Person

Romain Fernand Pietro Groux

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Related publications (9)

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Computational study of transcription factor binding sites

Romain Fernand Pietro Groux

Any living organism contains a whole set of instructions encoded as genes on the DNA. This set of instructions contains all the necessary information that the organism will ever need, from its development to a mature individual to environment specific resp ...

EPFL2020

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The Eukaryotic Promoter Database (EPD), available online at https://epd.epfl.ch, provides accurate transcription start site (TSS) information for promoters of 15 model organisms plus corresponding functional genomics data that can be viewed in a genome bro ...

2020

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BackgroundPositional weight matrix (PWM) is a de facto standard model to describe transcription factor (TF) DNA binding specificities. PWMs inferred from in vivo or in vitro data are stored in many databases and used in a plethora of biological application ...

2020

SPar-K: a method to partition NGS signal data

Philipp Bucher, Romain Fernand Pietro Groux

We present SPar-K (Signal Partitioning with K-means), a method to search for archetypical chromatin architectures by partitioning a set of genomic regions characterized by chromatin signal profiles around ChIP-seq peaks and other kinds of functional sites. ...

OXFORD UNIV PRESS2019

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Transcription factors (TFs) regulate gene expression by binding to specific short DNA sequences of 5 to 20-bp to regulate the rate of transcription of genetic information from DNA to messenger RNA. We present PWMScan, a fast web-based tool to scan server-r ...

2018

SMiLE-seq identifies binding motifs of single and dimeric transcription factors

Didier Trono, Bart Deplancke, Giovanna Ambrosini, Philipp Bucher, Riccardo Dainese, Daniel Alpern, Michaël Imbeault, Romain Fernand Pietro Groux, Alina Isakova, Pernille Yde Rainer

Resolving the DNA-binding specificities of transcription factors (TFs) is of critical value for understanding gene regulation. Here, we present a novel, semiautomated protein-DNA interaction characterization technology, selective microfluidics-based ligand ...

Nature Publishing Group2017

The eukaryotic promoter database in its 30th year: focus on non-vertebrate organisms

Giovanna Ambrosini, Philipp Bucher, René Dreos, Rouayda Cavin Perier, Romain Fernand Pietro Groux

We present an update of the Eukaryotic Promoter Database EPD (http://epd.vital-it.ch), more specifically on the EPDnew division, which contains comprehensive organisms-specific transcription start site (TSS) collections automatically derived from next gene ...

2017

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The SIB Swiss Institute of Bioinformatics (www.isb-sib.ch) provides world-class bioinformatics databases, software tools, services and training to the international life science community in academia and industry. These solutions allow life scientists to t ...

Oxford University Press2016

Endocytosis of the anthrax toxin is mediated by clathrin, actin and unconventional adaptors

Françoise Gisou van der Goot Grunberg, Laurence Gouzi Abrami, Béatrice Kunz, Mirko Bischofberger, Romain Fernand Pietro Groux

The anthrax toxin is a tripartite toxin, where the two enzymatic subunits require the third subunit, the protective antigen (PA), to interact with cells and be escorted to their cytoplasmic targets. PA binds to cells via one of two receptors, TEM8 and CMG2 ...

Public Library of Science2010