High-throughput dense reconstruction of cell lineages

Lineage tracing using a Cas9-deaminase barcoding system targeting endogenous L1 elements

(2019) Byungjin Hwang et al.   Nature Communications

Transcriptome-scale super-resolved imaging in tissues by RNA seqFISH+

(2019) Chee-Huat Linus Eng et al.   NATURE

The single-cell transcriptional landscape of mammalian organogenesis

(2019) Junyue Cao et al.   NATURE

Molecular recording of mammalian embryogenesis

(2019) Michelle M. Chan et al.   NATURE

SABER amplifies FISH: enhanced multiplexed imaging of RNA and DNA in cells and tissues

(2019) Jocelyn Y. Kishi et al.   NATURE METHODS

Single-Cell RNA-Seq Technologies and Related Computational Data Analysis

(2019) Geng Chen et al.   Frontiers in Genetics

Recording development with single cell dynamic lineage tracing

(2019) Aaron McKenna et al.   DEVELOPMENT

Unlimited Genetic Switches for Cell-Type-Specific Manipulation

(2019) Jorge Garcia-Marques et al.   NEURON

Whole-organism clone tracing using single-cell sequencing

(2018) Anna Alemany et al.   NATURE

Simultaneous single-cell profiling of lineages and cell types in the vertebrate brain

(2018) Bushra Raj et al.   NATURE BIOTECHNOLOGY

Simultaneous lineage tracing and cell-type identification using CRISPR–Cas9-induced genetic scars

(2018) Bastiaan Spanjaard et al.   NATURE BIOTECHNOLOGY

Rewritable multi-event analog recording in bacterial and mammalian cells

(2018) Weixin Tang et al.   SCIENCE

Cell type atlas and lineage tree of a whole complex animal by single-cell transcriptomics

(2018) Mireya Plass et al.   SCIENCE

Three-dimensional intact-tissue sequencing of single-cell transcriptional states

(2018) Xiao Wang et al.   SCIENCE

Single-cell reconstruction of developmental trajectories during zebrafish embryogenesis

(2018) Jeffrey A. Farrell et al.   SCIENCE

The dynamics of gene expression in vertebrate embryogenesis at single-cell resolution

(2018) James A. Briggs et al.   SCIENCE

Single-cell mapping of gene expression landscapes and lineage in the zebrafish embryo

(2018) Daniel E. Wagner et al.   SCIENCE

Retrotransposon-induced mosaicism in the neural genome

(2018) Gabriela O. Bodea et al.   Open Biology

Live cell-lineage tracing and machine learning reveal patterns of organ regeneration

(2018) Oriol Viader-Llargués et al.   eLife

Multi-view light-sheet imaging and tracking with the MaMuT software reveals the cell lineage of a direct developing arthropod limb

(2018) Carsten Wolff et al.   eLife

Developmental barcoding of whole mouse via homing CRISPR

(2018) Reza Kalhor et al.   SCIENCE

Base editing: precision chemistry on the genome and transcriptome of living cells

(2018) Holly A. Rees et al.   NATURE REVIEWS GENETICS

Temporal control of Drosophila central nervous system development

(2018) Rosa Linda Miyares et al.   CURRENT OPINION IN NEUROBIOLOGY

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

(2017) Kirsten L. Frieda et al.   NATURE

Sequencing thousands of single-cell genomes with combinatorial indexing

(2017) Sarah A Vitak et al.   NATURE METHODS

Building a lineage from single cells: genetic techniques for cell lineage tracking

(2017) Mollie B. Woodworth et al.   NATURE REVIEWS GENETICS

Comprehensive single-cell transcriptional profiling of a multicellular organism

(2017) Junyue Cao et al.   SCIENCE

Distribution of neurosensory progenitor pools during inner ear morphogenesis unveiled by cell lineage reconstruction

(2017) Sylvia Dyballa et al.   eLife

Comprehensive Classification of Retinal Bipolar Neurons by Single-Cell Transcriptomics

(2016) Karthik Shekhar et al.   CELL

Non-insect crustacean models in developmental genetics including an encomium to Parhyale hawaiensis

(2016) Evangelia Stamataki et al.   CURRENT OPINION IN GENETICS & DEVELOPMENT

A generic, cost-effective, and scalable cell lineage analysis platform

(2016) Tamir Biezuner et al.   GENOME RESEARCH

Whole-organism lineage tracing by combinatorial and cumulative genome editing

(2016) Aaron McKenna et al.   SCIENCE

Regulation of Single-Strand Annealing and its Role in Genome Maintenance

(2016) Ragini Bhargava et al.   TRENDS IN GENETICS

UbC-StarTrack, a clonal method to target the entire progeny of individual progenitors

(2016) María Figueres-Oñate et al.   Scientific Reports

Boosting CRISPR/Cas9 multiplex editing capability with the endogenous tRNA-processing system

(2015) Kabin Xie et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Multiplex Cell and Lineage Tracking with Combinatorial Labels

(2014) Karine Loulier et al.   NEURON

Use of somatic mutations to quantify random contributions to mouse development

(2013) Wenyu Zhou et al.   BMC GENOMICS

Cell lineage analysis of acute leukemia relapse uncovers the role of replication-rate heterogeneity and microsatellite instability

(2012) L. I. Shlush et al.   BLOOD

Hierarchical Deployment of Factors Regulating Temporal Fate in a Diverse Neuronal Lineage of the Drosophila Central Brain

(2012) Chih-Fei Kao et al.   NEURON

Transcription factor Olig2 defines subpopulations of retinal progenitor cells biased toward specific cell fates

(2012) B. P. Hafler et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Lineage Analysis of Drosophila Lateral Antennal Lobe Neurons Reveals Notch-Dependent Binary Temporal Fate Decisions

(2012) Suewei Lin et al.   PLOS BIOLOGY

Ataxia telangiectasia mutated (ATM) modulates long interspersed element-1 (L1) retrotransposition in human neural stem cells

(2011) N. G. Coufal et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Passenger mutations as a marker of clonal cell lineages in emerging neoplasia

(2010) Jesse J. Salk et al.   SEMINARS IN CANCER BIOLOGY

A Complete Developmental Sequence of a Drosophila Neuronal Lineage as Revealed by Twin-Spot MARCM

(2010) Hung-Hsiang Yu et al.   PLOS BIOLOGY

Twin-spot MARCM to reveal the developmental origin and identity of neurons

(2009) Hung-Hsiang Yu et al.   NATURE NEUROSCIENCE

Reconstruction of Cell Lineage Trees in Mice

(2008) Adam Wasserstrom et al.   PLoS One