Developmental barcoding of whole mouse via homing CRISPR

Neural lineage tracing in the mammalian brain

(2018) Jian Ma et al.   CURRENT OPINION IN NEUROBIOLOGY

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

CRISPR/Cas9 cleavages in budding yeast reveal templated insertions and strand-specific insertion/deletion profiles

(2018) Brenda R. Lemos et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Haldane, Waddington and recombinant inbred lines: extension of their work to any number of genes

(2017) Areejit Samal et al.   JOURNAL OF GENETICS

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

(2017) Kirsten L. Frieda et al.   NATURE

CRISPR–Cas encoding of a digital movie into the genomes of a population of living bacteria

(2017) Seth L. Shipman et al.   NATURE

Programmable base editing of A•T to G•C in genomic DNA without DNA cleavage

(2017) Nicole M. Gaudelli et al.   NATURE

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

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

Multiplex recording of cellular events over time on CRISPR biological tape

(2017) Ravi U. Sheth et al.   SCIENCE

CRISPR/Cas9 targeting events cause complex deletions and insertions at 17 sites in the mouse genome

(2017) Ha Youn Shin et al.   Nature Communications

Quantitative Analysis of Synthetic Cell Lineage Tracing Using Nuclease Barcoding

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

Lineage tracing of genome-edited alleles reveals high fidelity axolotl limb regeneration

(2017) Grant Parker Flowers et al.   eLife

Examining Sources of Error in PCR by Single-Molecule Sequencing

(2017) Vladimir Potapov et al.   PLoS One

Reproducibility of Illumina platform deep sequencing errors allows accurate determination of DNA barcodes in cells

(2016) Joost B. Beltman et al.   BMC BIOINFORMATICS

DNA Repair Profiling Reveals Nonrandom Outcomes at Cas9-Mediated Breaks

(2016) Megan van Overbeek et al.   MOLECULAR CELL

Programmable editing of a target base in genomic DNA without double-stranded DNA cleavage

(2016) Alexis C. Komor et al.   NATURE

Rapidly evolving homing CRISPR barcodes

(2016) Reza Kalhor et al.   NATURE METHODS

High-Throughput Mapping of Single-Neuron Projections by Sequencing of Barcoded RNA

(2016) Justus M. Kebschull et al.   NEURON

Whole-organism lineage tracing by combinatorial and cumulative genome editing

(2016) Aaron McKenna et al.   SCIENCE

Continuous genetic recording with self-targeting CRISPR-Cas in human cells

(2016) S. D. Perli et al.   SCIENCE

Cas9-catalyzed DNA Cleavage Generates Staggered Ends: Evidence from Molecular Dynamics Simulations

(2016) Zhicheng Zuo et al.   Scientific Reports

Pancreatic cancer modeling using retrograde viral vector delivery and in vivo CRISPR/Cas9-mediated somatic genome editing

(2015) Shin-Heng Chiou et al.   GENES & DEVELOPMENT

Tag jumps illuminated - reducing sequence-to-sample misidentifications in metabarcoding studies

(2015) Ida Baerholm Schnell et al.   Molecular Ecology Resources

Inducible in vivo genome editing with CRISPR-Cas9

(2015) Lukas E Dow et al.   NATURE BIOTECHNOLOGY

A light-inducible CRISPR-Cas9 system for control of endogenous gene activation

(2015) Lauren R Polstein et al.   Nature Chemical Biology

Zygotic Genome Activation During the Maternal-to-Zygotic Transition

(2014) Miler T. Lee et al.   Annual Review of Cell and Developmental Biology

CRISPR-Cas9 Knockin Mice for Genome Editing and Cancer Modeling

(2014) Randall J. Platt et al.   CELL

Initiation of Hippo signaling is linked to polarity rather than to cell position in the pre-implantation mouse embryo

(2014) Shihadeh Anani et al.   DEVELOPMENT

Cellular barcoding: A technical appraisal

(2014) Shalin H. Naik et al.   EXPERIMENTAL HEMATOLOGY

Characterization of Genomic Deletion Efficiency Mediated by Clustered Regularly Interspaced Palindromic Repeats (CRISPR)/Cas9 Nuclease System in Mammalian Cells

(2014) Matthew C. Canver et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Ward’s Hierarchical Agglomerative Clustering Method: Which Algorithms Implement Ward’s Criterion?

(2014) Fionn Murtagh et al.   JOURNAL OF CLASSIFICATION

GUIDE-seq enables genome-wide profiling of off-target cleavage by CRISPR-Cas nucleases

(2014) Shengdar Q Tsai et al.   NATURE BIOTECHNOLOGY

In vivo generation of DNA sequence diversity for cellular barcoding

(2014) Ian D. Peikon et al.   NUCLEIC ACIDS RESEARCH

Multi-kilobase homozygous targeted gene replacement in human induced pluripotent stem cells

(2014) Susan M. Byrne et al.   NUCLEIC ACIDS RESEARCH

Structures of Cas9 Endonucleases Reveal RNA-Mediated Conformational Activation

(2014) M. Jinek et al.   SCIENCE

Highly Multiplexed Subcellular RNA Sequencing in Situ

(2014) J. H. Lee et al.   SCIENCE

Improved tools for the Brainbow toolbox

(2013) Dawen Cai et al.   NATURE METHODS

Potent and long-lasting inhibition of human P2X2 receptors by copper

(2013) Sukanya Punthambaker et al.   NEUROPHARMACOLOGY

RNA-Guided Human Genome Engineering via Cas9

(2013) P. Mali et al.   SCIENCE

Physical principles for scalable neural recording

(2013) Adam H. Marblestone et al.   Frontiers in Computational Neuroscience

The Role of Organizers in Patterning the Nervous System

(2012) Clemens Kiecker et al.   Annual Review of Neuroscience

Lineage Tracing

(2012) Kai Kretzschmar et al.   CELL

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Cas9-crRNA ribonucleoprotein complex mediates specific DNA cleavage for adaptive immunity in bacteria

(2012) G. Gasiunas et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A Programmable Dual-RNA-Guided DNA Endonuclease in Adaptive Bacterial Immunity

(2012) M. Jinek et al.   SCIENCE

Whole Animal Perfusion Fixation for Rodents

(2012) Gregory J. Gage et al.   Jove-Journal of Visualized Experiments

FACS purification of immunolabeled cell types from adult rat brain

(2011) Danielle Guez-Barber et al.   JOURNAL OF NEUROSCIENCE METHODS

phangorn: phylogenetic analysis in R

(2010) Klaus Peter Schliep   BIOINFORMATICS

Cellular barcoding tool for clonal analysis in the hematopoietic system

(2010) A. Gerrits et al.   BLOOD

SnapShot: Nonhomologous DNA End Joining (NHEJ)

(2010) Michael R. Lieber et al.   CELL

Targeted chromosomal deletions in human cells using zinc finger nucleases

(2009) H. J. Lee et al.   GENOME RESEARCH

Making a commitment: cell lineage allocation and axis patterning in the early mouse embryo

(2009) Sebastian J. Arnold et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY