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PubMed:9792294 JSONTXT

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jnlpba-st-training

Id Subject Object Predicate Lexical cue
T1 18-39 protein denotes transcription factors
T2 100-110 cell_line denotes HL60 cells
T3 206-221 cell_type denotes leukaemic cells
T4 481-502 protein denotes transcription factors
T5 509-530 protein denotes transcription factors
T6 547-575 protein denotes structural protein sequences
T7 646-666 protein denotes transcription factor
T8 750-799 DNA denotes TFIIIA zinc-finger consensus amino acid sequences
T9 811-826 protein denotes POU-homeodomain
T10 831-850 protein denotes POU-specific domain
T11 977-998 protein denotes transcription factors
T12 1002-1034 cell_line denotes serum-independent HL60 cell line
T13 1137-1148 cell_type denotes CD38+ cells
T14 1322-1346 cell_line denotes ATRA-induced CD38+ cells
T15 1352-1393 cell_line denotes vitamin D3 treated maturing cell cultures
T16 1439-1452 DNA denotes PCR fragments
T17 1579-1599 protein denotes transcription factor
T18 1629-1637 DNA denotes KIAA0144
T19 1918-1946 protein denotes zinc finger and POU families

pubmed-sentences-benchmark

Id Subject Object Predicate Lexical cue
S1 0-111 Sentence denotes Identification of transcription factors expressed during ATRA-induced neutrophil differentiation of HL60 cells.
S2 112-265 Sentence denotes A recent clinical therapeutic initiative has been the use of chemical agents which induce the leukaemic cells to overcome their block in differentiation.
S3 266-358 Sentence denotes In order to understand this block the cascade of molecular events needs to be characterized.
S4 359-503 Sentence denotes Haemopoietic differentiation is ultimately controlled at the level of gene transcription which is mediated by an array of transcription factors.
S5 504-709 Sentence denotes Many transcription factors contain similar structural protein sequences, and we have used an RT-PCR-based approach to isolate sequences, from transcription factor gene families which share similar domains.
S6 710-999 Sentence denotes Degenerate primers corresponding to the TFIIIA zinc-finger consensus amino acid sequences and to the POU-homeodomain and POU-specific domain were used to amplify genes on the basis that they contained similarities in structural motifs shared within these families of transcription factors.
S7 1000-1136 Sentence denotes A serum-independent HL60 cell line was induced towards the neutrophil lineage by treatment with all-trans retinoic acid (ATRA) for 24 h.
S8 1137-1291 Sentence denotes CD38+ cells committed towards this lineage were enriched and a population of these cells treated with dihydroxyvitamin D3 to induce neutrophil maturation.
S9 1292-1438 Sentence denotes RNA extracted from uninduced, ATRA-induced CD38+ cells, and vitamin D3 treated maturing cell cultures were amplified using the degenerate primers.
S10 1439-1568 Sentence denotes PCR fragments were cloned, sequenced, clustered into homologous groups, and the group sequences searched on the GenBank database.
S11 1569-1683 Sentence denotes The Oct 1 transcription factor, and a very close homologue, KIAA0144, was identified using the POU family primers.
S12 1684-1743 Sentence denotes The zinc-finger primers identified three zinc-finger genes.
S13 1744-1869 Sentence denotes The pattern of gene expression was suggested from the number of clones in each group at neutrophil commitment and maturation.
S14 1870-2069 Sentence denotes The differential expression of the genes in the zinc finger and POU families will lead to a better understanding of the cascade of gene expression which occurs following ATRA-induced differentiation.

genia-medco-coref

Id Subject Object Predicate Lexical cue
C1 173-188 NP denotes chemical agents
C2 189-194 NP denotes which
C4 234-239 NP denotes their
C3 234-264 NP denotes their block in differentiation
C5 289-299 NP denotes this block
C6 429-447 NP denotes gene transcription
C7 448-453 NP denotes which
C8 646-680 NP denotes transcription factor gene families
C9 681-686 NP denotes which
C10 710-850 NP denotes Degenerate primers corresponding to the TFIIIA zinc-finger consensus amino acid sequences and to the POU-homeodomain and POU-specific domain
C11 881-890 NP denotes the basis
C12 891-895 NP denotes that
C13 896-900 NP denotes they
C14 1055-1077 NP denotes the neutrophil lineage
C16 1167-1179 NP denotes this lineage
C15 1137-1179 NP denotes CD38+ cells committed towards this lineage
C17 1214-1225 NP denotes these cells
C18 1415-1437 NP denotes the degenerate primers
C19 1605-1627 NP denotes a very close homologue
C20 1629-1637 NP denotes KIAA0144
C21 1719-1742 NP denotes three zinc-finger genes
C22 1901-1929 NP denotes the genes in the zinc finger
C23 1986-2016 NP denotes the cascade of gene expression
C24 2017-2022 NP denotes which
R1 C2 C1 coref-relat which,chemical agents
R2 C4 C1 coref-pron their,chemical agents
R3 C5 C3 coref-ident this block,their block in differentiation
R4 C7 C6 coref-relat which,gene transcription
R5 C9 C8 coref-relat which,transcription factor gene families
R6 C12 C11 coref-relat that,the basis
R7 C13 C10 coref-pron they,Degenerate primers corresponding to the TFIIIA zinc-finger consensus amino acid sequences and to the POU-homeodomain and POU-specific domain
R8 C16 C14 coref-ident this lineage,the neutrophil lineage
R9 C17 C15 coref-ident these cells,CD38+ cells committed towards this lineage
R10 C18 C10 coref-ident the degenerate primers,Degenerate primers corresponding to the TFIIIA zinc-finger consensus amino acid sequences and to the POU-homeodomain and POU-specific domain
R11 C20 C19 coref-appos KIAA0144,a very close homologue
R12 C22 C21 coref-ident the genes in the zinc finger,three zinc-finger genes
R13 C24 C23 coref-relat which,the cascade of gene expression

GENIAcorpus

Id Subject Object Predicate Lexical cue
T1 18-39 protein_family_or_group denotes transcription factors
T2 57-96 other_name denotes ATRA-induced neutrophil differentiation
T3 100-110 cell_line denotes HL60 cells
T4 173-188 other_organic_compound denotes chemical agents
T5 206-221 cell_type denotes leukaemic cells
T6 315-331 other_name denotes molecular events
T7 429-447 other_name denotes gene transcription
T8 481-502 protein_family_or_group denotes transcription factors
T9 509-530 protein_family_or_group denotes transcription factors
T10 547-575 protein_domain_or_region denotes structural protein sequences
T11 597-603 other_name denotes RT-PCR
T12 646-666 protein_family_or_group denotes transcription factor
T13 750-768 protein_substructure denotes TFIIIA zinc-finger
T14 811-826 protein_domain_or_region denotes POU-homeodomain
T15 831-850 protein_domain_or_region denotes POU-specific domain
T16 977-998 protein_family_or_group denotes transcription factors
T17 1002-1019 cell_line denotes serum-independent
T18 1020-1034 cell_line denotes HL60 cell line
T19 1096-1119 other_organic_compound denotes all-trans retinoic acid
T20 1121-1125 other_organic_compound denotes ATRA
T21 1137-1148 cell_type denotes CD38+ cells
T22 1239-1258 other_organic_compound denotes dihydroxyvitamin D3
T23 1269-1291 other_name denotes neutrophil maturation.
T24 1322-1326 other_organic_compound denotes ATRA
T25 1335-1346 cell_type denotes CD38+ cells
T26 1352-1362 other_organic_compound denotes vitamin D3
T27 1419-1437 polynucleotide denotes degenerate primers
T28 1439-1452 DNA_molecule denotes PCR fragments
T29 1519-1534 other_name denotes group sequences
T30 1551-1567 other_name denotes GenBank database
T31 1579-1599 protein_family_or_group denotes transcription factor
T32 1629-1637 DNA_domain_or_region denotes KIAA0144
T33 1664-1682 polynucleotide denotes POU family primers
T34 1688-1707 polynucleotide denotes zinc-finger primers
T35 1725-1742 polynucleotide denotes zinc-finger genes
T36 1759-1774 other_name denotes gene expression
T37 1832-1853 other_name denotes neutrophil commitment
T38 2001-2016 other_name denotes gene expression
T39 2040-2044 other_organic_compound denotes ATRA