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Bart Deplancke

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Publications associées (115)

Rounding Up Natural Gene Expression Variation during Development

Bart Deplancke, Sebastian Martin Waszak

Molecular insights into the genetic control of development have been mainly derived from single gene mutant studies. Francesconi and Lehner (2013) report now in Nature a genome-wide map of natural sequence variants that affect the temporal expression dynam ...

Cell Press - Elsevier2013

A yeast one-hybrid and microfluidics-based pipeline to map mammalian gene regulatory networks

Jovan Simicevic, Carine Delattre-Gubelmann, Jean-Daniel Feuz, Antonina Iagovitina, Bart Deplancke, Alina Isakova, Sunil Kumar Raghav, Sebastian Martin Waszak

The comprehensive mapping of gene promoters and enhancers has significantly improved our understanding of how the mammalian regulatory genome is organized. An important challenge is to elucidate how these regulatory elements contribute to gene expression b ...

Nature / European Molecular Biology Organization2013

Global and stage specific patterns of krüppel-associated-box zinc finger protein gene expression in murine early embryonic cells

Carine Delattre-Gubelmann, Didier Trono, Andrea Corsinotti, Helen Mary Rowe, Adamantia Kapopoulou, Bart Deplancke, Yoann Mouscaz, Michaël Imbeault

Highly coordinated transcription networks orchestrate the self-renewal of pluripotent stem cell and the earliest steps of mammalian development. KRAB-containing zinc finger proteins represent the largest group of transcription factors encoded by the genome ...

Public Library of Science2013

Morphological and Molecular Characterization of Adult Midgut Compartmentalization in Drosophila

Jean Philippe Boquete, Bruno Lemaitre, Bart Deplancke, Dani Osman

Although the gut is a central organ of Eumetazoans and is essential for organismal health, our understanding of its morphological and molecular determinants remains rudimentary. Here, we provide a comprehensive atlas of Drosophila adult midgut. Specificall ...

Elsevier2013

Topology and dynamics of the zebrafish segmentation clock core circuit

Bart Deplancke, Sebastian Maerkl, Alina Isakova, Andrew Charles Oates, Daniele Soroldoni

During vertebrate embryogenesis, the rhythmic and sequential segmentation of the body axis is regulated by an oscillating genetic network termed the segmentation clock. We describe a new dynamic model for the core pace-making circuit of the zebrafish segme ...

2012

Genomic Variation and Its Impact on Gene Expression in Drosophila melanogaster

Bart Deplancke, Andreas Massouras, Monica Albarca Aguilera, Sebastian Martin Waszak, Jeffrey David Jensen

Understanding the relationship between genetic and phenotypic variation is one of the great outstanding challenges in biology. To meet this challenge, comprehensive genomic variation maps of human as well as of model organism populations are required. Here ...

Public Library of Science2012

Variable Outcome of Mutations

Bart Deplancke

American Association for the Advancement of Science2012

Genome-Wide RNA Polymerase II Profiles and RNA Accumulation Reveal Kinetics of Transcription and Associated Epigenetic Changes During Diurnal Cycles

Felix Naef, Nicolas Jean Philippe Guex, Olivier Martin, Mauro Delorenzi, Nouria Hernandez, Bart Deplancke, Jacques Rougemont, Laura Symul, Winship Herr

Interactions of cell-autonomous circadian oscillators with diurnal cycles govern the temporal compartmentalization of cell physiology in mammals. To understand the transcriptional and epigenetic basis of diurnal rhythms in mouse liver genome-wide, we gener ...

Public Library Science2012

Exhaustion of tumor-specific CD8(+) T cells in metastases from melanoma patients

Nathalie Rufer, Lukas Baitsch, Bart Deplancke, Pedro Romero, Sunil Kumar Raghav

In chronic viral infections, CD8(+) T cells become functionally deficient and display multiple molecular alterations. In contrast, only little is known of self- and tumor-specific CD8(+) T cells from mice and humans. Here we determined molecular profiles o ...

American Society for Clinical Investigation2011

GETPrime: a gene- or transcript-specific primer database for quantitative real-time PCR

Carine Delattre-Gubelmann, Bart Deplancke, Jacques Rougemont, Alexandre Gattiker, Fabrice David, Andreas Massouras, Frederik Decouttere

The vast majority of genes in humans and other organisms undergo alternative splicing, yet the biological function of splice variants is still very poorly understood in large part because of the lack of simple tools that can map the expression profiles and ...

2011

Automated protein-DNA interaction screening of Drosophila regulatory elements

Julien Bryois, Jean-Daniel Feuz, Antonina Iagovitina, Bart Deplancke, Alina Isakova, Andreas Massouras

Drosophila melanogaster has one of the best characterized metazoan genomes in terms of functionally annotated regulatory elements. To explore how these elements contribute to gene regulation, we need convenient tools to identify the proteins that bind to t ...

2011

DNA-centered approaches to characterize regulatory protein–DNA interaction complexes

Jovan Simicevic, Bart Deplancke

Gene regulation is mediated by site-specific DNA-binding proteins or transcription factors (TFs), which form protein complexes at regulatory loci either to activate or repress the expression of a target gene. The study of the dynamic properties of these re ...

Royal Society of Chemistry2010

WebPrInSeS: automated full-length clone sequence identification and verification using high-throughput sequencing data

Bart Deplancke, Andreas Massouras, Frederik Decouttere

High-throughput sequencing (HTS) is revolutionizing our ability to obtain cheap, fast and reliable sequence information. Many experimental approaches are expected to benefit from the incorporation of such sequencing features in their pipeline. Consequently ...

Oxford University Press2010

Primer-initiated sequence synthesis to detect and assemble structural variants

Carine Delattre-Gubelmann, Stewart Cole, Swapna Uplekar, Bart Deplancke, Jacques Rougemont, Andreas Massouras, Frederik Decouttere

Nature Publishing Group2010

Experimental advances in the characterization of metazoan gene regulatory networks

Bart Deplancke

Gene regulatory networks (GRNs) play a vital role in metazoan development and function, and deregulation of these networks is often implicated in disease. GRNs depict the dynamic interactions between genomic and regulatory state components. The genomic com ...

2009

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