Decoding the regulatory network of early blood development from single-cell gene expression measurements

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

(2014) Cole Trapnell et al.   NATURE BIOTECHNOLOGY

Full-length RNA-seq from single cells using Smart-seq2

(2014) Simone Picelli et al.   Nature Protocols

CODEX: a next-generation sequencing experiment database for the haematopoietic and embryonic stem cell communities

(2014) Manuel Sánchez-Castillo et al.   NUCLEIC ACIDS RESEARCH

Construction and Validation of a Regulatory Network for Pluripotency and Self-Renewal of Mouse Embryonic Stem Cells

(2014) Huilei Xu et al.   PLoS Computational Biology

Hard-wired heterogeneity in blood stem cells revealed using a dynamic regulatory network model

(2013) Nicola Bonzanni et al.   BIOINFORMATICS

Transcriptional hierarchies regulating early blood cell development

(2013) Victoria Moignard et al.   BLOOD CELLS MOLECULES AND DISEASES

Mapping Cellular Hierarchy by Single-Cell Analysis of the Cell Surface Repertoire

(2013) Guoji Guo et al.   Cell Stem Cell

PDGF Receptor Alpha+ Mesoderm Contributes to Endothelial and Hematopoietic Cells in Mice

(2013) Guo Ding et al.   DEVELOPMENTAL DYNAMICS

Genetic programs in human and mouse early embryos revealed by single-cell RNA sequencing

(2013) Zhigang Xue et al.   NATURE

viSNE enables visualization of high dimensional single-cell data and reveals phenotypic heterogeneity of leukemia

(2013) El-ad David Amir et al.   NATURE BIOTECHNOLOGY

Characterization of transcriptional networks in blood stem and progenitor cells using high-throughput single-cell gene expression analysis

(2013) Victoria Moignard et al.   NATURE CELL BIOLOGY

Single-cell RNA-Seq profiling of human preimplantation embryos and embryonic stem cells

(2013) Liying Yan et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Analysis of Dll4 regulation reveals a combinatorial role for Sox and Notch in arterial development

(2013) N. Sacilotto et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Early dynamic fate changes in haemogenic endothelium characterized at the single-cell level

(2013) Gemma Swiers et al.   Nature Communications

Single site-specific integration targeting coupled with embryonic stem cell differentiation provides a high-throughput alternative to in vivo enhancer analyses

(2013) A. C. Wilkinson et al.   Biology Open

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

Dynamic HoxB4-regulatory network during embryonic stem cell differentiation to hematopoietic cells

(2012) R. Fan et al.   BLOOD

Investigating transcriptional states at single-cell-resolution

(2012) Julia Tischler et al.   CURRENT OPINION IN BIOTECHNOLOGY

Inferring rules of lineage commitment in haematopoiesis

(2012) Cristina Pina et al.   NATURE CELL BIOLOGY

Early ontogenic origin of the hematopoietic stem cell lineage

(2012) Y. Tanaka et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Flk1-Cre-Mediated Deletion of ETV2 Defines Its Narrow Temporal Requirement During Embryonic Hematopoietic Development

(2012) Sarah Wareing et al.   STEM CELLS

Origin of blood cells and HSC production in the embryo

(2012) Guilherme Costa et al.   TRENDS IN IMMUNOLOGY

ERG promotes T-acute lymphoblastic leukemia and is transcriptionally regulated in leukemic cells by a stem cell enhancer

(2011) J. A. I. Thoms et al.   BLOOD

Etv2/ER71 induces vascular mesoderm from Flk1+PDGFR + primitive mesoderm

(2011) H. Kataoka et al.   BLOOD

ERG dependence distinguishes developmental control of hematopoietic stem cell maintenance from hematopoietic specification

(2011) S. Taoudi et al.   GENES & DEVELOPMENT

Microbial environments confound antibiotic efficacy

(2011) Henry H Lee et al.   Nature Chemical Biology

Hierarchical Differentiation of Myeloid Progenitors Is Encoded in the Transcription Factor Network

(2011) Jan Krumsiek et al.   PLoS One

Resolution of Cell Fate Decisions Revealed by Single-Cell Gene Expression Analysis from Zygote to Blastocyst

(2010) Guoji Guo et al.   DEVELOPMENTAL CELL

Defining cell populations with single-cell gene expression profiling: correlations and identification of astrocyte subpopulations

(2010) Anders Ståhlberg et al.   NUCLEIC ACIDS RESEARCH

The transcriptional program controlled by the stem cell leukemia gene Scl/Tal1 during early embryonic hematopoietic development

(2009) N. K. Wilson et al.   BLOOD

Sox7-sustained expression alters the balance between proliferation and differentiation of hematopoietic progenitors at the onset of blood specification

(2009) A. Gandillet et al.   BLOOD

Epithelial-Mesenchymal Transitions in Development and Disease

(2009) Jean Paul Thiery et al.   CELL

Runx1 is required for the endothelial to haematopoietic cell transition but not thereafter

(2009) Michael J. Chen et al.   NATURE

Synchronous versus asynchronous modeling of gene regulatory networks

(2008) A. Garg et al.   BIOINFORMATICS

Interplay among Etsrp/ER71, Scl, and Alk8 signaling controls endothelial and myeloid cell formation

(2008) S. Sumanas et al.   BLOOD

The transcription factor Erg is essential for definitive hematopoiesis and the function of adult hematopoietic stem cells

(2008) Stephen J Loughran et al.   NATURE IMMUNOLOGY

All primitive and definitive hematopoietic progenitor cells emerging before E10 in the mouse embryo are products of the yolk sac

(2007) C. T. Lux et al.   BLOOD