Comparative analysis of cell lineage differentiation during hepatogenesis in humans and mice at the single-cell transcriptome level

Deciphering human macrophage development at single-cell resolution

(2020) Zhilei Bian et al.   NATURE

Interrogation of human hematopoiesis at single-cell and single-variant resolution

(2019) Jacob C. Ulirsch et al.   NATURE GENETICS

Lgr5+ stem/progenitor cells reside at the apex of a heterogeneous embryonic hepatoblast pool

(2019) Nicole Prior et al.   DEVELOPMENT

Efficient integration of heterogeneous single-cell transcriptomes using Scanorama

(2019) Brian Hie et al.   NATURE BIOTECHNOLOGY

DoubletFinder: Doublet Detection in Single-Cell RNA Sequencing Data Using Artificial Nearest Neighbors

(2019) Christopher S. McGinnis et al.   Cell Systems

A human liver cell atlas reveals heterogeneity and epithelial progenitors

(2019) Nadim Aizarani et al.   NATURE

Single cell analysis of human foetal liver captures the transcriptional profile of hepatobiliary hybrid progenitors

(2019) Joe M. Segal et al.   Nature Communications

Tracing the first hematopoietic stem cell generation in human embryo by single-cell RNA sequencing

(2019) Yang Zeng et al.   CELL RESEARCH

Decoding human fetal liver haematopoiesis

(2019) Dorin-Mirel Popescu et al.   NATURE

Myeloperoxidase: Its role for host defense, inflammation, and neutrophil function

(2018) Yasuaki Aratani   ARCHIVES OF BIOCHEMISTRY AND BIOPHYSICS

STAT3, stem cells, cancer stem cells and p63

(2018) Michaela Galoczova et al.   CELLULAR & MOLECULAR BIOLOGY LETTERS

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

(2018) Andrew Butler et al.   NATURE BIOTECHNOLOGY

Fetal liver: an ideal niche for hematopoietic stem cell expansion

(2018) Suwei Gao et al.   Science China-Life Sciences

RNA velocity of single cells

(2018) Gioele La Manno et al.   NATURE

The contributions of mesoderm-derived cells in liver development

(2018) Li Yang et al.   SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY

Haematopoiesis in the era of advanced single-cell technologies

(2018) Sten Eirik W. Jacobsen et al.   NATURE CELL BIOLOGY

Single cell RNA sequencing of human liver reveals distinct intrahepatic macrophage populations

(2018) Sonya A. MacParland et al.   Nature Communications

UMI-tools: modeling sequencing errors in Unique Molecular Identifiers to improve quantification accuracy

(2017) Tom Smith et al.   GENOME RESEARCH

A single-cell transcriptomic analysis reveals precise pathways and regulatory mechanisms underlying hepatoblast differentiation

(2017) Li Yang et al.   HEPATOLOGY

Metabolic control of primed human pluripotent stem cell fate and function by the miR-200c–SIRT2 axis

(2017) Young Cha et al.   NATURE CELL BIOLOGY

On the development of the hepatopancreatic ductal system

(2017) Alethia Villasenor et al.   SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY

Gene regulatory networks in differentiation and direct reprogramming of hepatic cells

(2017) Claude Gérard et al.   SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY

Transcriptional Heterogeneity and Lineage Commitment in Myeloid Progenitors

(2016) Franziska Paul et al.   CELL

Liver immunology and its role in inflammation and homeostasis

(2016) Mark W Robinson et al.   Cellular & Molecular Immunology

Exploring the cell signalling in hepatocyte differentiation

(2016) Rebecca Vasconcellos et al.   CELLULAR SIGNALLING

Identification of neutrophil surface marker changes in health and inflammation using high-throughput screening flow cytometry

(2016) Flavia S. Lakschevitz et al.   EXPERIMENTAL CELL RESEARCH

Hematopoietic stem cell-independent hematopoiesis: emergence of erythroid, megakaryocyte, and myeloid potential in the mammalian embryo

(2016) James Palis   FEBS LETTERS

Yolk Sac Macrophages, Fetal Liver, and Adult Monocytes Can Colonize an Empty Niche and Develop into Functional Tissue-Resident Macrophages

(2016) Lianne van de Laar et al.   IMMUNITY

Specification of tissue-resident macrophages during organogenesis

(2016) E. Mass et al.   SCIENCE

Comprehensive Proteomic Analysis of Human Erythropoiesis

(2016) Emilie-Fleur Gautier et al.   Cell Reports

Orchestrating liver development

(2015) M. Gordillo et al.   DEVELOPMENT

Transcription factors SOX4 and SOX9 cooperatively control development of bile ducts

(2015) Alexis Poncy et al.   DEVELOPMENTAL BIOLOGY

Core Pluripotency Factors Directly Regulate Metabolism in Embryonic Stem Cell to Maintain Pluripotency

(2015) Hyunsoo Kim et al.   STEM CELLS

B cell Biology: An Overview

(2014) Hermann Eibel et al.   CURRENT ALLERGY AND ASTHMA REPORTS

Lin-Sca1+Kit- Bone Marrow Cells Contain Early Lymphoid-Committed Precursors That Are Distinct from Common Lymphoid Progenitors

(2014) R. Kumar et al.   JOURNAL OF IMMUNOLOGY

Broader expression of the mouse platelet factor 4-cre transgene beyond the megakaryocyte lineage

(2014) F. Pertuy et al.   JOURNAL OF THROMBOSIS AND HAEMOSTASIS

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

(2014) Cole Trapnell et al.   NATURE BIOTECHNOLOGY

Gene Expression during the Generation and Activation of Mouse Neutrophils: Implication of Novel Functional and Regulatory Pathways

(2014) Jeffrey A. Ericson et al.   PLoS One

Ontogeny of Myeloid Cells

(2014) Ismé De Kleer et al.   Frontiers in Immunology

featureCounts: an efficient general purpose program for assigning sequence reads to genomic features

(2013) Y. Liao et al.   BIOINFORMATICS

Embryonic hematopoiesis

(2013) Rachel Golub et al.   BLOOD CELLS MOLECULES AND DISEASES

Granule maturation in mast cells: Histamine in control

(2013) Jenny Hallgren et al.   EUROPEAN JOURNAL OF IMMUNOLOGY

Erythropoiesis: Development and Differentiation

(2013) E. Dzierzak et al.   Cold Spring Harbor Perspectives in Medicine

Regulation of GATA Factor Expression Is Distinct between Erythroid and Mast Cell Lineages

(2012) S. Ohmori et al.   MOLECULAR AND CELLULAR BIOLOGY

clusterProfiler: an R Package for Comparing Biological Themes Among Gene Clusters

(2012) Guangchuang Yu et al.   OMICS-A JOURNAL OF INTEGRATIVE BIOLOGY

S100A8 and S100A9 in Cardiovascular Biology and Disease

(2011) Michelle M. Averill et al.   ARTERIOSCLEROSIS THROMBOSIS AND VASCULAR BIOLOGY

From stem cell to red cell: regulation of erythropoiesis at multiple levels by multiple proteins, RNAs, and chromatin modifications

(2011) S. M. Hattangadi et al.   BLOOD

A novel Ly6C/Ly6G-based strategy to analyze the mouse splenic myeloid compartment

(2011) Shawn Rose et al.   CYTOMETRY PART A

Embryonic Ductal Plate Cells Give Rise to Cholangiocytes, Periportal Hepatocytes, and Adult Liver Progenitor Cells

(2011) Rodolphe Carpentier et al.   GASTROENTEROLOGY

HIF1  synergizes with glucocorticoids to promote BFU-E progenitor self-renewal

(2010) J. Flygare et al.   BLOOD

Advances in the understanding of haemoglobin switching

(2010) Vijay G. Sankaran et al.   BRITISH JOURNAL OF HAEMATOLOGY

Septum transversum-derived mesothelium gives rise to hepatic stellate cells and perivascular mesenchymal cells in developing mouse liver

(2010) Kinji Asahina et al.   HEPATOLOGY

Lymphoid and myeloid lineage commitment in multipotent hematopoietic progenitors

(2010) Motonari Kondo   IMMUNOLOGICAL REVIEWS

Development of Monocytes, Macrophages, and Dendritic Cells

(2010) F. Geissmann et al.   SCIENCE

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

A Functional Screen to Identify Novel Effectors of Hematopoietic Stem Cell Activity

(2009) Eric Deneault et al.   CELL

Notch2 signaling promotes biliary epithelial cell fate specification and tubulogenesis during bile duct development in mice

(2009) Jan S. Tchorz et al.   HEPATOLOGY

Analyses of cell surface molecules on hepatic stem/progenitor cells in mouse fetal liver

(2009) Sei Kakinuma et al.   JOURNAL OF HEPATOLOGY

Mouse hepatoblasts at distinct developmental stages are characterized by expression of EpCAM and DLK1: Drastic change of EpCAM expression during liver development

(2009) Minoru Tanaka et al.   MECHANISMS OF DEVELOPMENT

A robust and high-throughput Cre reporting and characterization system for the whole mouse brain

(2009) Linda Madisen et al.   NATURE NEUROSCIENCE

Embryology of Extra- and Intrahepatic Bile Ducts, the Ductal plate

(2008) T. Roskams et al.   Anatomical Record-Advances in Integrative Anatomy and Evolutionary Biology

Vascular Development and Differentiation During Human Liver Organogenesis

(2008) Sophie Collardeau-Frachon et al.   Anatomical Record-Advances in Integrative Anatomy and Evolutionary Biology

FGF signaling segregates biliary cell-lineage from chick hepatoblasts cooperatively with BMP4 and ECM components in vitro

(2008) Masaaki Yanai et al.   DEVELOPMENTAL DYNAMICS

Mesenchymal origin of hepatic stellate cells, submesothelial cells, and perivascular mesenchymal cells during mouse liver development

(2008) Kinji Asahina et al.   HEPATOLOGY

An optimized procedure for whole-mount in situ hybridization on mouse embryos and embryoid bodies

(2008) Denis Piette et al.   Nature Protocols