Publications associées à Terminateur (génétique)

Human T-Cell Lymphotropic Virus Type 1 Transactivator Tax Exploits the XPB Subunit of TFIIH during Viral Transcription

Human T-cell lymphotropic virus type 1 (HTLV-1) Tax oncoprotein is required for viral gene expression. Tax transactivates the viral promoter by recruiting specific transcription factors but also by interfering with general transcription factors involved in ...

American Society for Microbiology2020

Differential regulation of RNA polymerase III genes during liver regeneration

Olivier Martin, Bart Deplancke, Felix Naef, Jacques Rougemont, Marion Leleu, Nicolas Jean Philippe Guex, Fabrice David, Kyle Gustafson, Dominic Villeneuve, Cristian Carmeli, Winship Herr, Mauro Delorenzi, Sunil Kumar Raghav, Laura Symul, Irina Krier, Philippe Jacquet, Jonathan Aryeh Sobel, Nouria Hernandez, Julia Catharina Cajan, Julien Delafontaine, Maykel Lopes, Ioannis Xenarios, François Mange

Mouse liver regeneration after partial hepatectomy involves cells in the remaining tissue synchronously entering the cell division cycle. We have used this system and H3K4me3, Pol II and Pol III profiling to characterize adaptations in Pol III transcriptio ...

Oxford University Press (OUP)2019

Quantitative single cell dynamics of signaling and transcriptional response in mammalian cells

Onur Tidin

Cells live in ever-changing environments, thereby facing a variety of dynamic environmental signals. Environmental stimuli elicit intracellular responses through signaling pathways, which converge on transcriptional activation or repression of target genes ...

EPFL2018

Quantitative analysis of gene expression and transcriptional memory in mouse embryonic stem cells

Aleksandra Mandic

Quantitative studies of gene expression in have shown widespread variability in transcript and protein product abundance at the single-cell level. Such fluctuations in gene expression have been shown to lead to heterogeneous cellular responses and phenotyp ...

EPFL2018

Eukaryotic transcription factor binding kinetics : a single-molecule and functional study

Andrea Callegari

Transcription represents a key regulatory step in gene expression and transcription factors (TFs) are the key molecular players of this process. TFs inhibit or promote the assembly of the transcriptional machinery by binding DNA and several co-factors. Whe ...

EPFL2016

Olfactory receptor pseudo-pseudogenes

Matteo Dal Peraro, Benoîte Bargeton

Pseudogenes are generally considered to be non-functional DNA sequences that arise through nonsense or frame-shift mutations of protein-coding genes(1). Although certain pseudogene-derived RNAs have regulatory roles(2), and some pseudogene fragments are tr ...

Nature Publishing Group2016

CAST: An automated segmentation and tracking tool for the analysis of transcriptional kinetics from single-cell time-lapse recordings

Felix Naef, Benjamin Zoller, Damien Lionel Nicolas, Simon Blanchoud, Onur Tidin

Fluorescence and bioluminescence time-lapse imaging allows to investigate a vast range of cellular processes at single-cell or even subcellular resolution. In particular, time-lapse imaging can provide uniquely detailed information on the fine kinetics of ...

Academic Press Inc Elsevier Science2015

Enhancer loops appear stable during development and are associated with paused polymerase

Daniël Noordermeer

Developmental enhancers initiate transcription and are fundamental to our understanding of developmental networks, evolution and disease. Despite their importance, the properties governing enhancer-promoter interactions and their dynamics during embryogene ...

Nature Publishing Group2014

Evaluation of methods for modeling transcription factor sequence specificity

Yue Zhao

Genomic analyses often involve scanning for potential transcription factor (TF) binding sites using models of the sequence specificity of DNA binding proteins. Many approaches have been developed to model and learn a protein's DNA-binding specificity, but ...

Nature Publishing Group2013

Assessment of transcript reconstruction methods for RNA-seq

We evaluated 25 protocol variants of 14 independent computational methods for exon identification, transcript reconstruction and expression-level quantification from RNA-seq data. Our results show that most algorithms are able to identify discrete transcri ...

Nature Publishing Group2013

Molecular basis of telomere syndrome caused by CTC1 mutations

Joachim Lingner, Liuh-Yow Chen, Jana Majerská

Mutations in CTC1 lead to the telomere syndromes Coats Plus and dyskeratosis congenita (DC), but the molecular mechanisms involved remain unknown. CTC1 forms with STN1 and TEN1 a trimeric complex termed CST, which binds ssDNA, promotes telomere DNA synthes ...

Cold Spring Harbor Laboratory Press2013

Nanopore sensing of single molecules application to RNAP-DNA complexes, fabrication of graphene-nanopore devices and translocation algorithm analysis

Camille Alice Raillon

Nanopore sensing is a single-molecule technique that allows to probe the nano-bio-world with accuracy. It is a non-invasive technique, which means that the molecule of interest does not need to be labeled to be detected by the nanopore. Most of the studies ...

EPFL2012

Origins and consequences of transcriptional discontinuity

Felix Naef, David Michael Suter

In both prokaryotes and eukaryotes, transcription has been described as being temporally discontinuous, most genes being active mainly during short activity windows interspersed by silent periods. In mammalian cells, recent studies performed at the single ...

2011

Mammalian genes are transcribed with widely different bursting kinetics

Felix Naef, David Michael Suter

In prokaryotes and eukaryotes, most genes appear to be transcribed during short periods called transcriptional bursts, interspersed by silent intervals. We describe how such bursts generate gene-specific temporal patterns of messenger RNA (mRNA) synthesis ...

American Association for the Advancement of Science2011

KRAB-Zinc Finger Proteins and KAP1 Can Mediate Long-Range Transcriptional Repression through Heterochromatin Spreading

Didier Trono, Giovanna Ambrosini, Nadine Fournier, Philipp Bucher, Anna Claire Groner, Nicolas Dénervaud, Sylvain Meylan

Krüppel-associated box domain-zinc finger proteins (KRAB-ZFPs) are tetrapod-specific transcriptional repressors encoded in the hundreds by the human genome. In order to explore their as yet ill-defined impact on gene expression, we developed an ectopic rep ...

Public Library of Science2010

Circadian gene expression is resilient to large fluctuations in overall transcription rates

Michaël Unser, Felix Naef, Daniel Sage, Thomas d'Eysmond

Mammalian circadian oscillators are considered to rely on transcription/translation feedback loops in clock gene expression. The major and essential loop involves the autorepression of cryptochrome (Cry1, Cry2) and period (Per1, Per2) genes. The rhythm-gen ...

Nature Publishing Group2009

Promoter trapping reveals significant differences in integration site selection between MLV and HIV vectors in primary hematopoietic cells

Michele De Palma

Recent reports have indicated that human immunodeficiency virus (HIV) and murine leukemia virus (MLV) vectors preferentially integrate into active genes. Here, we used a novel approach based on genetic trapping to rapidly score several thousand integration ...

American Society of Hematology2005