotes NF-kappaB
T47 1529-1540 cell_type denotes neutrophils
T48 1550-1567 other_name denotes cytotoxic effects
T49 1571-1580 protein_molecule denotes TNF-alpha
T50 1627-1647 other_name denotes molecular mechanisms
T51 1659-1676 other_name denotes human granulocyte
T52 1677-1686 other_name denotes apoptosis
T53 1725-1745 protein_family_or_group denotes transcription factor
T54 1746-1755 protein_complex denotes NF-kappaB
T55 1795-1827 other_name denotes physiological cell death pathway
T56 1831-1843 cell_type denotes granulocytes

HP-phenotype

Id Subject Object Predicate Lexical cue hp_id
T1 905-910 Phenotype denotes tumor HP:0002664

mondo_disease

Id Subject Object Predicate Lexical cue mondo_id
T1 104-116 Disease denotes inflammation http://purl.obolibrary.org/obo/MONDO_0021166
T2 905-910 Disease denotes tumor http://purl.obolibrary.org/obo/MONDO_0005070

NCBITAXON

Id Subject Object Predicate Lexical cue db_id
T1 48-53 OrganismTaxon denotes human 9606
T2 296-301 OrganismTaxon denotes human 9606
T3 1659-1664 OrganismTaxon denotes human 9606

Anatomy-UBERON

Id Subject Object Predicate Lexical cue uberon_id
T1 54-65 Body_part denotes granulocyte http://purl.obolibrary.org/obo/CL_0000094
T2 130-136 Body_part denotes tissue http://purl.obolibrary.org/obo/UBERON_0000479
T3 146-158 Body_part denotes granulocytes http://purl.obolibrary.org/obo/CL_0000094
T4 201-211 Body_part denotes phagocytes http://purl.obolibrary.org/obo/CL_0000234
T5 302-313 Body_part denotes neutrophils http://purl.obolibrary.org/obo/CL_0000775
T6 318-329 Body_part denotes eosinophils http://purl.obolibrary.org/obo/CL_0017502
T7 948-959 Body_part denotes neutrophils http://purl.obolibrary.org/obo/CL_0000775
T8 1008-1018 Body_part denotes eosinophil http://purl.obolibrary.org/obo/CL_0017502
T9 1033-1044 Body_part denotes neutrophils http://purl.obolibrary.org/obo/CL_0000775
T10 1352-1362 Body_part denotes neutrophil http://purl.obolibrary.org/obo/CL_0000775
T11 1529-1540 Body_part denotes neutrophils http://purl.obolibrary.org/obo/CL_0000775
T12 1665-1676 Body_part denotes granulocyte http://purl.obolibrary.org/obo/CL_0000094
T13 1831-1843 Body_part denotes granulocytes http://purl.obolibrary.org/obo/CL_0000094

Anatomy-MAT

Id Subject Object Predicate Lexical cue mat_id
T1 1209-1214 Body_part denotes later http://purl.obolibrary.org/obo/MAT_0000488