Benoit G. Bruneau

The paper identifies a rare population of neural crest-derived endocardial cells essential for heart valve development in mice and humans, showing their role in valve morphogenesis through Pthlh signaling.

The paper develops a machine-learning model to predict how structural variants disrupt 3D chromatin structure in congenital heart disease and validates its predictions using induced pluripotent stem cells.

The paper identifies Tbx5 as a gene critical for forming a compartment boundary in the interventricular septum, and shows its disruption leads to congenital heart defects.

This study shows that reduced TBX5 dosage disrupts atrial cardiomyocyte identity, leading to cellular and molecular changes associated with atrial diseases.

This study identifies MEF2C-dependent gene regulatory networks in specific heart segments and shows their role in heart tube morphogenesis using multi-omics data and deep learning.

This paper engineers synthetic epigenetic circuits that induce stable gene expression changes and drive cell state transitions through transient cell-cell interactions.

This study shows that reduced TBX5 dosage affects 3D chromatin organization in human cardiomyocytes, with cell-to-cell variation and partial protection by CTCF co-occupancy.

This study shows CDX2 dose-dependently regulates genes involved in tissue permeability, cell-cell adhesion, and cytoskeletal structure during extraembryonic mesoderm development using human induced pluripotent stem cells.

This study shows that TBXT dose affects the timing of EMT in human gastruloids without compromising mesoderm differentiation.

The paper identifies a Mesp1-dependent developmental breakpoint in cardiac precursor cell specification using single-cell transcriptomics and chromatin accessibility analysis in mouse embryos.

This study uses live embryo imaging to show how mesoderm gradients guide heart development through spatial and temporal morphodynamics.

Cell Layers provides an interactive tool to explore single-cell clustering across resolutions, linking molecular data with cluster evaluation metrics.

The paper models TBX5 haploinsufficiency in iPSC-derived cardiomyocytes to identify gene regulatory network imbalances linked to congenital heart disease.

This study shows WAPL maintains dynamic cohesin at lineage-specific regulatory regions in mouse embryonic stem cells, which is essential for gene expression and pluripotency.

The paper investigates how CTCF binding polarity influences chromatin loop formation by showing that CTCF positions cohesin but does not control its binding dynamics.

This study shows that Brm deletion causes identity switches in cardiac mesoderm differentiation by altering chromatin accessibility and gene expression, revealing BRM's role in safeguarding developmental canalization.

The paper investigates the distinct and combined roles of CTCF and CTCFL in chromosome organization and transcription by analyzing their binding sites and functional domains.

This study shows that human iPSC-derived organoids can model the cooperative development of cardiac and gut tissues through paracrine signaling.

The paper investigates the role of developmentally regulated cardiac lincRNAs in heart development and function, finding that their deletion does not cause severe cardiac phenotypes.

The paper shows that CTCF and Esrrb maintain nucleosome positioning at gene regulatory regions during DNA replication and mitosis in mouse ES cells.

The paper presents a high-resolution chromosome-assigned genome of the Komodo dragon, identifying adaptations in cardiovascular, muscular, and chemosensory systems through comparative genomics.

The paper shows that CTCF's RNA-binding ability is crucial for its chromatin association and insulation function.

The paper identifies cis-regulatory elements (ERCEs) that control domain-wide replication timing, chromatin compartmentalization, and transcription in mouse embryonic stem cells.

The paper identifies conserved enhancers active early in zebrafish heart development that recapitulate human expression patterns, suggesting ancient regulatory mechanisms.

The paper identifies BAF complex subunit dynamics during cardiac differentiation, showing how BAF60c and BAF170 regulate gene expression programs in cardiac precursors and cardiomyocytes.

The paper develops a novel Dll4 reporter allele to accurately monitor Dll4 expression in embryonic and adult mice, overcoming limitations of previous reporter lines.

The paper shows that transcription factors recognize DNA shape rather than sequence, using ShapeMF to identify shape-motifs that drive binding independent of sequence motifs.

This study shows CTCF is essential for TAD organization but not for genome compartmentalization, revealing distinct mechanisms for chromatin folding and insulation.

This study shows that Baf60c regulates gene expression programs critical for heart development and function by interacting with Myocardin and controlling contractile proteins and metabolic genes.