Whole-organism clone tracing using single-cell sequencing

Single-cell transcriptome analysis of fish immune cells provides insight into the evolution of vertebrate immune cell types

(2017) Santiago J. Carmona et al.   GENOME RESEARCH

Synthetic recording and in situ readout of lineage information in single cells

(2017) Kirsten L. Frieda et al.   NATURE

Scaling single-cell genomics from phenomenology to mechanism

(2017) Amos Tanay et al.   NATURE

Polylox barcoding reveals haematopoietic stem cell fates realized in vivo

(2017) Weike Pei et al.   NATURE

Quantitative Analysis of Synthetic Cell Lineage Tracing Using Nuclease Barcoding

(2017) Stephanie Tzouanas Schmidt et al.   ACS Synthetic Biology

Single-Cell RNA-Seq Reveals Hypothalamic Cell Diversity

(2017) Renchao Chen et al.   Cell Reports

Molecular Diversity of Midbrain Development in Mouse, Human, and Stem Cells

(2016) Gioele La Manno et al.   CELL

Live Monitoring of Blastemal Cell Contributions during Appendage Regeneration

(2016) Valerie A. Tornini et al.   CURRENT BIOLOGY

Identification of a conserved and acute neurodegeneration-specific microglial transcriptome in the zebrafish

(2016) Nynke Oosterhof et al.   GLIA

Single-cell transcriptional analysis of normal, aberrant, and malignant hematopoiesis in zebrafish

(2016) Finola E. Moore et al.   JOURNAL OF EXPERIMENTAL MEDICINE

CRISPR-Barcoding for Intratumor Genetic Heterogeneity Modeling and Functional Analysis of Oncogenic Driver Mutations

(2016) Alexis Guernet et al.   MOLECULAR CELL

Clonal fate mapping quantifies the number of haematopoietic stem cells that arise during development

(2016) Jonathan Henninger et al.   NATURE CELL BIOLOGY

Rapidly evolving homing CRISPR barcodes

(2016) Reza Kalhor et al.   NATURE METHODS

Oligodendrocyte heterogeneity in the mouse juvenile and adult central nervous system

(2016) S. Marques et al.   SCIENCE

Whole-organism lineage tracing by combinatorial and cumulative genome editing

(2016) Aaron McKenna et al.   SCIENCE

Single-Cell RNA-Sequencing Reveals a Continuous Spectrum of Differentiation in Hematopoietic Cells

(2016) Iain C. Macaulay et al.   Cell Reports

A Single-Cell Transcriptome Atlas of the Human Pancreas

(2016) Mauro J. Muraro et al.   Cell Systems

Temporal-Spatial Resolution Fate Mapping Reveals Distinct Origins for Embryonic and Adult Microglia in Zebrafish

(2015) Jin Xu et al.   DEVELOPMENTAL CELL

Single-cell messenger RNA sequencing reveals rare intestinal cell types

(2015) Dominic Grün et al.   NATURE

Genome sequencing of normal cells reveals developmental lineages and mutational processes

(2014) Sam Behjati et al.   NATURE

Clonal dynamics of native haematopoiesis

(2014) Jianlong Sun et al.   NATURE

Validation of noise models for single-cell transcriptomics

(2014) Dominic Grün et al.   NATURE METHODS

Spatial and Temporal Control of Transgene Expression in Zebrafish

(2014) Alexander A. Akerberg et al.   PLoS One

An exclusively mesodermal origin of fin mesenchyme demonstrates that zebrafish trunk neural crest does not generate ectomesenchyme

(2013) R. T. H. Lee et al.   DEVELOPMENT

Diverse and heritable lineage imprinting of early haematopoietic progenitors

(2013) Shalin H. Naik et al.   NATURE

The microglial sensome revealed by direct RNA sequencing

(2013) Suzanne E Hickman et al.   NATURE NEUROSCIENCE

Neurogenesis in zebrafish – from embryo to adult

(2013) Rebecca Schmidt et al.   Neural Development

Characterization of the Calcium Binding Protein Family in Zebrafish

(2013) Vincenzo Di Donato et al.   PLoS One

Efficient multiplex biallelic zebrafish genome editing using a CRISPR nuclease system

(2013) Li-En Jao et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Regeneration of Amputated Zebrafish Fin Rays from De Novo Osteoblasts

(2012) Sumeet Pal Singh et al.   DEVELOPMENTAL CELL

Gene-expression profiles and transcriptional regulatory pathways that underlie the identity and diversity of mouse tissue macrophages

(2012) Emmanuel L Gautier et al.   NATURE IMMUNOLOGY

Allen Brain Atlas: an integrated spatio-temporal portal for exploring the central nervous system

(2012) Susan M. Sunkin et al.   NUCLEIC ACIDS RESEARCH

Differential Recruitment of Brain Networks following Route and Cartographic Map Learning of Spatial Environments

(2012) Hui Zhang et al.   PLoS One

Bone Regenerates via Dedifferentiation of Osteoblasts in the Zebrafish Fin

(2011) Franziska Knopf et al.   DEVELOPMENTAL CELL

Fate Restriction in the Growing and Regenerating Zebrafish Fin

(2011) Shu Tu et al.   DEVELOPMENTAL CELL

Zebrafish as a model for normal and malignant hematopoiesis

(2011) L. Jing et al.   Disease Models & Mechanisms

Colon Stem Cell and Crypt Dynamics Exposed by Cell Lineage Reconstruction

(2011) Yitzhak Reizel et al.   PLoS Genetics

Control-free calling of copy number alterations in deep-sequencing data using GC-content normalization

(2010) Valentina Boeva et al.   BIOINFORMATICS

Comparative gene expression analysis of zebrafish and mammals identifies common regulators in hematopoietic stem cells

(2009) I. Kobayashi et al.   BLOOD

Transcription factors controlling osteoblastogenesis

(2008) Pierre J. Marie   ARCHIVES OF BIOCHEMISTRY AND BIOPHYSICS

The developmental sequence of gene expression within the rod photoreceptor lineage in embryonic zebrafish

(2008) Steve M. Nelson et al.   DEVELOPMENTAL DYNAMICS

A Transcriptome Database for Astrocytes, Neurons, and Oligodendrocytes: A New Resource for Understanding Brain Development and Function

(2008) J. D. Cahoy et al.   JOURNAL OF NEUROSCIENCE

Reconstruction of Zebrafish Early Embryonic Development by Scanned Light Sheet Microscopy

(2008) P. J. Keller et al.   SCIENCE