Journal ArticleDOI
The core promoter: At the heart of gene expression.
TLDR
A broad spectrum of studies that highlight the importance of the core promoter and its pivotal role in the regulation of metazoan gene expression are reviewed and future research directions and challenges are suggested.About:
This article is published in Biochimica et Biophysica Acta.The article was published on 2015-08-01. It has received 140 citations till now. The article focuses on the topics: Enhancer RNAs & Transcription factor II D.read more
Citations
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Journal ArticleDOI
Nascent RNA sequencing reveals distinct features in plant transcription
Jonathan Hetzel,Sascha H. Duttke,Sascha H. Duttke,Christopher Benner,Joanne Chory,Joanne Chory +5 more
TL;DR: An extensive catalog of nascent and steady-state transcripts in Arabidopsis thaliana seedlings was generated using global nuclear run-on sequencing, 5′GRO-seq, and RNA-seq and published maize data to capture characteristics of plant transcription to provide insight into plant transcription and eukaryotic gene expression as a whole.
Journal ArticleDOI
The punctilious RNA polymerase II core promoter.
TL;DR: An expanded view of the core promoter that comprises the classical DNA sequence motifs, sequence-specific DNA-binding transcription factors, chromatin signals, and DNA structure is described.
Journal ArticleDOI
Plant synthetic promoters and transcription factors.
TL;DR: The recent advances in synthetic promoters and TFs in plants are reviewed and a speculate on their future is speculated.
Journal ArticleDOI
Promoter analysis and prediction in the human genome using sequence-based deep learning models.
TL;DR: This work further develops the deep learning approach that was relatively successful to discriminate short promoter and non-promoter sequences and predicts the exact positions of the TSS inside the genomic sequences testing every possible location.
Journal ArticleDOI
ElemeNT: a computational tool for detecting core promoter elements.
Anna Sloutskin,Yehuda M. Danino,Yaron Orenstein,Yonathan Zehavi,Tirza Doniger,Ron Shamir,Tamar Juven-Gershon +6 more
TL;DR: The Elements Navigation Tool (ElemeNT) is a user-friendly web-based, interactive tool for prediction and display of putative core promoter elements and their biologically-relevant combinations, and the CORE database summarizes ElemeNT-predicted core promoter Elements near CAGE and RNA-seq-defined Drosophila melanogaster transcription start sites (TSSs).
References
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Journal ArticleDOI
TBP-related factors: a paradigm of diversity in transcription initiation.
TL;DR: Variation in core promoter recognition accommodates the expanded regulatory capacity and specificity required for germ cells and embryonic development in higher eukaryotes.
Journal ArticleDOI
Taf7l cooperates with Trf2 to regulate spermiogenesis
Haiying Zhou,Ivan Grubisic,Ivan Grubisic,Ke Zheng,Ke Zheng,Ying He,P. Jeremy Wang,Tommy Kaplan,Robert Tjian,Robert Tjian +9 more
TL;DR: It is reported that Taf7l−/Y becomes sterile rather than merely subfertile after backcrossing, and a previously undescribed mechanism for cell-type–specific transcriptional control involving an interaction between a ”nonprototypic” core promoter recognition factor (Trf2) and an orphan TAF subunit (TAF7l) in mammalian testis-specific gene transcription is provided.
Journal ArticleDOI
A novel promoter-tethering element regulates enhancer-driven gene expression at the bithorax complex in the Drosophila embryo
TL;DR: Evidence is provided that specific long-range enhancer-promoter interactions in the bithorax complex of Drosophila are regulated by a tethering element 5′ of the Abd-B promoter.
Journal ArticleDOI
The intronless and TATA-less human TAF(II)55 gene contains a functional initiator and a downstream promoter element.
Tianyuan Zhou,Cheng Ming Chiang +1 more
TL;DR: Findings indicate that a combinatorial regulation of a general transcription factor-encoding gene can be conferred by both ubiquitous and cell type-specific transcriptional regulators.
Journal ArticleDOI
TAF10 (TAF(II)30) is necessary for TFIID stability and early embryogenesis in mice.
TL;DR: It is demonstrated that TAF10 is required for TFIID stability, cell cycle progression, and transcription in the early mouse embryo.
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