Publications by Pierre Raymond Fabre

Single-cell transcriptional logic of cell-fate specification and axon guidance in early-born retinal neurons

Marion Leleu, Gioele La Manno, Pierre Raymond Fabre

Retinal ganglion cells (RGCs), cone photoreceptors (cones), horizontal cells and amacrine cells are the first classes of neurons produced in the retina. However, an important question is how this diversity of cell states is transcriptionally produced. Here ...

2019

Heterogeneous combinatorial expression of Hoxd genes in single cells during limb development

Denis Duboule, Marion Leleu, Pierre Raymond Fabre

Background: Global analyses of gene expression during development reveal specific transcription patterns associated with the emergence of various cell types, tissues, and organs. These heterogeneous patterns are instrumental to ensure the proper formation ...

2018

Large scale genomic reorganization of topological domains at the HoxD locus

Denis Duboule, Marion Leleu, Daniël Noordermeer, Lucille Delisle, Pierre Raymond Fabre, Leonardo Beccari, Benjamin Howard Mormann

BACKGROUND: The transcriptional activation of HoxD genes during mammalian limb development involves dynamic interactions with two topologically associating domains (TADs) flanking the HoxD cluster. In particular, the activation of the most posterior HoxD g ...

2017

The HoxD cluster is a dynamic and resilient TAD boundary controlling the segregation of antagonistic regulatory landscapes

Denis Duboule, Lucille Delisle, Pierre Raymond Fabre, Leonardo Beccari, Edgardo Rodriguez Carballo

The mammalian HoxD cluster lies between two topologically associating domains (TADs) matching distinct enhancer-rich regulatory landscapes. During limb development, the telomeric TAD controls the early transcription of Hoxd genes in forearm cells, whereas ...

2017

Nanoscale Spatial Organization of Chromatin in its Cellular Context, from Telomeres to Hox

Denis Duboule, Joachim Lingner, Suliana Manley, Kyle Michael Douglass, Aleksandr Benke, Verena Pfeiffer, Pierre Raymond Fabre, Aleksandra Vancevska

Cell Press2016

Nanoscale spatial organization of the HoxD gene cluster in distinct transcriptional states

Denis Duboule, Suliana Manley, Aleksandr Benke, Pierre Raymond Fabre

Chromatin condensation plays an important role in the regulation of gene expression. Recently, it was shown that the transcriptional activation of Hoxd genes during vertebrate digit development involves modifications in 3D interactions within and around th ...

2015

Visualizing the HoxD Gene Cluster at the Nanoscale Level

Denis Duboule, Suliana Manley, Aleksandr Benke, Pierre Raymond Fabre

Transcription of HoxD cluster genes in limbs is coordinated by two topologically associating domains (TADs), neighboring the cluster and containing various enhancers. Here, we use a combination of microscopy approaches and chromosome conformation capture t ...

2015

Dynamic Reorganization of Extremely Long-Range Promoter-Promoter Interactions between Two States of Pluripotency

Pierre Raymond Fabre

Serum-to-2i interconversion of mouse embryonic stem cells (mESCs) is a valuable in vitro model for early embryonic development. To assess whether 3D chromatin organization changes during this transition, we established Capture Hi-C with target-sequence enr ...

Cell Press2015