A single-cell transcriptional roadmap for cardiopharyngeal fate diversification

Integrating single-cell transcriptomic data across different conditions, technologies, and species

(2018) Andrew Butler et al.   NATURE BIOTECHNOLOGY

Defining murine organogenesis at single-cell resolution reveals a role for the leukotriene pathway in regulating blood progenitor formation

(2018) Ximena Ibarra-Soria et al.   NATURE CELL BIOLOGY

Defining the earliest step of cardiovascular lineage segregation by single-cell RNA-seq

(2018) Fabienne Lescroart et al.   SCIENCE

An FGF-driven feed-forward circuit patterns the cardiopharyngeal mesoderm in space and time

(2018) Florian Razy-Krajka et al.   eLife

Wnt signaling balances specification of the cardiac and pharyngeal muscle fields

(2017) Amrita Mandal et al.   MECHANISMS OF DEVELOPMENT

Single-cell RNA-seq reveals new types of human blood dendritic cells, monocytes, and progenitors

(2017) Alexandra-Chloé Villani et al.   SCIENCE

Temporally Distinct Six2 -Positive Second Heart Field Progenitors Regulate Mammalian Heart Development and Disease

(2017) Zhengfang Zhou et al.   Cell Reports

Rewiring of an ancestral Tbx1/10-Ebf-Mrf network for pharyngeal muscle specification in distinct embryonic lineages

(2016) Theadora Tolkin et al.   DEVELOPMENT

Resolving early mesoderm diversification through single-cell expression profiling

(2016) Antonio Scialdone et al.   NATURE

Transition states and cell fate decisions in epigenetic landscapes

(2016) Naomi Moris et al.   NATURE REVIEWS GENETICS

Diffusion maps for high-dimensional single-cell analysis of differentiation data

(2015) Laleh Haghverdi et al.   BIOINFORMATICS

Highly Parallel Genome-wide Expression Profiling of Individual Cells Using Nanoliter Droplets

(2015) Evan Z. Macosko et al.   CELL

Revisiting Cardiac Cellular CompositionNovelty and Significance

(2015) Alexander R. Pinto et al.   CIRCULATION RESEARCH

Regulation and evolution of cardiopharyngeal cell identity and behavior: insights from simple chordates

(2015) Nicole Kaplan et al.   CURRENT OPINION IN GENETICS & DEVELOPMENT

A Cranial Mesoderm Origin for Esophagus Striated Muscles

(2015) Swetha Gopalakrishnan et al.   DEVELOPMENTAL CELL

A new heart for a new head in vertebrate cardiopharyngeal evolution

(2015) Rui Diogo et al.   NATURE

Spatial reconstruction of single-cell gene expression data

(2015) Rahul Satija et al.   NATURE BIOTECHNOLOGY

Primed and ready: understanding lineage commitment through single cell analysis

(2015) Rachael A. Nimmo et al.   TRENDS IN CELL BIOLOGY

Chamber identity programs drive early functional partitioning of the heart

(2015) Christian Mosimann et al.   Nature Communications

Statistical significance of variables driving systematic variation in high-dimensional data

(2014) Neo Christopher Chung et al.   BIOINFORMATICS

Tissue-specific genome editing in Ciona embryos by CRISPR/Cas9

(2014) A. Stolfi et al.   DEVELOPMENT

Mesodermal Nkx2.5 is necessary and sufficient for early second heart field development

(2014) Lu Zhang et al.   DEVELOPMENTAL BIOLOGY

Collier/OLF/EBF-Dependent Transcriptional Dynamics Control Pharyngeal Muscle Specification from Primed Cardiopharyngeal Progenitors

(2014) Florian Razy-Krajka et al.   DEVELOPMENTAL CELL

Tbx1 is required autonomously for cell survival and fate in the pharyngeal core mesoderm to form the muscles of mastication

(2014) Ping Kong et al.   HUMAN MOLECULAR GENETICS

The dynamics and regulators of cell fate decisions are revealed by pseudotemporal ordering of single cells

(2014) Cole Trapnell et al.   NATURE BIOTECHNOLOGY

Early lineage restriction in temporally distinct populations of Mesp1 progenitors during mammalian heart development

(2014) Fabienne Lescroart et al.   NATURE CELL BIOLOGY

Early patterning and specification of cardiac progenitors in gastrulating mesoderm

(2014) W Patrick Devine et al.   eLife

Tbx1 is required for second heart field proliferation in zebrafish

(2013) Kathleen Nevis et al.   DEVELOPMENTAL DYNAMICS

Temporal patterning of Drosophila medulla neuroblasts controls neural fates

(2013) Xin Li et al.   NATURE

Smart-seq2 for sensitive full-length transcriptome profiling in single cells

(2013) Simone Picelli et al.   NATURE METHODS

NK4 Antagonizes Tbx1/10 to Promote Cardiac versus Pharyngeal Muscle Fate in the Ascidian Second Heart Field

(2013) Wei Wang et al.   PLOS BIOLOGY

TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions

(2013) Daehwan Kim et al.   GENOME BIOLOGY

Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks

(2012) Cole Trapnell et al.   Nature Protocols

PANTHER in 2013: modeling the evolution of gene function, and other gene attributes, in the context of phylogenetic trees

(2012) Huaiyu Mi et al.   NUCLEIC ACIDS RESEARCH

Pharyngeal mesoderm regulatory network controls cardiac and head muscle morphogenesis

(2012) I. Harel et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A Tbx1-Six1/Eya1-Fgf8 genetic pathway controls mammalian cardiovascular and craniofacial morphogenesis

(2011) Chaoshe Guo et al.   JOURNAL OF CLINICAL INVESTIGATION

Arterial pole progenitors interpret opposing FGF/BMP signals to proliferate or differentiate

(2010) M. R. Hutson et al.   DEVELOPMENT

Clonal analysis reveals common lineage relationships between head muscles and second heart field derivatives in the mouse embryo

(2010) F. Lescroart et al.   DEVELOPMENT

BMP-mediated inhibition of FGF signaling promotes cardiomyocyte differentiation of anterior heart field progenitors

(2010) L. Tirosh-Finkel et al.   DEVELOPMENT

Early Chordate Origins of the Vertebrate Second Heart Field

(2010) A. Stolfi et al.   SCIENCE

edgeR: a Bioconductor package for differential expression analysis of digital gene expression data

(2009) M. D. Robinson et al.   BIOINFORMATICS

Epicardium and Myocardium Separate From a Common Precursor Pool by Crosstalk Between Bone Morphogenetic Protein– and Fibroblast Growth Factor–Signaling Pathways

(2009) Bram van Wijk et al.   CIRCULATION RESEARCH

Tbx1 Regulates Proliferation and Differentiation of Multipotent Heart Progenitors

(2009) Li Chen et al.   CIRCULATION RESEARCH

The molecular circuitry governing retinal determination

(2008) Justin P. Kumar   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms

The contribution of Islet1-expressing splanchnic mesoderm cells to distinct branchiomeric muscles reveals significant heterogeneity in head muscle development

(2008) E. Nathan et al.   DEVELOPMENT

Frs2 -deficiency in cardiac progenitors disrupts a subset of FGF signals required for outflow tract morphogenesis

(2008) J. Zhang et al.   DEVELOPMENT

Identification of downstream genetic pathways of Tbx1 in the second heart field

(2008) Jun Liao et al.   DEVELOPMENTAL BIOLOGY

Reiterative roles for FGF signaling in the establishment of size and proportion of the zebrafish heart

(2008) Sara R. Marques et al.   DEVELOPMENTAL BIOLOGY