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Regulation of gene expression via the core promoter and the basal transcriptional machinery
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“The TFIID complex consists of the TATA-binding protein (TBP) and a variety of TBP-associated factors (TAFs)”
From Histone deacetylase 1 activates PU.1 gene transcription through regulating TAF9 deacetylation and transcription factor IID assembly (2017) · cites this paper as [27]
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Gapped BLAST and PSI-BLAST: a new generation of protein database search programs
Altschul, S. (1997) · Nucleic Acids Research · doi:10.1093/nar/25.17.3389 · Cited by 73,302
Genome-wide analysis of mammalian promoter architecture and evolution
Carninci, P., Sandelin, A., Lenhard, B., Katayama, S., Shimokawa, K., Ponjavic, J., Semple, C. A. M., Taylor, M. S., Engström, P. G., Frith, M. C., et al. (2006) · Nature Genetics · doi:10.1038/ng1789 · Cited by 1,350
Transcription regulation and animal diversity
Levine, M., & Tjian, R. (2003) · Nature · doi:10.1038/nature01763 · Cited by 1,309
A Global Map of p53 Transcription-Factor Binding Sites in the Human Genome
Wei, C.-L., Wu, Q., Vega, V. B., Chiu, K. P., Ng, P., Zhang, T., Shahab, A., Yong, H. C., Fu, Y., Weng, Z., et al. (2006) · Cell · doi:10.1016/j.cell.2005.10.043 · Cited by 1,141
Cawley, S., Bekiranov, S., Ng, H. H., Kapranov, P., Sekinger, E. A., Kampa, D., Piccolboni, A., Sementchenko, V., Cheng, J., Williams, A. J., et al. (2004) · Cell · doi:10.1016/s0092-8674(04)00127-8 · Cited by 1,095
Murrell, A., Heeson, S., & Reik, W. (2004) · Nature Genetics · doi:10.1038/ng1402 · Cited by 556
Genomic mapping of RNA polymerase II reveals sites of co-transcriptional regulation in human cells
Brodsky, A. S., Meyer, C. A., Swinburne, I. A., Hall, G., Keenan, B. J., Liu, X. S., Fox, E. A., & Silver, P. A. (2005) · Genome Biology · doi:10.1186/gb-2005-6-8-r64 · Cited by 94
Research works printed but not linked: 52
- Bártfai, 2004, TBP2, a vertebrate-specific member of the TBP family, is required in embryonic development of zebrafish, Curr. Biol., 14, 593, 10.1016/j.cub.2004.03.034 · DOI
- Burke, 1996, Drosophila TFIID binds to a conserved downstream basal promoter element that is present in many TATA-box-deficient promoters, Genes Dev., 10, 711, 10.1101/gad.10.6.711 · DOI
- Burke, 1997, The downstream core promoter element, DPE, is conserved from Drosophila to humans and is recognized by TAFII60 of Drosophila, Genes Dev., 11, 3020, 10.1101/gad.11.22.3020 · DOI · Paper page
- Butler, 2001, Enhancer–promoter specificity mediated by DPE or TATA core promoter motifs, Genes Dev., 15, 2515, 10.1101/gad.924301 · DOI · Paper page
- Butler, 2002, The RNA polymerase II core promoter: a key component in the regulation of gene expression, Genes Dev., 16, 2583, 10.1101/gad.1026202 · DOI
- Chalkley, 1999, DNA binding site selection by RNA polymerase II TAFs: a TAF(II)250–TAF(II)150 complex recognizes the initiator, EMBO J., 18, 4835, 10.1093/emboj/18.17.4835 · DOI
- Cooper, 2006, Comprehensive analysis of transcriptional promoter structure and function in 1% of the human genome, Genome Res., 16, 1, 10.1101/gr.4222606 · DOI
- Deato, 2007, Switching of the core transcription machinery during myogenesis, Genes Dev., 21, 2137, 10.1101/gad.1583407 · DOI
- Deato, 2008, MyoD targets TAF3/TRF3 to activate myogenin transcription, Mol. Cell, 32, 96, 10.1016/j.molcel.2008.09.009 · DOI
- Deng, 2005, A core promoter element downstream of the TATA box that is recognized by TFIIB, Genes Dev., 19, 2418, 10.1101/gad.342405 · DOI
- Deng, 2007, TFIIB and the regulation of transcription by RNA polymerase II, Chromosoma, 116, 417, 10.1007/s00412-007-0113-9 · DOI
- Evans, 2001, Activator-mediated disruption of sequence-specific DNA contacts by the general transcription factor TFIIB, Genes Dev., 15, 2945, 10.1101/gad.206901 · DOI
- FitzGerald, 2006, Comparative genomics of Drosophila and human core promoters, Genome Biol., 7, R53, 10.1186/gb-2006-7-7-r53 · DOI
- Frith, 2008, A code for transcription initiation in mammalian genomes, Genome Res., 18, 1, 10.1101/gr.6831208 · DOI
- Gershenzon, 2006, The features of Drosophila core promoters revealed by statistical analysis, BMC Genomics, 7, 161, 10.1186/1471-2164-7-161 · DOI
- Goldberg, M.L., 1979. Ph.D. Thesis, Stanford University, Stanford, CA, U.S.A.
- Hart, 2007, Initiation of zebrafish haematopoiesis by the TATA-box-binding protein-related factor Trf3, Nature, 450, 1082, 10.1038/nature06349 · DOI
- Heintzman, 2007, The gateway to transcription: identifying, characterizing and understanding promoters in the eukaryotic genome, Cell. Mol. Life Sci., 64, 386, 10.1007/s00018-006-6295-0 · DOI
- Hsu, 2008, TBP, Mot1, and NC2 establish a regulatory circuit that controls DPE-dependent versus TATA-dependent transcription, Genes Dev., 22, 2353, 10.1101/gad.1681808 · DOI
- Isogai, 2007, Transcription of histone gene cluster by differential core-promoter factors, Genes Dev., 21, 2936, 10.1101/gad.1608807 · DOI
- Jallow, 2004, Specialized and redundant roles of TBP and a vertebrate-specific TBP paralog in embryonic gene regulation in Xenopus, Proc. Natl. Acad. Sci. U. S. A., 101, 13525, 10.1073/pnas.0405536101 · DOI
- Jones, 2007, Transcription strategies in terminally differentiated cells: shaken to the core, Genes Dev., 21, 2113, 10.1101/gad.1598007 · DOI
- Juven-Gershon, 2006, Perspectives on the RNA polymerase II core promoter, Biochem. Soc. Trans., 34, 1047, 10.1042/BST0341047 · DOI
- Juven-Gershon, 2006, Rational design of a super core promoter that enhances gene expression, Nat. Methods, 3, 917, 10.1038/nmeth937 · DOI
- Juven-Gershon, 2008, Caudal, a key developmental regulator, is a DPE-specific transcriptional factor, Genes Dev., 22, 2823, 10.1101/gad.1698108 · DOI
- Juven-Gershon, 2008, The RNA polymerase II core promoter – the gateway to transcription, Curr. Opin. Cell Biol., 20, 253, 10.1016/j.ceb.2008.03.003 · DOI · Paper page
- Kim, 2005, A high-resolution map of active promoters in the human genome, Nature, 436, 876, 10.1038/nature03877 · DOI
- Kutach, 2000, The downstream promoter element DPE appears to be as widely used as the TATA box in Drosophila core promoters, Mol. Cell. Biol., 20, 4754, 10.1128/MCB.20.13.4754-4764.2000 · DOI
- Lagrange, 1998, New core promoter element in RNA polymerase II-dependent transcription: sequence-specific DNA binding by transcription factor IIB, Genes Dev., 12, 34, 10.1101/gad.12.1.34 · DOI
- Lewis, 2005, Functional characterization of core promoter elements: DPE-specific transcription requires the protein kinase CK2 and the PC4 coactivator, Mol. Cell, 18, 471, 10.1016/j.molcel.2005.04.005 · DOI
- Lim, 2004, The MTE, a new core promoter element for transcription by RNA polymerase II, Genes Dev., 18, 1606, 10.1101/gad.1193404 · DOI
- Molina, 2005, Genome wide analysis of Arabidopsis core promoters, BMC Genomics, 6, 25, 10.1186/1471-2164-6-25 · DOI
- Müller, 2007, New problems in RNA polymerase II transcription initiation: matching the diversity of core promoters with a variety of promoter recognition factors, J. Biol. Chem., 282, 14685, 10.1074/jbc.R700012200 · DOI
- Ohler, 2002, Computational analysis of core promoters in the Drosophila genome, Genome Biol., 3, 10.1186/gb-2002-3-12-research0087 · DOI
- Ohtsuki, 1998, Different core promoters possess distinct regulatory activities in the Drosophila embryo, Genes Dev., 12, 547, 10.1101/gad.12.4.547 · DOI
- Pfeiffer, 2008, Tools for neuroanatomy and neurogenetics in Drosophila, Proc. Natl. Acad. Sci. U. S. A., 105, 9715, 10.1073/pnas.0803697105 · DOI
- Ponjavic, 2006, Transcriptional and structural impact of TATA-initiation site spacing in mammalian core promoters, Genome Biol., 7, R78, 10.1186/gb-2006-7-8-r78 · DOI
- Purnell, 1994, TFIID sequence recognition of the initiator and sequences farther downstream in Drosophila class II genes, Genes Dev., 8, 830, 10.1101/gad.8.7.830 · DOI
- Reeve, 2003, Archaeal chromatin and transcription, Mol. Microbiol., 48, 587, 10.1046/j.1365-2958.2003.03439.x · DOI
- Reina, 2007, On a roll for new TRF targets, Genes Dev., 21, 2855, 10.1101/gad.1623207 · DOI
- Sandelin, 2007, Mammalian RNA polymerase II core promoters: insights from genome-wide studies, Nat. Rev. Genet., 8, 424, 10.1038/nrg2026 · DOI
- Smale, 2001, Core promoters: active contributors to combinatorial gene regulation, Genes Dev., 15, 2503, 10.1101/gad.937701 · DOI
- Smale, 1989, The “initiator” as a transcription control element, Cell, 57, 103, 10.1016/0092-8674(89)90176-1 · DOI
- Smale, 2003, The RNA polymerase II core promoter, Annu. Rev. Biochem., 72, 449, 10.1146/annurev.biochem.72.121801.161520 · DOI
- Takada, 2000, A TRF1:BRF complex directs Drosophila RNA polymerase III transcription, Cell, 101, 459, 10.1016/S0092-8674(00)80857-0 · DOI
- Thomas, 2006, The general transcription machinery and general cofactors, Crit. Rev. Biochem. Mol. Biol., 41, 105, 10.1080/10409230600648736 · DOI
- Torres-Padilla, 2007, TBP homologues in embryo transcription: who does what?, EMBO Rep., 8, 1016, 10.1038/sj.embor.7401093 · DOI
- van Werven, 2008, Cooperative action of NC2 and Mot1p to regulate TATA-binding protein function across the genome, Genes Dev., 22, 2359, 10.1101/gad.1682308 · DOI
- Willy, 2000, A basal transcription factor that activates or represses transcription, Science, 290, 982, 10.1126/science.290.5493.982 · DOI
- Yamamoto, 2007, Differentiation of core promoter architecture between plants and mammals revealed by LDSS analysis, Nucleic Acids Res., 35, 6219, 10.1093/nar/gkm685 · DOI
- Yamamoto, 2007, Identification of plant promoter constituents by analysis of local distribution of short sequences, BMC Genomics, 8, 67, 10.1186/1471-2164-8-67 · DOI
- Yang, 2007, Prevalence of the initiator over the TATA box in human and yeast genes and identification of DNA motifs enriched in human TATA-less core promoters, Gene, 389, 52, 10.1016/j.gene.2006.09.029 · DOI
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Yang, J. H., & Hansen, A. S. (2024) · Nature Reviews Molecular Cell Biology · doi:10.1038/s41580-024-00710-6 · Cited by 191
Systematic interrogation of human promoters
Weingarten-Gabbay, S., Nir, R., Lubliner, S., Sharon, E., Kalma, Y., Weinberger, A., & Segal, E. (2019) · Genome Research · doi:10.1101/gr.236075.118 · Cited by 110
“Moreover, although DPE was typically thought to substitute the TATA box in directing the precise TSS selection (Sandelin et al. 2007; Juven-Gershon and Kadonaga 2010) incorporating DPE withTATA, Inrand MTEin therationally designed “ supercorepro-moter ” yielded high transcription levels in human…”
Regulation of the p53 transcriptional response by structurally diverse core promoters
Morachis, J. M., Murawsky, C. M., & Emerson, B. M. (2010) · Genes & Development · doi:10.1101/gad.1856710 · Cited by 86
Universal promoter scanning by Pol II during transcription initiation in Saccharomyces cerevisiae
Qiu, C., Jin, H., Vvedenskaya, I., Llenas, J. A., Zhao, T., Malik, I., Visbisky, A. M., Schwartz, S. L., Cui, P., Čabart, P., et al. (2020) · Genome Biology · doi:10.1186/s13059-020-02040-0 · Cited by 43
Jian, W., Yan, B., Huang, S., & Qiu, Y. (2017) · The FASEB Journal · doi:10.1096/fj.201700022r · Cited by 23
Metadata
- Authors
- Juven-Gershon, T., & Kadonaga, J. T.
- Venue
- Developmental Biology
- Publisher
- Elsevier BV
- Published
- 2010-03
- Volume
- 339
- Issue
- 2
- Pages
- 225-229
- ISSN
- 0012-1606
- PMC
- PMC2830304
- Cited by
- 490
- References
- 7
- Language
- en
- Licence
- Funders
- National Institutes of Health (GM041249)
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