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PubMed:9765424 JSONTXT

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jnlpba-st-training

Id Subject Object Predicate Lexical cue
T1 0-12 DNA denotes CD4 promoter
T2 113-121 DNA denotes CD4 gene
T3 154-166 cell_line denotes CD4(-) cells
T4 634-658 DNA denotes reporter gene constructs
T5 673-685 DNA denotes CD4 promoter
T6 743-759 DNA denotes genetic elements
T7 779-791 DNA denotes CD4 promoter
T8 906-954 DNA denotes immediate-early and early classes of viral genes
T9 992-1012 DNA denotes CD4 promoter mutants
T10 1031-1051 DNA denotes ATF/CRE binding site
T11 1063-1094 DNA denotes nucleotides -67 to -60 upstream
T12 1102-1135 DNA denotes CD4 gene transcription start site
T13 1185-1197 DNA denotes ATF/CRE site
T14 1220-1232 DNA denotes CD4 promoter
T15 1377-1383 protein denotes CREB-1
T16 1410-1427 DNA denotes -79 to -52 region
T17 1435-1447 DNA denotes CD4 promoter
T18 1478-1497 DNA denotes open reading frames
T19 1499-1503 DNA denotes ORFs
T20 1515-1518 DNA denotes U86
T21 1523-1526 DNA denotes U89
T22 1588-1600 DNA denotes CD4 promoter
T23 1604-1614 cell_line denotes HeLa cells
T24 1648-1660 DNA denotes CD4 promoter
T25 1664-1668 DNA denotes ORFs
T26 1669-1672 DNA denotes U86
T27 1677-1680 DNA denotes U89
T28 1703-1714 DNA denotes CRE element
T29 1743-1753 DNA denotes HHV-6 ORFs
T30 1782-1790 DNA denotes CD4 gene
T31 1912-1924 DNA denotes CD4 promoter
T32 1983-2004 protein denotes transcription factors
T33 2032-2040 DNA denotes CD4 gene

pubmed-sentences-benchmark

Id Subject Object Predicate Lexical cue
S1 0-52 Sentence denotes CD4 promoter transactivation by human herpesvirus 6.
S2 53-555 Sentence denotes The observation that human herpesvirus 6 (HHV-6) can induce CD4 gene transcription and expression in CD4(-) cells was reported several years ago (P. Lusso, A. De Maria, M. Malnati, F. Lori, S. E. DeRocco, M. Baseler, and R. C. Gallo, Nature 349:533-535, 1991) and subsequently confirmed (P. Lusso, M. S. Malnati, A. Garzino-Demo, R. W. Crowley, E. O. Long, and R. C. Gallo, Nature 362:458-462, 1993; G. Furlini, M. Vignoli, E. Ramazzotti, M. C. Re, G. Visani, and M. LaPlaca, Blood 87:4737-4745, 1996).
S3 556-627 Sentence denotes Our objective was to identify the mechanisms underlying such phenomena.
S4 628-760 Sentence denotes Using reporter gene constructs driven by the CD4 promoter, we report that HHV-6 can efficiently transactivate such genetic elements.
S5 761-955 Sentence denotes Activation of the CD4 promoter occurs in the presence of the viral DNA polymerase inhibitor phosphonoformic acid, which limits expression to the immediate-early and early classes of viral genes.
S6 956-1180 Sentence denotes Using deletion mutants and specific CD4 promoter mutants, we identified an ATF/CRE binding site located at nucleotides -67 to -60 upstream of the CD4 gene transcription start site that is important for HHV-6 transactivation.
S7 1181-1292 Sentence denotes The ATF/CRE site is also essential for CD4 promoter activation by forskolin, an activator of adenylate cyclase.
S8 1293-1448 Sentence denotes Using electrophoretic mobility shift assays and specific antibodies, we showed that CREB-1 binds specifically to the -79 to -52 region of the CD4 promoter.
S9 1449-1615 Sentence denotes Last, we have identified two open reading frames (ORFs) of HHV-6, U86 and U89 from the immediate-early locus A, that can transactivate the CD4 promoter in HeLa cells.
S10 1616-1802 Sentence denotes However, transactivation of the CD4 promoter by ORFs U86 and U89 is independent of the CRE element, suggesting that additional HHV-6 ORFs are likely to contribute to CD4 gene activation.
S11 1803-2052 Sentence denotes Taken together, our results will help to understand the complex interactions occurring between HHV-6 and the CD4 promoter and provide additional information regarding the class of transcription factors involved in the control of CD4 gene expression.

genia-medco-coref

Id Subject Object Predicate Lexical cue
C1 32-51 NP denotes human herpesvirus 6
C2 74-101 NP denotes human herpesvirus 6 (HHV-6)
C3 669-685 NP denotes the CD4 promoter
C4 702-707 NP denotes HHV-6
C5 775-791 NP denotes the CD4 promoter
C6 818-873 NP denotes the viral DNA polymerase inhibitor phosphonoformic acid
C7 875-880 NP denotes which
C9 1098-1135 NP denotes the CD4 gene transcription start site
C10 1136-1140 NP denotes that
C8 1028-1179 NP denotes an ATF/CRE binding site located at nucleotides -67 to -60 upstream of the CD4 gene transcription start site that is important for HHV-6 transactivation
C11 1181-1197 NP denotes The ATF/CRE site
C12 1247-1256 NP denotes forskolin
C13 1258-1291 NP denotes an activator of adenylate cyclase
C14 1431-1447 NP denotes the CD4 promoter
C16 1508-1513 NP denotes HHV-6
C15 1474-1513 NP denotes two open reading frames (ORFs) of HHV-6
C17 1515-1559 NP denotes U86 and U89 from the immediate-early locus A
C18 1561-1565 NP denotes that
C19 1584-1600 NP denotes the CD4 promoter
C20 1644-1660 NP denotes the CD4 promoter
C21 1664-1680 NP denotes ORFs U86 and U89
C22 1898-1903 NP denotes HHV-6
C23 1908-1924 NP denotes the CD4 promoter
R1 C2 C1 coref-ident human herpesvirus 6 (HHV-6),human herpesvirus 6
R2 C4 C2 coref-ident HHV-6,human herpesvirus 6 (HHV-6)
R3 C5 C3 coref-ident the CD4 promoter,the CD4 promoter
R4 C7 C6 coref-relat which,the viral DNA polymerase inhibitor phosphonoformic acid
R5 C10 C9 coref-relat that,the CD4 gene transcription start site
R6 C11 C8 coref-ident The ATF/CRE site,an ATF/CRE binding site located at nucleotides -67 to -60 upstream of the CD4 gene transcription start site that is important for HHV-6 transactivation
R7 C13 C12 coref-appos an activator of adenylate cyclase,forskolin
R8 C14 C5 coref-ident the CD4 promoter,the CD4 promoter
R9 C16 C4 coref-ident HHV-6,HHV-6
R10 C17 C15 coref-appos U86 and U89 from the immediate-early locus A,two open reading frames (ORFs) of HHV-6
R11 C18 C15 coref-relat that,two open reading frames (ORFs) of HHV-6
R12 C19 C14 coref-ident the CD4 promoter,the CD4 promoter
R13 C20 C19 coref-ident the CD4 promoter,the CD4 promoter
R14 C21 C15 coref-ident ORFs U86 and U89,two open reading frames (ORFs) of HHV-6
R15 C22 C16 coref-ident HHV-6,HHV-6
R16 C23 C20 coref-ident the CD4 promoter,the CD4 promoter

GENIAcorpus

Id Subject Object Predicate Lexical cue
T1 0-12 DNA_domain_or_region denotes CD4 promoter
T2 32-51 virus denotes human herpesvirus 6
T3 74-93 virus denotes human herpesvirus 6
T4 95-100 virus denotes HHV-6
T5 113-121 DNA_domain_or_region denotes CD4 gene
T6 154-166 cell_line denotes CD4(-) cells
T7 634-658 DNA_family_or_group denotes reporter gene constructs
T8 673-685 DNA_domain_or_region denotes CD4 promoter
T9 702-707 virus denotes HHV-6
T10 743-759 DNA_family_or_group denotes genetic elements
T11 779-791 DNA_domain_or_region denotes CD4 promoter
T12 828-852 other_organic_compound denotes DNA polymerase inhibitor
T13 853-873 other_organic_compound denotes phosphonoformic acid
T14 992-1004 DNA_domain_or_region denotes CD4 promoter
T15 1031-1051 DNA_domain_or_region denotes ATF/CRE binding site
T16 1063-1094 DNA_domain_or_region denotes nucleotides -67 to -60 upstream
T17 1102-1110 DNA_domain_or_region denotes CD4 gene
T18 1158-1163 virus denotes HHV-6
T19 1185-1197 DNA_domain_or_region denotes ATF/CRE site
T20 1220-1232 DNA_domain_or_region denotes CD4 promoter
T21 1274-1291 other_name denotes adenylate cyclase
T22 1299-1336 other_name denotes electrophoretic mobility shift assays
T23 1377-1383 protein_molecule denotes CREB-1
T24 1410-1427 DNA_domain_or_region denotes -79 to -52 region
T25 1435-1447 DNA_domain_or_region denotes CD4 promoter
T26 1478-1497 DNA_family_or_group denotes open reading frames
T27 1499-1503 DNA_family_or_group denotes ORFs
T28 1508-1513 virus denotes HHV-6
T29 1515-1518 DNA_domain_or_region denotes U86
T30 1523-1526 DNA_domain_or_region denotes U89
T31 1588-1600 DNA_domain_or_region denotes CD4 promoter
T32 1604-1614 cell_line denotes HeLa cells
T33 1648-1660 DNA_domain_or_region denotes CD4 promoter
T34 1664-1668 DNA_family_or_group denotes ORFs
T35 1669-1672 DNA_domain_or_region denotes U86
T36 1677-1680 DNA_domain_or_region denotes U89
T37 1703-1714 DNA_domain_or_region denotes CRE element
T38 1743-1748 virus denotes HHV-6
T39 1782-1790 DNA_domain_or_region denotes CD4 gene
T40 1898-1903 virus denotes HHV-6
T41 1912-1924 DNA_domain_or_region denotes CD4 promoter
T42 1983-2004 protein_family_or_group denotes transcription factors
T43 2032-2040 DNA_domain_or_region denotes CD4 gene