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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GREEN-DB: a framework for the annotation and prioritization of non-coding regulatory variants in whole-genome sequencing
Edoardo Giacopuzzi,Edoardo Giacopuzzi,Niko Popitsch,Niko Popitsch,Jenny C. Taylor,Jenny C. Taylor +5 more
TL;DR: A new framework for the prioritization of non-coding regulatory variants that integrates information about regulatory regions with prediction scores and HPO-based prioritization is proposed and a VCF annotation tool (GREEN-VARAN) is developed that can integrate all these elements to annotate variants for their potential regulatory impact.
Journal ArticleDOI
An in vitro characterisation of the Trichomonas vaginalis TATA box-binding proteins (TBPs).
Olivia Parra-Marín,Lluvia Rosas-Hernández,Karla López-Pacheco,Bernardo Franco,Bernardo Franco,Alexandra Ibáñez-Escribano,Alexandra Ibáñez-Escribano,Roberto Hernández,Imelda López-Villaseñor +8 more
TL;DR: This work represents the first approach towards the characterisation of general transcription factors in this early divergent organism and proposes that TvTBP1 may be part of the preinitiation transcription complex in T. vaginalis.
Journal ArticleDOI
Genome-wide identification of WD40 superfamily genes and prediction of WD40 gene of flavonoid-related genes in Ginkgo biloba
Jiarui Zheng,Yongling Liao,Feng Xu,Xian Zhou,Jiabao Ye,Mingyue Fu,Xiaomeng Liu,Zhengyan Cao,Weiwei Zhang +8 more
TL;DR: Promoter analysis shows that five GbWD40 gene promoters contain the MYB binding site participating in theregulation of flavonoid metabolism, suggesting that these five genes may participate in the regulation of Flavonoid synthesis in G. biloba.
Posted ContentDOI
The TRF2 General Transcription Factor Is a Key Regulator of Cell Cycle Progression
Adi Kedmi,Anna Sloutskin,Natalie Epstein,Lital Gasri-Plotnitsky,Debby Ickowicz,Irit Shoval,Tirza Doniger,Eliezer Darmon,Diana Ideses,Ziv Porat,Orly Yaron,Tamar Juven-Gershon +11 more
TL;DR: It is demonstrated that TRF2 knockdown regulates cell cycle progression and exerts distinct effects on G1 and specific mitotic phases, uncovering a critical and unanticipated role of a general transcription factor as a key regulator of cell cycle.
Characterization of IAPLTR1 subclasses and bidirectional promoter activity : "making sense of it all"
TL;DR: The author’s personal life and work were reviewed in detail in the course of writing this treatise, as well as in the preparation of the book.
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.
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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.
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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.
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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).
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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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