Home

Person

Bart Deplancke

About
Privacy
Disclaimer

Graph Chatbot

Related publications (115)

Transcriptional regulatory logic of the diurnal cycle in the mouse liver

Felix Naef, Jonathan Aryeh Sobel, Guillaume Rey, Irina Krier, Nouria Hernandez, Bart Deplancke, Matteo Dal Peraro, Sunil Kumar Raghav, Frédéric Bruno Martin Gachon, Alexandra Styliani Kalantzi, Benjamin Dieter Weger

Many organisms exhibit temporal rhythms in gene expression that propel diurnal cycles in physiology. In the liver of mammals, these rhythms are controlled by transcription-translation feedback loops of the core circadian clock and by feeding-fasting cycles ...

Public Library of Science2017

Profiling of Single-Cell Transcriptomes

Bart Deplancke, Antonio Carlos Alves Meireles Filho, Wanze Chen, Vincent Roland Julien Gardeux

Complex biological systems are composed of multiple cell types whose transcriptional activity can vary due to differences in cell state, environmental stimulation or intrinsic programs. Conventional bulk analysis methods capture the average transcriptional ...

2017

The Genetics of Transcription Factor DNA Binding Variation

Bart Deplancke, Daniel Alpern, Vincent Roland Julien Gardeux

Most complex trait-associated variants are located in non-coding regulatory regions of the genome, where they have been shown to disrupt transcription factor (TF)-DNA binding motifs. Variable TF-DNA interactions are therefore increasingly considered as key ...

Elsevier2016

PDF Signaling Is an Integral Part of the Drosophila Circadian Molecular Oscillator

Jean-Daniel Feuz, Bart Deplancke

Circadian clocks generate 24-hr rhythms in physiology and behavior. Despite numerous studies, it is still uncertain how circadian rhythms emerge from their molecular and neural constituents. Here, we demonstrate a tight connection between the molecular and ...

Elsevier2016

Potential Direct Regulators of the Drosophila yellow Gene Identified by Yeast One-Hybrid and RNAi Screens

Bart Deplancke

The regulation of gene expression controls development, and changes in this regulation often contribute to phenotypic evolution. Drosophila pigmentation is a model system for studying evolutionary changes in gene regulation, with differences in expression ...

Genetics Society of America2016

Microfluidic device and method for isolation of nucleic acids

Bart Deplancke, Alina Isakova

The present invention concerns a microfluidic device for mechanically induced trapping of molecular interactions comprising at least a first unit cell and a second unit cell, each unit cell comprising - a membrane chamber comprising a membrane, - a flow ch ...

2016

Quantification of Cooperativity in Heterodimer-DNA Binding Improves the Accuracy of Binding Specificity Models

Vassily Hatzimanikatis, Bart Deplancke, Alina Isakova, Yves Berset

Many transcription factors (TFs) have the ability to cooperate on DNA elements as heterodimers. Despite the significance of TF heterodimerization for gene regulation, a quantitative understanding of cooperativity between various TF dimer partners and its i ...

American Society for Biochemistry and Molecular Biology2016

A mammalian transcription factor-specific peptide repository for targeted proteomics

Jovan Simicevic, Marc Moniatte, Bart Deplancke, Romain Hamelin

Site-specific transcription factors (TFs) play an essential role in mammalian development and function as they are vital for the majority of cellular processes. Despite their biological importance, TF proteomic data is scarce in the literature, likely due ...

Wiley-Blackwell2015

Conservation of transcription factor binding specificities across 600 million years of bilateria evolution

Junaid Akhtar, Bart Deplancke

Divergent morphology of species has largely been ascribed to genetic differences in the tissue-specific expression of proteins, which could be achieved by divergence in cis-regulatory elements or by altering the binding specificity of transcription factors ...

Elife Sciences Publications Ltd2015

Genetic, molecular and physiological basis of variation in Drosophila gut immunocompetence

Bruno Lemaitre, Bart Deplancke, Andreas Massouras, Dani Osman, Maroun Bou Sleiman

Gut immunocompetence involves immune, stress and regenerative processes. To investigate the determinants underlying inter-individual variation in gut immunocompetence, we perform enteric infection of 140 Drosophila lines with the entomopathogenic bacterium ...

Nature Publishing Group2015

A large-scale, in vivo transcription factor screen defines bivalent chromatin as a key property of regulatory factors mediating Drosophila wing development

Bart Deplancke, Monica Albarca Aguilera

Transcription factors (TFs) are key regulators of cell fate. The estimated 755 genes that encode DNA binding domain-containing proteins comprise similar to 5% of all Drosophila genes. However, the majority has remained uncharacterized so far due to the lac ...

Cold Spring Harbor Laboratory Press2015

Tetracyclines Disturb Mitochondrial Function across Eukaryotic Models: A Call for Caution in Biomedical Research

Michael Vincent Frochaux, Bart Deplancke, Johan Auwerx, Richardus Houtkooper, Norman Lionel Moullan, Evan Graehl Williams, Dongryeol Ryu, Adrienne Joëlle Laurence Mottis, Laurent Mouchiroud, Virginija Jovaisaite, Xu Wang

In recent years, tetracyclines, such as doxycycline, have become broadly used to control gene expression by virtue of the Tet-on/Tet-off systems. However, the wide range of direct effects of tetracycline use has not been fully appreciated. We show here tha ...

Elsevier2015

Population Variation and Genetic Control of Modular Chromatin Architecture in Humans

David Hacker, Gilles Udin, Nouria Hernandez, Bart Deplancke, Alisa Yurovsky, Sunil Kumar Raghav, Sarah Thurnheer, Sebastian Martin Waszak

Chromatin state variation at gene regulatory elements is abundant across individuals, yet we understand little about the genetic basis of this variability. Here, we profiled several histone modifications, the transcription factor (TF) PU.1, RNA polymerase ...

Elsevier2015

GLUT3 is induced during epithelial-mesenchymal transition and promotes tumor cell proliferation in non-small cell lung cancer

Mark Jonathan Masin, Bart Deplancke, Etienne Meylan, Jessica Christine Vazquez, Natasha Ella Samson, Petra Catalina Schwalie, Svenja Johanna Groeneveld

Alterations in glucose metabolism and epithelial-mesenchymal transition (EMT) constitute two important characteristics of carcinoma progression toward invasive cancer. Despite an extensive characterization of each of them separately, the links between EMT ...

2014

Identification of the transcription factor ZEB1 as a central component of the adipogenic gene regulatory network

Gilles Udin, Didier Trono, Andrea Corsinotti, Bart Deplancke, Sunil Kumar Raghav, Sebastian Martin Waszak, Petra Catalina Schwalie

Adipose tissue is a key determinant of whole body metabolism and energy homeostasis. Unraveling the regulatory mechanisms underlying adipogenesis is therefore highly relevant from a biomedical perspective. Our current understanding of fat cell differentiat ...

Elife Sciences Publications Ltd2014

Identification and removal of low-complexity sites in allele-specific analysis of ChIP-seq data

Nouria Hernandez, Bart Deplancke, Alisa Yurovsky, Sunil Kumar Raghav, Sebastian Martin Waszak

Motivation: High-throughput sequencing technologies enable the genome-wide analysis of the impact of genetic variation on molecular phenotypes at unprecedented resolution. However, although powerful, these technologies can also introduce unexpected artifac ...

Oxford University Press2014

An evolutionarily conserved role for the aryl hydrocarbon receptor in the regulation of movement

Michael Vincent Frochaux, Bart Deplancke, Johan Auwerx, Pénélope Andreux, Evan Graehl Williams, Laurent Mouchiroud

The BXD genetic reference population is a recombinant inbred panel descended from crosses between the C57BL/6 (B6) and DBA/2 (D2) strains of mice, which segregate for about 5 million sequence variants. Recently, some of these variants have been established ...

Public Library of Science2014

Natural variation in genome architecture among 205 Drosophila melanogaster Genetic Reference Panel lines

Bart Deplancke, Andreas Massouras, Yiming Zhu, Sandy Lee, Yi Han

The Drosophila melanogaster Genetic Reference Panel (DGRP) is a community resource of 205 sequenced inbred lines, derived to improve our understanding of the effects of naturally occurring genetic variation on molecular and organismal phenotypes. We used a ...

Cold Spring Harbor Laboratory Press2014

Coordinated Effects of Sequence Variation on DNA Binding, Chromatin Structure, and Transcription

David Hacker, Gilles Udin, Julien Bryois, Nouria Hernandez, Bart Deplancke, Alisa Yurovsky, Sunil Kumar Raghav, Sarah Thurnheer, Sebastian Martin Waszak

DNA sequence variation has been associated with quantitative changes in molecular phenotypes such as gene expression, but its impact on chromatin states is poorly characterized. To understand the interplay between chromatin and genetic control of gene regu ...

American Association for the Advancement of Science2013

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

Bart Deplancke, Sebastian Maerkl, Sylvie Rockel, Marcel Geertz

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

Page 5 of 6