PubMed:9852310 JSONTXT

{"project":"jnlpba-st-training","denotations":[{"id":"T1","span":{"begin":196,"end":227},"obj":"protein"},{"id":"T2","span":{"begin":233,"end":260},"obj":"DNA"},{"id":"T3","span":{"begin":272,"end":298},"obj":"DNA"},{"id":"T4","span":{"begin":300,"end":303},"obj":"DNA"},{"id":"T5","span":{"begin":384,"end":415},"obj":"DNA"},{"id":"T6","span":{"begin":423,"end":432},"obj":"DNA"},{"id":"T7","span":{"begin":440,"end":443},"obj":"DNA"},{"id":"T8","span":{"begin":458,"end":461},"obj":"protein"},{"id":"T9","span":{"begin":466,"end":475},"obj":"protein"},{"id":"T10","span":{"begin":476,"end":489},"obj":"DNA"},{"id":"T11","span":{"begin":549,"end":578},"obj":"DNA"},{"id":"T12","span":{"begin":580,"end":586},"obj":"DNA"},{"id":"T13","span":{"begin":612,"end":636},"obj":"DNA"},{"id":"T14","span":{"begin":644,"end":663},"obj":"DNA"},{"id":"T15","span":{"begin":742,"end":763},"obj":"protein"},{"id":"T16","span":{"begin":891,"end":897},"obj":"DNA"},{"id":"T17","span":{"begin":907,"end":920},"obj":"DNA"},{"id":"T18","span":{"begin":929,"end":950},"obj":"protein"},{"id":"T19","span":{"begin":957,"end":966},"obj":"protein"},{"id":"T20","span":{"begin":968,"end":973},"obj":"protein"},{"id":"T21","span":{"begin":975,"end":978},"obj":"protein"},{"id":"T22","span":{"begin":984,"end":987},"obj":"protein"},{"id":"T23","span":{"begin":1008,"end":1021},"obj":"DNA"},{"id":"T24","span":{"begin":1097,"end":1100},"obj":"DNA"},{"id":"T25","span":{"begin":1151,"end":1157},"obj":"DNA"},{"id":"T26","span":{"begin":1189,"end":1199},"obj":"protein"},{"id":"T27","span":{"begin":1304,"end":1348},"obj":"DNA"},{"id":"T28","span":{"begin":1356,"end":1362},"obj":"DNA"},{"id":"T29","span":{"begin":1374,"end":1400},"obj":"DNA"},{"id":"T30","span":{"begin":1459,"end":1471},"obj":"DNA"},{"id":"T31","span":{"begin":1594,"end":1625},"obj":"protein"},{"id":"T32","span":{"begin":1649,"end":1655},"obj":"DNA"}],"text":"Human immunodeficiency virus type-1 transcription: role of the 5'-untranslated leader region (review).\nHuman immunodeficiency virus type-1 (HIV-1) transcription is dependent on the interaction of host-cell transcription factors with cis-regulatory DNA elements within the viral long terminal repeat (LTR). Much attention has focused on the series of sequence elements upstream of the transcriptional initiation site in the U3 region of the LTR including the Sp1 and NF-kappaB binding sites. Recent studies, however, demonstrate that the transcribed 5'-untranslated leader region (5'-UTR) also contains important transcriptional elements. These regulatory elements situated downstream of transcription interact with constitutive and inducible transcription factors, mediate transmission of cellular activation signals, and are important for efficient HIV-1 transcription and replication. The 5'-UTR contains binding sites for the transcription factors AP-1, NF-kappaB, NF-AT, IRF, and Sp1. Mutations in these binding sites can interfere with the viral response to cell activation signals, decrease LTR transcription, and inhibit viral replication. The 5'-UTR also interacts with a specific nucleosome that is rapidly displaced during transcriptional activation of the latent provirus. We propose that the inducible transcription factor binding sites in the 5'-UTR comprise a downstream enhancer domain that can function independent of, or in concert with, the LTR promoter to rapidly increase latent proviral transcription in response to cell activation signals. In this review, we describe the host-cell transcription factors that interact with the 5'-UTR and discuss their role in the transcriptional regulation of HIV-1 gene expression."}

{"project":"pubmed-sentences-benchmark","denotations":[{"id":"S1","span":{"begin":0,"end":102},"obj":"Sentence"},{"id":"S2","span":{"begin":103,"end":305},"obj":"Sentence"},{"id":"S3","span":{"begin":306,"end":490},"obj":"Sentence"},{"id":"S4","span":{"begin":491,"end":637},"obj":"Sentence"},{"id":"S5","span":{"begin":638,"end":886},"obj":"Sentence"},{"id":"S6","span":{"begin":887,"end":988},"obj":"Sentence"},{"id":"S7","span":{"begin":989,"end":1146},"obj":"Sentence"},{"id":"S8","span":{"begin":1147,"end":1283},"obj":"Sentence"},{"id":"S9","span":{"begin":1284,"end":1561},"obj":"Sentence"},{"id":"S10","span":{"begin":1562,"end":1738},"obj":"Sentence"}],"text":"Human immunodeficiency virus type-1 transcription: role of the 5'-untranslated leader region (review).\nHuman immunodeficiency virus type-1 (HIV-1) transcription is dependent on the interaction of host-cell transcription factors with cis-regulatory DNA elements within the viral long terminal repeat (LTR). Much attention has focused on the series of sequence elements upstream of the transcriptional initiation site in the U3 region of the LTR including the Sp1 and NF-kappaB binding sites. Recent studies, however, demonstrate that the transcribed 5'-untranslated leader region (5'-UTR) also contains important transcriptional elements. These regulatory elements situated downstream of transcription interact with constitutive and inducible transcription factors, mediate transmission of cellular activation signals, and are important for efficient HIV-1 transcription and replication. The 5'-UTR contains binding sites for the transcription factors AP-1, NF-kappaB, NF-AT, IRF, and Sp1. Mutations in these binding sites can interfere with the viral response to cell activation signals, decrease LTR transcription, and inhibit viral replication. The 5'-UTR also interacts with a specific nucleosome that is rapidly displaced during transcriptional activation of the latent provirus. We propose that the inducible transcription factor binding sites in the 5'-UTR comprise a downstream enhancer domain that can function independent of, or in concert with, the LTR promoter to rapidly increase latent proviral transcription in response to cell activation signals. In this review, we describe the host-cell transcription factors that interact with the 5'-UTR and discuss their role in the transcriptional regulation of HIV-1 gene expression."}

{"project":"genia-medco-coref","denotations":[{"id":"C1","span":{"begin":0,"end":49},"obj":"NP"},{"id":"C2","span":{"begin":59,"end":92},"obj":"NP"},{"id":"C3","span":{"begin":103,"end":160},"obj":"NP"},{"id":"C4","span":{"begin":196,"end":227},"obj":"NP"},{"id":"C5","span":{"begin":268,"end":304},"obj":"NP"},{"id":"C6","span":{"begin":436,"end":443},"obj":"NP"},{"id":"C7","span":{"begin":533,"end":587},"obj":"NP"},{"id":"C8","span":{"begin":602,"end":636},"obj":"NP"},{"id":"C9","span":{"begin":638,"end":663},"obj":"NP"},{"id":"C10","span":{"begin":887,"end":897},"obj":"NP"},{"id":"C11","span":{"begin":907,"end":987},"obj":"NP"},{"id":"C12","span":{"begin":1002,"end":1021},"obj":"NP"},{"id":"C13","span":{"begin":1147,"end":1157},"obj":"NP"},{"id":"C14","span":{"begin":1178,"end":1199},"obj":"NP"},{"id":"C15","span":{"begin":1200,"end":1204},"obj":"NP"},{"id":"C16","span":{"begin":1352,"end":1362},"obj":"NP"},{"id":"C17","span":{"begin":1372,"end":1400},"obj":"NP"},{"id":"C18","span":{"begin":1401,"end":1405},"obj":"NP"},{"id":"C20","span":{"begin":1590,"end":1625},"obj":"NP"},{"id":"C21","span":{"begin":1626,"end":1630},"obj":"NP"},{"id":"C22","span":{"begin":1645,"end":1655},"obj":"NP"},{"id":"C19","span":{"begin":1590,"end":1655},"obj":"NP"},{"id":"C23","span":{"begin":1668,"end":1673},"obj":"NP"}],"relations":[{"id":"R1","pred":"coref-ident","subj":"C3","obj":"C1"},{"id":"R2","pred":"coref-ident","subj":"C6","obj":"C5"},{"id":"R3","pred":"coref-ident","subj":"C7","obj":"C2"},{"id":"R4","pred":"coref-ident","subj":"C9","obj":"C8"},{"id":"R5","pred":"coref-ident","subj":"C10","obj":"C7"},{"id":"R6","pred":"coref-ident","subj":"C12","obj":"C11"},{"id":"R7","pred":"coref-ident","subj":"C13","obj":"C10"},{"id":"R8","pred":"coref-relat","subj":"C15","obj":"C14"},{"id":"R9","pred":"coref-ident","subj":"C16","obj":"C13"},{"id":"R10","pred":"coref-relat","subj":"C18","obj":"C17"},{"id":"R11","pred":"coref-ident","subj":"C20","obj":"C4"},{"id":"R12","pred":"coref-relat","subj":"C21","obj":"C20"},{"id":"R13","pred":"coref-ident","subj":"C22","obj":"C16"},{"id":"R14","pred":"coref-pron","subj":"C23","obj":"C19"}],"text":"Human immunodeficiency virus type-1 transcription: role of the 5'-untranslated leader region (review).\nHuman immunodeficiency virus type-1 (HIV-1) transcription is dependent on the interaction of host-cell transcription factors with cis-regulatory DNA elements within the viral long terminal repeat (LTR). Much attention has focused on the series of sequence elements upstream of the transcriptional initiation site in the U3 region of the LTR including the Sp1 and NF-kappaB binding sites. Recent studies, however, demonstrate that the transcribed 5'-untranslated leader region (5'-UTR) also contains important transcriptional elements. These regulatory elements situated downstream of transcription interact with constitutive and inducible transcription factors, mediate transmission of cellular activation signals, and are important for efficient HIV-1 transcription and replication. The 5'-UTR contains binding sites for the transcription factors AP-1, NF-kappaB, NF-AT, IRF, and Sp1. Mutations in these binding sites can interfere with the viral response to cell activation signals, decrease LTR transcription, and inhibit viral replication. The 5'-UTR also interacts with a specific nucleosome that is rapidly displaced during transcriptional activation of the latent provirus. We propose that the inducible transcription factor binding sites in the 5'-UTR comprise a downstream enhancer domain that can function independent of, or in concert with, the LTR promoter to rapidly increase latent proviral transcription in response to cell activation signals. In this review, we describe the host-cell transcription factors that interact with the 5'-UTR and discuss their role in the transcriptional regulation of HIV-1 gene expression."}

{"project":"GENIAcorpus","denotations":[{"id":"T1","span":{"begin":0,"end":35},"obj":"virus"},{"id":"T2","span":{"begin":103,"end":138},"obj":"virus"},{"id":"T3","span":{"begin":140,"end":145},"obj":"virus"},{"id":"T4","span":{"begin":196,"end":205},"obj":"protein_family_or_group"},{"id":"T5","span":{"begin":206,"end":227},"obj":"protein_family_or_group"},{"id":"T6","span":{"begin":233,"end":260},"obj":"DNA_family_or_group"},{"id":"T7","span":{"begin":272,"end":298},"obj":"DNA_domain_or_region"},{"id":"T8","span":{"begin":300,"end":303},"obj":"DNA_domain_or_region"},{"id":"T9","span":{"begin":384,"end":415},"obj":"DNA_domain_or_region"},{"id":"T10","span":{"begin":423,"end":432},"obj":"DNA_domain_or_region"},{"id":"T11","span":{"begin":440,"end":443},"obj":"DNA_domain_or_region"},{"id":"T12","span":{"begin":458,"end":461},"obj":"protein_molecule"},{"id":"T13","span":{"begin":466,"end":475},"obj":"protein_complex"},{"id":"T14","span":{"begin":476,"end":489},"obj":"DNA_domain_or_region"},{"id":"T15","span":{"begin":549,"end":578},"obj":"DNA_domain_or_region"},{"id":"T16","span":{"begin":580,"end":586},"obj":"DNA_domain_or_region"},{"id":"T17","span":{"begin":612,"end":636},"obj":"DNA_family_or_group"},{"id":"T18","span":{"begin":644,"end":663},"obj":"DNA_family_or_group"},{"id":"T19","span":{"begin":742,"end":763},"obj":"protein_family_or_group"},{"id":"T20","span":{"begin":789,"end":816},"obj":"other_name"},{"id":"T21","span":{"begin":850,"end":855},"obj":"virus"},{"id":"T22","span":{"begin":874,"end":885},"obj":"other_name"},{"id":"T23","span":{"begin":891,"end":897},"obj":"DNA_domain_or_region"},{"id":"T24","span":{"begin":907,"end":920},"obj":"DNA_domain_or_region"},{"id":"T25","span":{"begin":929,"end":950},"obj":"protein_family_or_group"},{"id":"T26","span":{"begin":957,"end":966},"obj":"protein_complex"},{"id":"T27","span":{"begin":968,"end":973},"obj":"protein_molecule"},{"id":"T28","span":{"begin":975,"end":978},"obj":"protein_molecule"},{"id":"T29","span":{"begin":984,"end":987},"obj":"protein_molecule"},{"id":"T30","span":{"begin":1008,"end":1021},"obj":"DNA_domain_or_region"},{"id":"T31","span":{"begin":1063,"end":1086},"obj":"other_name"},{"id":"T32","span":{"begin":1097,"end":1100},"obj":"DNA_domain_or_region"},{"id":"T33","span":{"begin":1128,"end":1145},"obj":"other_name"},{"id":"T34","span":{"begin":1151,"end":1157},"obj":"DNA_domain_or_region"},{"id":"T35","span":{"begin":1189,"end":1199},"obj":"protein_complex"},{"id":"T36","span":{"begin":1233,"end":1259},"obj":"other_name"},{"id":"T37","span":{"begin":1267,"end":1282},"obj":"virus"},{"id":"T38","span":{"begin":1304,"end":1334},"obj":"DNA_domain_or_region"},{"id":"T39","span":{"begin":1335,"end":1348},"obj":"DNA_domain_or_region"},{"id":"T40","span":{"begin":1356,"end":1362},"obj":"DNA_domain_or_region"},{"id":"T41","span":{"begin":1374,"end":1400},"obj":"DNA_domain_or_region"},{"id":"T42","span":{"begin":1459,"end":1462},"obj":"DNA_domain_or_region"},{"id":"T43","span":{"begin":1537,"end":1560},"obj":"other_name"},{"id":"T44","span":{"begin":1594,"end":1603},"obj":"protein_family_or_group"},{"id":"T45","span":{"begin":1604,"end":1625},"obj":"protein_family_or_group"},{"id":"T46","span":{"begin":1649,"end":1655},"obj":"DNA_domain_or_region"},{"id":"T47","span":{"begin":1686,"end":1712},"obj":"other_name"},{"id":"T48","span":{"begin":1716,"end":1721},"obj":"virus"}],"text":"Human immunodeficiency virus type-1 transcription: role of the 5'-untranslated leader region (review).\nHuman immunodeficiency virus type-1 (HIV-1) transcription is dependent on the interaction of host-cell transcription factors with cis-regulatory DNA elements within the viral long terminal repeat (LTR). Much attention has focused on the series of sequence elements upstream of the transcriptional initiation site in the U3 region of the LTR including the Sp1 and NF-kappaB binding sites. Recent studies, however, demonstrate that the transcribed 5'-untranslated leader region (5'-UTR) also contains important transcriptional elements. These regulatory elements situated downstream of transcription interact with constitutive and inducible transcription factors, mediate transmission of cellular activation signals, and are important for efficient HIV-1 transcription and replication. The 5'-UTR contains binding sites for the transcription factors AP-1, NF-kappaB, NF-AT, IRF, and Sp1. Mutations in these binding sites can interfere with the viral response to cell activation signals, decrease LTR transcription, and inhibit viral replication. The 5'-UTR also interacts with a specific nucleosome that is rapidly displaced during transcriptional activation of the latent provirus. We propose that the inducible transcription factor binding sites in the 5'-UTR comprise a downstream enhancer domain that can function independent of, or in concert with, the LTR promoter to rapidly increase latent proviral transcription in response to cell activation signals. In this review, we describe the host-cell transcription factors that interact with the 5'-UTR and discuss their role in the transcriptional regulation of HIV-1 gene expression."}