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Structure of silent transcription intervals and noise characteristics of mammalian genes

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Gene regulatory networks (GRNs) play a crucial role in an organism's response to changing environmental conditions. Cellular behaviors typically result from the integration of multiple gene outputs, and their regulation often demands precise control of num ...

EPFL2024

KRAB zinc-finger proteins and their transposable element targets: between antagonism and cooperation

Jonas Caspar De Tribolet-Hardy

There are 377 Krüppel-associated box (KRAB) domain-containing zinc finger proteins (KZFPs) in the human genome, making them the largest family of transcription factors. KZFPs are defined by a N-terminal KRAB domain and several zinc-finger domains arranged ...

EPFL2022

KAP1 targets actively transcribed genomic loci to exert pleomorphic effects on RNA polymerase II activity

Didier Trono, Evaristo Jose Planet Letschert, Marco Cassano, Annamaria Kauzlaric, Suk Min Jang

KAP1 (KRAB-associated protein 1) is best known as a co-repressor responsible for inducing heterochromatin formation, notably at transposable elements. However, it has also been observed to bind the transcription start site of actively expressed genes. To a ...

2020

AMP-activated protein kinase (AMPK) is a fundamental enzyme that controls energy homeostasis, through orchestrating the cellular response to a reduction in energy availability. Under conditions of cellular energy stress AMPK senses the decrease in ATP leve ...

EPFL2019

Memory and relatedness of transcriptional activity in mammalian cell lineages

Felix Naef, David Michael Suter, Nicholas Edward Phillips, Aleksandra Mandic, Saeed Omidi Klishami

Phenotypically identical mammalian cells often display considerable variability in transcript levels of individual genes. How transcriptional activity propagates in cell lineages, and how this varies across genes is poorly understood. Here we combine live- ...

2019

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Gene-regulatory networks are ubiquitous in nature and critical for bottom-up engineering of synthetic networks. Transcriptional repression is a fundamental function that can be tuned at the level of DNA, protein, and cooperative protein-protein interaction ...

2019

RDHK Family, Regulators dedicated to Organohalide Respiration - Sequence Diversity and Functional Prediction

Christof Holliger, Julien Maillard, Mathilde Stéphanie Willemin

Organohalide respiration (OHR) is an anaerobic metabolism by which bacteria conserve energy from the use of organohalide molecules as terminal electron acceptors. Because most organohalides of anthropogenic origin are persistent pollutants, the study of ba ...

2019

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2019

Modeling and analysis of parts and devices of genetic regulation

Yves Berset

DNA encrypts the composition of the cellular material that is synthesized through transcription and translation. Never-theless, gene regulation mechanisms determine the final amount of transcribed and translated material. Transcription factors (TF) are a c ...

EPFL2018

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