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jnlpba-st-training

Id Subject Object Predicate Lexical cue
T1 15-20 protein denotes TRAF1
T2 22-27 protein denotes TRAF2
T3 33-38 protein denotes TRAF3
T4 47-77 DNA denotes Epstein-Barr virus LMP1 domain
T5 92-104 cell_type denotes B-lymphocyte
T6 129-138 protein denotes NF-kappaB
T7 155-205 protein denotes Epstein-Barr virus (EBV) transforming protein LMP1
T8 222-277 protein denotes constitutively activated tumor necrosis factor receptor
T9 279-283 protein denotes TNFR
T10 384-413 protein denotes cytoplasmic carboxyl terminus
T11 415-417 protein denotes CT
T12 424-447 protein denotes TNFR-associated factors
T13 449-454 protein denotes TRAFs
T14 477-506 cell_line denotes EBV-transformed B lymphocytes
T15 515-520 protein denotes TRAF1
T16 524-529 protein denotes TRAF3
T17 540-545 protein denotes TRAF2
T18 566-570 protein denotes LMP1
T19 588-592 protein denotes LMP1
T20 612-617 protein denotes TRAF1
T21 621-626 protein denotes TRAF3
T22 628-633 protein denotes TRAF1
T23 635-640 protein denotes TRAF2
T24 646-651 protein denotes TRAF3
T25 681-688 protein denotes LMP1 CT
T26 898-920 DNA denotes TRAF binding sequences
T27 950-954 protein denotes LMP1
T28 1016-1023 DNA denotes PXQXT/S
T29 1034-1052 DNA denotes TRAF binding motif
T30 1101-1136 DNA denotes LMP1(1-231) core TRAF binding motif
T31 1157-1166 protein denotes NF-kappaB
T32 1199-1204 protein denotes TRAFs
T33 1208-1212 protein denotes LMP1
T34 1229-1238 protein denotes NF-kappaB
T35 1251-1260 protein denotes NF-kappaB
T36 1275-1279 protein denotes LMP1
T37 1315-1320 protein denotes TRAF1
T38 1320-1326 protein denotes /TRAF2
T39 1350-1355 protein denotes TRAF1
T40 1376-1381 protein denotes TRAFs
T41 1398-1407 protein denotes NF-kappaB
T42 1413-1417 protein denotes LMP1
T43 1428-1433 protein denotes TRAF2
T44 1469-1473 protein denotes LMP1
T45 1490-1499 protein denotes NF-kappaB
T46 1522-1527 protein denotes TRAF1
T47 1553-1558 protein denotes TRAF2
T48 1578-1583 protein denotes TRAF1
T49 1612-1617 protein denotes TRAF3
T50 1645-1649 protein denotes LMP1
T51 1666-1675 protein denotes NF-kappaB
T52 1702-1718 protein denotes TRAF1, -2, or -3
T53 1746-1762 protein denotes terminal LMP1 CT
T54 1809-1818 protein denotes NF-kappaB
T55 1863-1868 protein denotes TRAFs
T56 1874-1878 protein denotes LMP1
T57 1891-1911 protein denotes aa 187 to 231 domain
T58 1934-1943 protein denotes NF-kappaB
T59 1967-1979 cell_type denotes B-lymphocyte
T60 2013-2017 protein denotes TRAF
T61 2033-2037 protein denotes LMP1

pubmed-sentences-benchmark

Id Subject Object Predicate Lexical cue
S1 0-150 Sentence denotes Association of TRAF1, TRAF2, and TRAF3 with an Epstein-Barr virus LMP1 domain important for B-lymphocyte transformation: role in NF-kappaB activation.
S2 151-456 Sentence denotes The Epstein-Barr virus (EBV) transforming protein LMP1 appears to be a constitutively activated tumor necrosis factor receptor (TNFR) on the basis of an intrinsic ability to aggregate in the plasma membrane and an association of its cytoplasmic carboxyl terminus (CT) with TNFR-associated factors (TRAFs).
S3 457-627 Sentence denotes We now show that in EBV-transformed B lymphocytes most of TRAF1 or TRAF3 and 5% of TRAF2 are associated with LMP1 and that most of LMP1 is associated with TRAF1 or TRAF3.
S4 628-825 Sentence denotes TRAF1, TRAF2, and TRAF3 bind to a single site in the LMP1 CT corresponding to amino acids (aa) 199 to 214, within a domain which is important for B-lymphocyte growth transformation (aa 187 to 231).
S5 826-1053 Sentence denotes Further deletional and alanine mutagenesis analyses and comparison with TRAF binding sequences in CD40, in CD30, and in the LMP1 of other lymphycryptoviruses provide the first evidence that PXQXT/S is a core TRAF binding motif.
S6 1054-1250 Sentence denotes The negative effects of point mutations in the LMP1(1-231) core TRAF binding motif on TRAF binding and NF-kappaB activation genetically link the TRAFs to LMP1(1-231)-mediated NF-kappaB activation.
S7 1251-1611 Sentence denotes NF-kappaB activation by LMP1(1-231) is likely to be mediated by TRAF1/TRAF2 heteroaggregates since TRAF1 is unique among the TRAFs in coactivating NF-kappaB with LMP1(1-231), a TRAF2 dominant-negative mutant can block LMP1(1-231)-mediated NF-kappaB activation as well as TRAF1 coactivation, and 30% of TRAF2 is associated with TRAF1 in EBV-transformed B cells.
S8 1612-1687 Sentence denotes TRAF3 is a negative modulator of LMP1(1-231)-mediated NF-kappaB activation.
S9 1688-1830 Sentence denotes Surprisingly, TRAF1, -2, or -3 does not interact with the terminal LMP1 CT aa 333 to 386 which can independently mediate NF-kappaB activation.
S10 1831-2048 Sentence denotes The constitutive association of TRAFs with LMP1 through the aa 187 to 231 domain which is important in NF-kappaB activation and primary B-lymphocyte growth transformation implicates TRAF aggregation in LMP1 signaling.

genia-medco-coref

Id Subject Object Predicate Lexical cue
C4 15-20 NP denotes TRAF1
C8 22-27 NP denotes TRAF2
C6 33-38 NP denotes TRAF3
C57 129-149 NP denotes NF-kappaB activation
C1 151-205 NP denotes The Epstein-Barr virus (EBV) transforming protein LMP1
C3 380-383 NP denotes its
C23 424-429 NP denotes TNFR-
C2 424-455 NP denotes TNFR-associated factors (TRAFs)
C55 477-481 NP denotes EBV-
C52 477-506 NP denotes EBV-transformed B lymphocytes
C7 515-520 NP denotes TRAF1
C9 524-529 NP denotes TRAF3
C10 540-545 NP denotes TRAF2
C11 566-570 NP denotes LMP1
C12 588-592 NP denotes LMP1
C13 612-617 NP denotes TRAF1
C14 621-626 NP denotes TRAF3
C15 628-633 NP denotes TRAF1
C16 635-640 NP denotes TRAF2
C17 646-651 NP denotes TRAF3
C18 742-750 NP denotes a domain
C19 751-756 NP denotes which
C20 946-954 NP denotes the LMP1
C21 992-1010 NP denotes the first evidence
C22 1011-1015 NP denotes that
C53 1157-1177 NP denotes NF-kappaB activation
C24 1195-1204 NP denotes the TRAFs
C26 1208-1220 NP denotes LMP1(1-231)-
C25 1208-1249 NP denotes LMP1(1-231)-mediated NF-kappaB activation
C31 1275-1286 NP denotes LMP1(1-231)
C27 1251-1286 NP denotes NF-kappaB activation by LMP1(1-231)
C28 1350-1355 NP denotes TRAF1
C29 1372-1381 NP denotes the TRAFs
C30 1413-1424 NP denotes LMP1(1-231)
C32 1426-1458 NP denotes a TRAF2 dominant-negative mutant
C34 1469-1481 NP denotes LMP1(1-231)-
C33 1469-1510 NP denotes LMP1(1-231)-mediated NF-kappaB activation
C35 1553-1558 NP denotes TRAF2
C36 1578-1583 NP denotes TRAF1
C56 1587-1591 NP denotes EBV-
C54 1587-1610 NP denotes EBV-transformed B cells
C37 1612-1617 NP denotes TRAF3
C39 1645-1657 NP denotes LMP1(1-231)-
C38 1645-1686 NP denotes LMP1(1-231)-mediated NF-kappaB activation
C40 1702-1707 NP denotes TRAF1
C41 1709-1711 NP denotes -2
C42 1716-1718 NP denotes -3
C43 1742-1776 NP denotes the terminal LMP1 CT aa 333 to 386
C44 1777-1782 NP denotes which
C50 1809-1829 NP denotes NF-kappaB activation
C45 1863-1868 NP denotes TRAFs
C46 1874-1878 NP denotes LMP1
C48 1831-1911 NP denotes The constitutive association of TRAFs with LMP1 through the aa 187 to 231 domain
C49 1912-1917 NP denotes which
C51 1934-1954 NP denotes NF-kappaB activation
R1 C3 C1 coref-pron its,The Epstein-Barr virus (EBV) transforming protein LMP1
R2 C7 C4 coref-ident TRAF1,TRAF1
R3 C9 C6 coref-ident TRAF3,TRAF3
R4 C10 C8 coref-ident TRAF2,TRAF2
R5 C11 C1 coref-ident LMP1,The Epstein-Barr virus (EBV) transforming protein LMP1
R6 C12 C11 coref-ident LMP1,LMP1
R7 C13 C7 coref-ident TRAF1,TRAF1
R8 C14 C9 coref-ident TRAF3,TRAF3
R9 C15 C13 coref-ident TRAF1,TRAF1
R10 C16 C10 coref-ident TRAF2,TRAF2
R11 C17 C14 coref-ident TRAF3,TRAF3
R12 C19 C18 coref-relat which,a domain
R13 C20 C12 coref-ident the LMP1,LMP1
R14 C22 C21 coref-relat that,the first evidence
R15 C53 C57 coref-ident NF-kappaB activation,NF-kappaB activation
R16 C24 C23 coref-ident the TRAFs,TNFR-
R17 C25 C20 coref-other LMP1(1-231)-mediated NF-kappaB activation,the LMP1
R18 C31 C25 coref-ident LMP1(1-231),LMP1(1-231)-mediated NF-kappaB activation
R19 C27 C26 coref-ident NF-kappaB activation by LMP1(1-231),LMP1(1-231)-
R20 C28 C15 coref-ident TRAF1,TRAF1
R21 C29 C24 coref-ident the TRAFs,the TRAFs
R22 C30 C31 coref-ident LMP1(1-231),LMP1(1-231)
R23 C32 C30 coref-appos a TRAF2 dominant-negative mutant,LMP1(1-231)
R24 C34 C31 coref-ident LMP1(1-231)-,LMP1(1-231)
R25 C33 C30 coref-ident LMP1(1-231)-mediated NF-kappaB activation,LMP1(1-231)
R26 C35 C16 coref-ident TRAF2,TRAF2
R27 C36 C28 coref-ident TRAF1,TRAF1
R28 C56 C55 coref-ident EBV-,EBV-
R29 C54 C52 coref-ident EBV-transformed B cells,EBV-transformed B lymphocytes
R30 C37 C17 coref-ident TRAF3,TRAF3
R31 C39 C34 coref-ident LMP1(1-231)-,LMP1(1-231)-
R32 C38 C33 coref-ident LMP1(1-231)-mediated NF-kappaB activation,LMP1(1-231)-mediated NF-kappaB activation
R33 C40 C36 coref-ident TRAF1,TRAF1
R34 C41 C35 coref-ident -2,TRAF2
R35 C42 C37 coref-ident -3,TRAF3
R36 C44 C43 coref-relat which,the terminal LMP1 CT aa 333 to 386
R37 C50 C53 coref-ident NF-kappaB activation,NF-kappaB activation
R38 C45 C24 coref-ident TRAFs,the TRAFs
R39 C46 C20 coref-ident LMP1,the LMP1
R40 C49 C48 coref-relat which,The constitutive association of TRAFs with LMP1 through the aa 187 to 231 domain
R41 C51 C50 coref-ident NF-kappaB activation,NF-kappaB activation

GENIAcorpus

Id Subject Object Predicate Lexical cue
T1 15-20 protein_molecule denotes TRAF1
T2 22-27 protein_molecule denotes TRAF2
T3 33-38 protein_molecule denotes TRAF3
T4 47-77 DNA_domain_or_region denotes Epstein-Barr virus LMP1 domain
T5 92-104 cell_type denotes B-lymphocyte
T6 129-138 protein_molecule denotes NF-kappaB
T7 155-173 virus denotes Epstein-Barr virus
T8 175-178 virus denotes EBV
T9 180-200 protein_family_or_group denotes transforming protein
T10 201-205 protein_molecule denotes LMP1
T11 222-277 protein_family_or_group denotes constitutively activated tumor necrosis factor receptor
T12 279-283 protein_family_or_group denotes TNFR
T13 342-357 cell_component denotes plasma membrane
T14 384-413 protein_domain_or_region denotes cytoplasmic carboxyl terminus
T15 415-417 protein_domain_or_region denotes CT
T16 424-428 protein_family_or_group denotes TNFR
T17 449-454 protein_family_or_group denotes TRAFs
T18 477-506 cell_line denotes EBV-transformed B lymphocytes
T19 515-520 protein_molecule denotes TRAF1
T20 524-529 protein_molecule denotes TRAF3
T21 540-545 protein_molecule denotes TRAF2
T22 566-570 protein_molecule denotes LMP1
T23 588-592 protein_molecule denotes LMP1
T24 612-617 protein_molecule denotes TRAF1
T25 621-626 protein_molecule denotes TRAF3
T26 628-633 protein_molecule denotes TRAF1
T27 635-640 protein_molecule denotes TRAF2
T28 646-651 protein_molecule denotes TRAF3
T29 681-685 protein_molecule denotes LMP1
T30 774-808 other_name denotes B-lymphocyte growth transformation
T31 898-902 protein_family_or_group denotes TRAF
T32 924-928 virus denotes CD40
T33 933-937 virus denotes CD30
T34 950-954 protein_molecule denotes LMP1
T35 964-983 virus denotes lymphycryptoviruses
T36 1016-1023 DNA_domain_or_region denotes PXQXT/S
T37 1034-1052 DNA_domain_or_region denotes TRAF binding motif
T38 1101-1105 protein_molecule denotes LMP1
T39 1157-1166 protein_molecule denotes NF-kappaB
T40 1199-1204 protein_family_or_group denotes TRAFs
T41 1208-1212 protein_molecule denotes LMP1
T42 1229-1238 protein_molecule denotes NF-kappaB
T43 1251-1260 protein_molecule denotes NF-kappaB
T44 1275-1279 protein_molecule denotes LMP1
T45 1315-1320 protein_molecule denotes TRAF1
T46 1320-1326 protein_molecule denotes /TRAF2
T47 1350-1355 protein_molecule denotes TRAF1
T48 1376-1381 protein_family_or_group denotes TRAFs
T49 1398-1407 protein_molecule denotes NF-kappaB
T50 1413-1417 protein_molecule denotes LMP1
T51 1428-1433 protein_molecule denotes TRAF2
T52 1469-1473 protein_molecule denotes LMP1
T53 1490-1499 protein_molecule denotes NF-kappaB
T54 1522-1527 protein_molecule denotes TRAF1
T55 1553-1558 protein_molecule denotes TRAF2
T56 1578-1583 protein_molecule denotes TRAF1
T57 1612-1617 protein_molecule denotes TRAF3
T58 1623-1641 other_name denotes negative modulator
T59 1645-1649 protein_molecule denotes LMP1
T60 1666-1675 protein_molecule denotes NF-kappaB
T61 1746-1754 protein_domain_or_region denotes terminal
T62 1755-1759 protein_molecule denotes LMP1
T63 1809-1818 protein_molecule denotes NF-kappaB
T64 1863-1868 protein_family_or_group denotes TRAFs
T65 1874-1878 protein_molecule denotes LMP1
T66 1891-1911 protein_domain_or_region denotes aa 187 to 231 domain
T67 1934-1943 protein_molecule denotes NF-kappaB
T68 1959-1966 other_name denotes primary
T69 1967-1979 cell_type denotes B-lymphocyte
T70 2013-2017 protein_family_or_group denotes TRAF
T71 2033-2037 protein_molecule denotes LMP1