bionlp-ost-19-BB-norm-ner-dev  

BB-norm+ner@ldeleger:BB-norm+ner-20174624 JSONTXT

Annnotations TAB TSV DIC JSON TextAE

Below, discontinuous spans are shown in the chain model. You can change it to the bag model.

Id Subject Object Predicate Lexical cue NCBI_Taxonomy OntoBiotope
T5 0-11 Habitat denotes Neutrophils OBT:003004
T1 0-143 Title denotes Neutrophils are resistant to Yersinia YopJ/P-induced apoptosis and are protected from ROS-mediated cell death by the type III secretion system.
T6 29-37 Microorganism denotes Yersinia 629
T7 99-103 Habitat denotes cell OBT:000061
T8 117-135 Phenotype denotes type III secretion OBT:000019
T2 144-664 Paragraph denotes The human innate immune system relies on the coordinated activity of macrophages and polymorphonuclear leukocytes (neutrophils or PMNs) for defense against bacterial pathogens. Yersinia spp. subvert the innate immune response to cause disease in humans. In particular, the Yersinia outer protein YopJ (Y. pestis and Y. pseudotuberculosis) and YopP (Y. enterocolitica) rapidly induce apoptosis in murine macrophages and dendritic cells. However, the effects of Yersinia Yop J/P on neutrophil fate are not clearly defined.
T9 148-153 Habitat denotes human OBT:002488
T10 148-174 Habitat denotes human innate immune system OBT:000686
T11 213-224 Habitat denotes macrophages OBT:002995
T12 229-257 Habitat denotes polymorphonuclear leukocytes OBT:001134
T13 259-270 Habitat denotes neutrophils OBT:003004
T14 274-278 Habitat denotes PMNs OBT:001134
T15 300-319 Phenotype denotes bacterial pathogens OBT:002806
T16 321-329 Microorganism denotes Yersinia 629
T17 390-396 Habitat denotes humans OBT:002488
T18 417-425 Microorganism denotes Yersinia 629
T19 446-455 Microorganism denotes Y. pestis 632
T20 460-481 Microorganism denotes Y. pseudotuberculosis 633
T21 493-510 Microorganism denotes Y. enterocolitica 630
T24 540-546 Habitat denotes murine OBT:002530
T23-0 540-546 _FRAGMENT denotes murine OBT:002785
T22 540-558 Habitat denotes murine macrophages OBT:002995
T23-1 563-578 Habitat denotes dendritic cells
T25 604-612 Microorganism denotes Yersinia 630
T26 624-634 Habitat denotes neutrophil OBT:003004
T3 665-1672 Paragraph denotes In this study, we utilized wild-type and mutant strains of Yersinia to test the contribution of YopJ and YopP on induction of apoptosis in human monocyte-derived macrophages (HMDM) and neutrophils. Whereas YopJ and YopP similarly induced apoptosis in HMDMs, interaction of human neutrophils with virulence plasmid-containing Yersinia did not result in PMN caspase activation, release of LDH, or loss of membrane integrity greater than PMN controls. In contrast, interaction of human PMNs with the virulence plasmid-deficient Y. pestis strain KIM6 resulted in increased surface exposure of phosphatidylserine (PS) and cell death. PMN reactive oxygen species (ROS) production was inhibited in a virulence plasmid-dependent but YopJ/YopP-independent manner. Following phagocytic interaction with Y. pestis strain KIM6, inhibition of PMN ROS production with diphenyleneiodonium chloride resulted in a reduction of PMN cell death similar to that induced by the virulence plasmid-containing strain Y. pestis KIM5.
T27 692-701 Phenotype denotes wild-type OBT:000169
T28 706-712 Phenotype denotes mutant OBT:000118
T29 724-732 Microorganism denotes Yersinia 629
T31 804-809 Habitat denotes human OBT:002488
T30 804-838 Habitat denotes human monocyte-derived macrophages OBT:002995
T32 840-844 Habitat denotes HMDM OBT:002995
T33 850-861 Habitat denotes neutrophils OBT:003004
T34 916-921 Habitat denotes HMDMs OBT:002995
T36 938-943 Habitat denotes human OBT:002488
T35 938-955 Habitat denotes human neutrophils OBT:003004
T37 961-970 Phenotype denotes virulence OBT:002806
T38 990-998 Microorganism denotes Yersinia 629
T39 1017-1020 Habitat denotes PMN OBT:001134
T40 1100-1103 Habitat denotes PMN OBT:001134
T42 1142-1147 Habitat denotes human OBT:002488
T41 1142-1152 Habitat denotes human PMNs OBT:001134
T43 1162-1171 Phenotype denotes virulence OBT:002806
T44 1190-1211 Microorganism denotes Y. pestis strain KIM6 187410
T45 1282-1286 Habitat denotes cell OBT:000706
T46 1294-1297 Habitat denotes PMN OBT:001134
T47 1358-1367 Phenotype denotes virulence OBT:002806
T48 1458-1479 Microorganism denotes Y. pestis strain KIM6 187410
T49 1495-1498 Habitat denotes PMN OBT:001134
T50 1575-1583 Habitat denotes PMN cell OBT:001134
T51 1621-1630 Phenotype denotes virulence OBT:002806
T52 1657-1671 Microorganism denotes Y. pestis KIM5 187410
T4 1673-2071 Paragraph denotes Our findings showed that Yersinia YopJ and/or YopP did not induce pronounced apoptosis in human neutrophils. Furthermore, robust PMN ROS production in response to virulence plasmid-deficient Yersinia was associated with increased PMN cell death, suggesting that Yersinia inhibition of PMN ROS production plays a role in evasion of the human innate immune response in part by limiting PMN apoptosis.
T53 1698-1706 Microorganism denotes Yersinia 629
T55 1763-1768 Habitat denotes human OBT:002488
T54 1763-1780 Habitat denotes human neutrophils OBT:003004
T56 1802-1805 Habitat denotes PMN OBT:001134
T57 1836-1845 Phenotype denotes virulence OBT:002806
T58 1864-1872 Microorganism denotes Yersinia 629
T59 1903-1911 Habitat denotes PMN cell OBT:001134
T60 1935-1943 Microorganism denotes Yersinia 629
T61 1958-1961 Habitat denotes PMN OBT:001134
T62 2008-2013 Habitat denotes human OBT:002488
T63 2057-2060 Habitat denotes PMN OBT:001134
C-T23-0 T23-1 T23-0 _lexicallyChainedTo dendritic cells,murine