Publication

Detecting long-range chromatin interactions using the chromosome conformation capture sequencing (4C-seq) method

Publications associées (95)

Modelling of Protein Palmitoylation Networks

S-Palmitoylation is a post-translational modification consisting in the reversible attachment of palmitate. Little is known about the mechanisms that underlie the dynamics of the process. Using computational modelling we investigated the palmitoylation- de ...

2014

Chromatin looping and organization at developmentally regulated gene loci

Denis Duboule, Daniël Noordermeer

Developmentally regulated genes are often controlled by distant enhancers, silencers and insulators, to implement their correct transcriptional programs. In recent years, the development of 3C and derived techniques (4C, 5C, HiC, ChIA- PET, etc.) has confi ...

2013

High-resolution detection of DNA binding sites of the global transcriptional regulator GlxR in Corynebacterium glutamicum

Stewart Cole, Claudia Sala, Swapna Uplekar

The transcriptional regulator GlxR has been characterized as a global hub within the gene-regulatory network of Corynebacterium glutamicum. Chromatin immunoprecipitation with a specific anti-GlxR antibody and subsequent high-throughput sequencing (ChIP-seq ...

Soc General Microbiology2013

Computational analysis of ultraconserved non-coding DNA elements in vertebrate genomes

Slavica Dimitrieva Janeva

Recent advancements in DNA sequencing technologies, accompanied by parallel development of sophisticated computational methods, offer an unprecedented opportunity to explore and study the genetic material of many organisms. However, despite the tremendous ...

EPFL2013

EPD and EPDnew, high-quality promoter resources in the next-generation sequencing era

Giovanna Ambrosini, Philipp Bucher, René Dreos, Rouayda Cavin Perier

The Eukaryotic Promoter Database (EPD), available online at http://epd.vital-it.ch, is a collection of experimentally defined eukaryotic POL II promoters which has been maintained for more than 25 years. A promoter is represented by a single position in th ...

Oxford University Press2013

RNA-Protein interactions at AU-rich elements

Ramona Pauchard-Batschulat

The expression of many proto-oncogenes, nuclear transcription factors and cytokines is regulated post-transcriptionally by specific interactions between distinct cis-elements within the mRNA and trans-acting factors that bind to these elements and thereby ...

EPFL2013

Topology of mammalian developmental enhancers and their regulatory landscapes

Denis Duboule

How a complex animal can arise from a fertilized egg is one of the oldest and most fascinating questions of biology, the answer to which is encoded in the genome. Body shape and organ development, and their integration into a functional organism all depend ...

Nature Publishing Group2013

iSLIM: a comprehensive approach to mapping and characterizing gene regulatory networks

Bart Deplancke, Sebastian Maerkl, Marcel Geertz, Sylvie Rockel

Mapping gene regulatory networks is a significant challenge in systems biology, yet only a few methods are currently capable of systems-level identification of transcription factors (TFs) that bind a specific regulatory element. We developed a microfluidic ...

Oxford University Press2013

Absolute quantification of transcription factors during cellular differentiation using multiplexed targeted proteomics

Bart Deplancke, Felix Naef, Marc Moniatte, Adrian Schmid, Sunil Kumar Raghav, Irina Krier, Benjamin Zoller, Jovan Simicevic, Paola Alejandra Gilardoni

The cellular abundance of transcription factors (TFs) is an important determinant of their regulatory activities. Deriving TF copy numbers is therefore crucial to understanding how these proteins control gene expression. We describe a sensitive selected re ...

Nature Publishing Group2013

Polycomb Recruitment and Targeting in Mammals

Patrick Schorderet

Polycomb- (PcG) and trithorax (trxG) group proteins are essential components in the regulation of multiple developmental regulators. In particular, during early stages, they act as chromatin modifiers in such a way as to set and maintain the transcriptiona ...

EPFL2013

Graph Chatbot

Chattez avec Graph Search

Posez n’importe quelle question sur les cours, conférences, exercices, recherches, actualités, etc. de l’EPFL ou essayez les exemples de questions ci-dessous.

AVERTISSEMENT : Le chatbot Graph n'est pas programmé pour fournir des réponses explicites ou catégoriques à vos questions. Il transforme plutôt vos questions en demandes API qui sont distribuées aux différents services informatiques officiellement administrés par l'EPFL. Son but est uniquement de collecter et de recommander des références pertinentes à des contenus que vous pouvez explorer pour vous aider à répondre à vos questions.

Connectez-vous pour utiliser Chat avec Graph Search