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PubMed:2105887 JSONTXT

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jnlpba-st-training

Id Subject Object Predicate Lexical cue
T1 26-60 DNA denotes endogenous Ig heavy chain enhancer
T2 69-80 cell_type denotes lymphocytes
T3 86-126 protein denotes ubiquitously active transcription factor
T4 132-156 DNA denotes transcriptional enhancer
T5 192-234 DNA denotes immunoglobulin heavy chain constant region
T6 291-311 DNA denotes immunoglobulin genes
T7 324-333 DNA denotes enhancers
T8 339-362 DNA denotes Ig heavy chain enhancer
T9 386-401 DNA denotes sequence motifs
T10 412-442 protein denotes specific transcription factors
T11 449-461 DNA denotes binding site
T12 505-513 DNA denotes enhancer
T13 615-649 DNA denotes Ig heavy chain enhancer components
T14 690-707 DNA denotes sequence elements
T15 751-768 DNA denotes E3 enhancer motif
T16 785-816 protein denotes ubiquitous transcription factor
T17 858-865 cell_type denotes B cells
T18 870-881 cell_type denotes non-B cells
T19 1013-1038 DNA denotes transfected reporter gene
T20 1087-1121 DNA denotes endogenous Ig heavy chain enhancer
T21 1125-1143 cell_type denotes non-lymphoid cells
T22 1244-1251 protein denotes NF-muE3
T23 1269-1276 cell_type denotes B cells
T24 1288-1299 cell_type denotes non-B cells
T25 1452-1465 cell_type denotes B lymphocytes
T26 1471-1492 protein denotes cell-specific factors
T27 1501-1507 protein denotes Oct-2A
T28 1512-1518 protein denotes Oct-2B
T29 1572-1590 protein denotes ubiquitous factors
T30 1599-1609 protein denotes NF-kappa B
T31 1644-1651 cell_type denotes B cells
T32 1712-1739 protein denotes ubiquitously active factors
T33 1779-1796 DNA denotes E3 sequence motif
T34 1906-1940 DNA denotes endogenous Ig heavy chain enhancer
T35 1944-1955 cell_type denotes non-B cells
T36 1989-1998 DNA denotes chromatin
T37 2016-2036 DNA denotes Ig heavy chain locus

pubmed-sentences-benchmark

Id Subject Object Predicate Lexical cue
S1 0-127 Sentence denotes A factor known to bind to endogenous Ig heavy chain enhancer only in lymphocytes is a ubiquitously active transcription factor.
S2 128-312 Sentence denotes The transcriptional enhancer located in the first intron of the immunoglobulin heavy chain constant region is a major determinant of B-cell-specific expression of immunoglobulin genes.
S3 313-443 Sentence denotes Like other enhancers, the Ig heavy chain enhancer contains several short sequence motifs that bind specific transcription factors.
S4 444-580 Sentence denotes Each binding site contributes to the overall activity of the enhancer, however no single element seems absolutely required for activity.
S5 581-708 Sentence denotes For a better understanding of the Ig heavy chain enhancer components, we have cloned and analyzed individual sequence elements.
S6 709-817 Sentence denotes We find that the factor that binds to the E3 enhancer motif, CATGTGGC, is a ubiquitous transcription factor.
S7 818-952 Sentence denotes It is present in an active form in both B cells and non-B cells, where it can mediate transcriptional activation in vitro and in vivo.
S8 953-1300 Sentence denotes However, despite its ability to activate transcription of a transfected reporter gene, the factor is apparently unable to bind to the endogenous Ig heavy chain enhancer in non-lymphoid cells: In previous experiments by others, the characteristic in vivo footprint of this factor, designated NF-muE3, was detected in B cells but not in non-B cells.
S9 1301-1797 Sentence denotes From this and other findings the picture emerges that there are at least three categories of factors which mediate cell-type-specific transcription in B lymphocytes: (a) cell-specific factors such as Oct-2A and Oct-2B that are not expressed in most other cell types: (b) ubiquitous factors such as NF-kappa B that are constitutively active in B cells but are sequestered in an inactive form in other cells; (c) ubiquitously active factors, exemplified by the one binding to the E3 sequence motif.
S10 1798-2037 Sentence denotes This factor is present in an active form in a variety of cell types but is apparently unable to bind to the endogenous Ig heavy chain enhancer in non-B cells, perhaps due to a non-permissive chromatin structure of the Ig heavy chain locus.

genia-medco-coref

Id Subject Object Predicate Lexical cue
C1 128-234 NP denotes The transcriptional enhancer located in the first intron of the immunoglobulin heavy chain constant region
C2 335-362 NP denotes the Ig heavy chain enhancer
C3 372-401 NP denotes several short sequence motifs
C4 402-406 NP denotes that
C5 501-513 NP denotes the enhancer
C7 722-732 NP denotes the factor
C8 733-737 NP denotes that
C6 722-768 NP denotes the factor that binds to the E3 enhancer motif
C9 770-778 NP denotes CATGTGGC
C10 818-820 NP denotes It
C11 858-865 NP denotes B cells
C12 870-881 NP denotes non-B cells
C13 889-891 NP denotes it
C14 970-973 NP denotes its
C15 1040-1050 NP denotes the factor
C16 1220-1231 NP denotes this factor
C17 1269-1276 NP denotes B cells
C18 1288-1299 NP denotes non-B cells
C19 1365-1401 NP denotes at least three categories of factors
C20 1402-1407 NP denotes which
C21 1471-1518 NP denotes cell-specific factors such as Oct-2A and Oct-2B
C22 1519-1523 NP denotes that
C23 1572-1609 NP denotes ubiquitous factors such as NF-kappa B
C24 1610-1614 NP denotes that
C25 1644-1651 NP denotes B cells
C26 1756-1796 NP denotes the one binding to the E3 sequence motif
C27 1798-1809 NP denotes This factor
C28 1944-1955 NP denotes non-B cells
R1 C2 C1 coref-ident the Ig heavy chain enhancer,The transcriptional enhancer located in the first intron of the immunoglobulin heavy chain constant region
R2 C4 C3 coref-relat that,several short sequence motifs
R3 C5 C2 coref-ident the enhancer,the Ig heavy chain enhancer
R4 C8 C7 coref-relat that,the factor
R5 C9 C6 coref-appos CATGTGGC,the factor that binds to the E3 enhancer motif
R6 C10 C9 coref-pron It,CATGTGGC
R7 C13 C9 coref-pron it,CATGTGGC
R8 C14 C9 coref-pron its,CATGTGGC
R9 C15 C9 coref-ident the factor,CATGTGGC
R10 C16 C15 coref-ident this factor,the factor
R11 C17 C11 coref-ident B cells,B cells
R12 C18 C12 coref-ident non-B cells,non-B cells
R13 C20 C19 coref-relat which,at least three categories of factors
R14 C22 C21 coref-relat that,cell-specific factors such as Oct-2A and Oct-2B
R15 C24 C23 coref-relat that,ubiquitous factors such as NF-kappa B
R16 C25 C17 coref-ident B cells,B cells
R17 C26 C16 coref-ident the one binding to the E3 sequence motif,this factor
R18 C27 C26 coref-ident This factor,the one binding to the E3 sequence motif
R19 C28 C18 coref-ident non-B cells,non-B cells

GENIAcorpus

Id Subject Object Predicate Lexical cue
T1 26-60 DNA_domain_or_region denotes endogenous Ig heavy chain enhancer
T2 69-80 cell_type denotes lymphocytes
T3 86-126 protein_family_or_group denotes ubiquitously active transcription factor
T4 132-156 DNA_domain_or_region denotes transcriptional enhancer
T5 192-234 DNA_domain_or_region denotes immunoglobulin heavy chain constant region
T6 261-276 other_name denotes B-cell-specific
T7 277-287 other_name denotes expression
T8 291-311 DNA_family_or_group denotes immunoglobulin genes
T9 324-333 DNA_domain_or_region denotes enhancers
T10 339-362 DNA_domain_or_region denotes Ig heavy chain enhancer
T11 386-401 DNA_family_or_group denotes sequence motifs
T12 412-442 protein_family_or_group denotes specific transcription factors
T13 449-461 DNA_domain_or_region denotes binding site
T14 505-513 DNA_domain_or_region denotes enhancer
T15 615-638 DNA_domain_or_region denotes Ig heavy chain enhancer
T16 690-707 DNA_family_or_group denotes sequence elements
T17 751-768 DNA_domain_or_region denotes E3 enhancer motif
T18 770-778 polynucleotide denotes CATGTGGC
T19 785-816 protein_family_or_group denotes ubiquitous transcription factor
T20 858-865 cell_type denotes B cells
T21 870-874 cell_type denotes non-
T22 874-881 cell_type denotes B cells
T23 904-930 other_name denotes transcriptional activation
T24 994-1007 other_name denotes transcription
T25 1013-1038 DNA_family_or_group denotes transfected reporter gene
T26 1087-1097 DNA_domain_or_region denotes endogenous
T27 1098-1121 DNA_domain_or_region denotes Ig heavy chain enhancer
T28 1125-1129 cell_type denotes non-
T29 1129-1143 cell_type denotes lymphoid cells
T30 1244-1251 protein_molecule denotes NF-muE3
T31 1269-1276 cell_type denotes B cells
T32 1288-1299 cell_type denotes non-B cells
T33 1416-1434 other_name denotes cell-type-specific
T34 1435-1448 other_name denotes transcription
T35 1452-1453 cell_type denotes B
T36 1454-1465 cell_type denotes lymphocytes
T37 1471-1492 protein_family_or_group denotes cell-specific factors
T38 1501-1507 protein_molecule denotes Oct-2A
T39 1512-1518 protein_molecule denotes Oct-2B
T40 1572-1590 protein_family_or_group denotes ubiquitous factors
T41 1599-1609 protein_molecule denotes NF-kappa B
T42 1644-1651 cell_type denotes B cells
T43 1712-1739 protein_family_or_group denotes ubiquitously active factors
T44 1779-1796 DNA_domain_or_region denotes E3 sequence motif
T45 1906-1916 DNA_domain_or_region denotes endogenous
T46 1917-1940 DNA_domain_or_region denotes Ig heavy chain enhancer
T47 1944-1955 cell_type denotes non-B cells
T48 1974-1988 other_name denotes non-permissive
T49 1989-1998 DNA_family_or_group denotes chromatin
T50 2016-2036 DNA_domain_or_region denotes Ig heavy chain locus