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
Selective Activation of Alternative MYC Core Promoters by Wnt-Responsive Enhancers
TL;DR: It is found that P1 and P2 can be differentially regulated across cell-types and that their selective usage is largely mediated by distal regulatory sequences, which provides new insight into how enhancers can specifically target alternative promoters.
Dissertation
Decoding the impact of promoter sequences on transcriptional dynamics in vivo
TL;DR: It is shown in this study that core promoter sequence might act as a key step to regulate gene expression, and its element composition might be adapted to particular gene context.
Journal ArticleDOI
Analysis of genes from Saccharomyces cerevisiae HJ01 participating in aromatic alcohols biosynthesis during huangjiu fermentation
Shuangping Liu,Shuangping Liu,Bai Mei,Jiabing Zhou,Zimo Jin,Zimo Jin,Xu Yuezheng,Qilin Yang,Qilin Yang,Jiandi Zhou,Songjing Zhang,Jian Mao,Jian Mao +12 more
TL;DR: In this article, the Ehrlich pathway and shikimate pathway, including 31 genes, are responsible for aromatic alcohol biosynthesis in S. cerevisiae HJ01 and the mutations in the promoter region of genes GAP1HJ01, BAT2HJ1, PDC5HJ21, and PDC4HJ19 increased the promoter strength and transcriptional levels of related genes.
Journal ArticleDOI
Redefining the PTEN promoter: identification of novel upstream transcription start regions.
Dennis J Grencewicz,Todd Romigh,Stetson Thacker,Stetson Thacker,Ata Abbas,Ritika Jaini,Donal Luse,Donal Luse,Charis Eng +8 more
TL;DR: In this paper, run-on sequencing assays identified two additional transcription start regions (TSRs) at -2053 and -1906 basepairs from the canonical start of PTEN and redefined the PTEN promoter.
Posted ContentDOI
Promoter scanning during transcription initiation inSaccharomyces cerevisiae: Pol II in the “shooting gallery”
Chenxi Qiu,Huiyan Jin,Irina O. Vvedenskaya,Llenas Ja,Tingting Zhao,Indranil Malik,Visbisky Am,Scott Schwartz,Ping Cui,Pavel Čabart,Kang Hoo Han,Lai Wkm,Richard P. Metz,Charles D. Johnson,Sing-Hoi Sze,B. F. Pugh,Bryce E. Nickels,Craig D. Kaplan +17 more
TL;DR: It is found that alterations to Pol II, TFIIB, or TFIIF function widely alter the initiation landscape consistent with promoter scanning operating at all yeast promoters, regardless of promoter class.
References
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Journal ArticleDOI
RNA-Seq: a revolutionary tool for transcriptomics
TL;DR: The RNA-Seq approach to transcriptome profiling that uses deep-sequencing technologies provides a far more precise measurement of levels of transcripts and their isoforms than other methods.
Journal ArticleDOI
Rapid production of full-length cDNAs from rare transcripts: amplification using a single gene-specific oligonucleotide primer
TL;DR: The efficacy of this cDNA cloning strategy was demonstrated by isolating cDNA clones of mRNA from int-2, a mouse gene that expresses four different transcripts at low abundance, the longest of which is approximately 2.9 kilobases.
Journal ArticleDOI
The Role of Chromatin during Transcription
TL;DR: This Review highlights advances in the understanding of chromatin regulation and discusses how such regulation affects the binding of transcription factors as well as the initiation and elongation steps of transcription.
Journal ArticleDOI
The mechanism of eukaryotic translation initiation and principles of its regulation
TL;DR: This work has provided a solid foundation for studying the regulation of translation initiation by mechanisms that include the modulation of initiation factor activity and through sequence-specific RNA-binding proteins and microRNAs (which affect individual mRNAs).
Journal ArticleDOI
RNA Maps Reveal New RNA Classes and a Possible Function for Pervasive Transcription
Philipp Kapranov,Jill Cheng,Sujit Dike,David A. Nix,Radharani Duttagupta,Aarron T. Willingham,Peter F. Stadler,Jana Hertel,Jörg Hackermüller,Ivo L. Hofacker,Ian Bell,Evelyn Cheung,Jorg Drenkow,Erica Dumais,Sandeep Patel,Gregg Helt,Madhavan Ganesh,Srinka Ghosh,Antonio Piccolboni,Victor Sementchenko,Hari Tammana,Thomas R. Gingeras +21 more
TL;DR: Three potentially functional classes of RNAs have been identified, two of which are syntenically conserved and correlate with the expression state of protein-coding genes and support a highly interleaved organization of the human transcriptome.
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