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jnlpba-st-training

Id Subject Object Predicate Lexical cue
T1 35-56 cell_type denotes malignant lymphocytes
T2 372-393 cell_type denotes malignant lymphocytes
T3 551-583 cell_line denotes malignant lymphocytic cell lines
T4 588-604 cell_line denotes primary cultures
T5 608-647 cell_type denotes lymphocytic leukemia and lymphoma cells
T6 871-908 protein denotes terminal deoxynucleotidyl transferase
T7 921-934 DNA denotes DNA fragments
T8 1360-1381 cell_type denotes malignant lymphocytes
T9 1684-1693 protein denotes Caspase-3
T10 1906-1933 protein denotes cell cycle-related proteins
T11 1945-1950 protein denotes c-myc
T12 1952-1974 protein denotes retinoblastoma protein
T13 1976-2001 protein denotes cyclin-dependent kinase 4
T14 2003-2012 protein denotes cyclin D1
T15 2018-2021 protein denotes p53
T16 2040-2072 protein denotes differentiation-related antigens
T17 2188-2215 cell_type denotes malignant lymphocytic cells

pubmed-sentences-benchmark

Id Subject Object Predicate Lexical cue
S1 0-135 Sentence denotes Apoptosis and growth inhibition in malignant lymphocytes after treatment with arsenic trioxide at clinically achievable concentrations.
S2 136-320 Sentence denotes BACKGROUND: Arsenic trioxide (As2O3) can induce clinical remission in patients with acute promyelocytic leukemia via induction of differentiation and programmed cell death (apoptosis).
S3 321-535 Sentence denotes We investigated the effects of As2O3 on a panel of malignant lymphocytes to determine whether growth-inhibitory and apoptotic effects of As2O3 can be observed in these cells at clinically achievable concentrations.
S4 536-782 Sentence denotes METHODS: Eight malignant lymphocytic cell lines and primary cultures of lymphocytic leukemia and lymphoma cells were treated with As2O3, with or without dithiothreitol (DTT) or buthionine sulfoximine (BSO) (an inhibitor of glutathione synthesis).
S5 783-935 Sentence denotes Apoptosis was assessed by cell morphology, flow cytometry, annexin V protein level, and terminal deoxynucleotidyl transferase labeling of DNA fragments.
S6 936-1080 Sentence denotes Cellular proliferation was determined by 5-bromo-2'-deoxyuridine incorporation into DNA and flow cytometry and by use of a mitotic arrest assay.
S7 1081-1201 Sentence denotes Mitochondrial transmembrane potential (delta psi(m)) was measured by means of rhodamine 123 staining and flow cytometry.
S8 1202-1281 Sentence denotes Protein expression was assessed by western blot analysis or immunofluorescence.
S9 1282-1520 Sentence denotes RESULTS: Therapeutic concentrations of As2O3 (1-2 microM) had dual effects on malignant lymphocytes: 1) inhibition of growth through adenosine triphosphate (ATP) depletion and prolongation of cell cycle time and 2) induction of apoptosis.
S10 1521-1583 Sentence denotes As2O3-induced apoptosis was preceded by delta psi(m) collapse.
S11 1584-1683 Sentence denotes DTT antagonized and BSO enhanced As2O3-induced ATP depletion, delta psi(m) collapse, and apoptosis.
S12 1684-1807 Sentence denotes Caspase-3 activation, usually resulting from delta psi(m) collapse, was not always associated with As2O3-induced apoptosis.
S13 1808-2073 Sentence denotes As2O3 induced PML (promyelocytic leukemia) protein degradation but did not modulate expression of cell cycle-related proteins, including c-myc, retinoblastoma protein, cyclin-dependent kinase 4, cyclin D1, and p53, or expression of differentiation-related antigens.
S14 2074-2246 Sentence denotes CONCLUSIONS: Substantial growth inhibition and apoptosis without evidence of differentiation were induced in most malignant lymphocytic cells treated with 1-2 microM As2O3.
S15 2247-2330 Sentence denotes As2O3 may prove useful in the treatment of malignant lymphoproliferative disorders.

genia-medco-coref

Id Subject Object Predicate Lexical cue
C1 35-56 NP denotes malignant lymphocytes
C2 78-94 NP denotes arsenic trioxide
C3 98-134 NP denotes clinically achievable concentrations
C4 148-172 NP denotes Arsenic trioxide (As2O3)
C5 266-281 NP denotes differentiation
C6 286-319 NP denotes programmed cell death (apoptosis)
C7 352-357 NP denotes As2O3
C8 372-393 NP denotes malignant lymphocytes
C9 458-463 NP denotes As2O3
C10 483-494 NP denotes these cells
C11 498-534 NP denotes clinically achievable concentrations
C12 666-671 NP denotes As2O3
C13 689-709 NP denotes dithiothreitol (DTT)
C14 713-781 NP denotes buthionine sulfoximine (BSO) (an inhibitor of glutathione synthesis)
C15 783-792 NP denotes Apoptosis
C16 826-840 NP denotes flow cytometry
C17 1028-1042 NP denotes flow cytometry
C18 1186-1200 NP denotes flow cytometry
C19 1321-1326 NP denotes As2O3
C20 1360-1381 NP denotes malignant lymphocytes
C21 1510-1519 NP denotes apoptosis
C22 1521-1544 NP denotes As2O3-induced apoptosis
C23 1561-1582 NP denotes delta psi(m) collapse
C24 1584-1587 NP denotes DTT
C25 1604-1607 NP denotes BSO
C26 1646-1667 NP denotes delta psi(m) collapse
C27 1673-1682 NP denotes apoptosis
C28 1729-1750 NP denotes delta psi(m) collapse
C29 1783-1806 NP denotes As2O3-induced apoptosis
C30 1808-1813 NP denotes As2O3
C31 2151-2166 NP denotes differentiation
C32 2247-2252 NP denotes As2O3
R1 C4 C2 coref-ident Arsenic trioxide (As2O3),arsenic trioxide
R2 C7 C4 coref-ident As2O3,Arsenic trioxide (As2O3)
R3 C8 C1 coref-ident malignant lymphocytes,malignant lymphocytes
R4 C9 C7 coref-ident As2O3,As2O3
R5 C10 C8 coref-ident these cells,malignant lymphocytes
R6 C11 C3 coref-ident clinically achievable concentrations,clinically achievable concentrations
R7 C12 C9 coref-ident As2O3,As2O3
R8 C15 C6 coref-ident Apoptosis,programmed cell death (apoptosis)
R9 C17 C16 coref-ident flow cytometry,flow cytometry
R10 C18 C17 coref-ident flow cytometry,flow cytometry
R11 C19 C12 coref-ident As2O3,As2O3
R12 C20 C10 coref-ident malignant lymphocytes,these cells
R13 C21 C15 coref-ident apoptosis,Apoptosis
R14 C24 C13 coref-ident DTT,dithiothreitol (DTT)
R15 C25 C14 coref-ident BSO,buthionine sulfoximine (BSO) (an inhibitor of glutathione synthesis)
R16 C26 C23 coref-ident delta psi(m) collapse,delta psi(m) collapse
R17 C27 C21 coref-ident apoptosis,apoptosis
R18 C28 C26 coref-ident delta psi(m) collapse,delta psi(m) collapse
R19 C29 C22 coref-ident As2O3-induced apoptosis,As2O3-induced apoptosis
R20 C30 C19 coref-ident As2O3,As2O3
R21 C31 C5 coref-ident differentiation,differentiation
R22 C32 C30 coref-ident As2O3,As2O3

GENIAcorpus

Id Subject Object Predicate Lexical cue
T1 0-9 other_name denotes Apoptosis
T2 35-56 cell_type denotes malignant lymphocytes
T3 78-94 other_organic_compound denotes arsenic trioxide
T4 148-164 other_organic_compound denotes Arsenic trioxide
T5 166-171 other_organic_compound denotes As2O3
T6 206-214 multi_cell denotes patients
T7 220-248 other_name denotes acute promyelocytic leukemia
T8 286-307 other_name denotes programmed cell death
T9 309-318 other_name denotes apoptosis
T10 352-357 other_organic_compound denotes As2O3
T11 372-393 cell_type denotes malignant lymphocytes
T12 458-463 other_organic_compound denotes As2O3
T13 551-583 cell_line denotes malignant lymphocytic cell lines
T14 588-604 cell_line denotes primary cultures
T15 666-671 other_organic_compound denotes As2O3
T16 689-703 other_organic_compound denotes dithiothreitol
T17 705-708 other_organic_compound denotes DTT
T18 713-735 other_organic_compound denotes buthionine sulfoximine
T19 737-740 other_organic_compound denotes BSO
T20 759-770 peptide denotes glutathione
T21 783-792 other_name denotes Apoptosis
T22 809-824 other_name denotes cell morphology
T23 826-840 other_name denotes flow cytometry
T24 842-865 other_name denotes annexin V protein level
T25 871-908 protein_family_or_group denotes terminal deoxynucleotidyl transferase
T26 921-934 DNA_family_or_group denotes DNA fragments
T27 936-958 other_name denotes Cellular proliferation
T28 977-1000 nucleotide denotes 5-bromo-2'-deoxyuridine
T29 1028-1042 other_name denotes flow cytometry
T30 1059-1079 other_name denotes mitotic arrest assay
T31 1081-1118 other_name denotes Mitochondrial transmembrane potential
T32 1120-1132 other_name denotes delta psi(m)
T33 1186-1200 other_name denotes flow cytometry
T34 1237-1258 other_name denotes western blot analysis
T35 1262-1280 other_name denotes immunofluorescence
T36 1321-1326 other_organic_compound denotes As2O3
T37 1360-1381 cell_type denotes malignant lymphocytes
T38 1415-1437 nucleotide denotes adenosine triphosphate
T39 1439-1442 nucleotide denotes ATP
T40 1510-1519 other_name denotes apoptosis
T41 1521-1526 other_organic_compound denotes As2O3
T42 1535-1544 other_name denotes apoptosis
T43 1561-1573 other_name denotes delta psi(m)
T44 1584-1587 other_organic_compound denotes DTT
T45 1604-1607 other_organic_compound denotes BSO
T46 1617-1622 other_organic_compound denotes As2O3
T47 1631-1634 nucleotide denotes ATP
T48 1646-1658 other_name denotes delta psi(m)
T49 1673-1682 other_name denotes apoptosis
T50 1684-1693 protein_molecule denotes Caspase-3
T51 1729-1741 other_name denotes delta psi(m)
T52 1783-1788 other_organic_compound denotes As2O3
T53 1797-1806 other_name denotes apoptosis
T54 1808-1813 other_organic_compound denotes As2O3
T55 1827-1849 other_name denotes promyelocytic leukemia
T56 1851-1870 other_name denotes protein degradation
T57 1906-1933 protein_family_or_group denotes cell cycle-related proteins
T58 1945-1950 protein_molecule denotes c-myc
T59 1952-1974 protein_molecule denotes retinoblastoma protein
T60 1976-2001 protein_molecule denotes cyclin-dependent kinase 4
T61 2003-2012 protein_molecule denotes cyclin D1
T62 2018-2021 protein_molecule denotes p53
T63 2040-2072 protein_family_or_group denotes differentiation-related antigens
T64 2121-2130 other_name denotes apoptosis
T65 2188-2215 cell_type denotes malignant lymphocytic cells
T66 2240-2245 other_organic_compound denotes As2O3
T67 2247-2252 other_organic_compound denotes As2O3
T68 2290-2329 other_name denotes malignant lymphoproliferative disorders

PubmedHPO

Id Subject Object Predicate Lexical cue
T2 240-248 HP_0001909 denotes leukemia
T1 220-248 HP_0004836 denotes acute promyelocytic leukemia