Maps of variability in cell lineage trees

Single-Cell Transcriptomics Meets Lineage Tracing

(2018) Lennart Kester et al.   Cell Stem Cell

On the statistical analysis of single cell lineage trees

(2018) Tanja Stadler et al.   JOURNAL OF THEORETICAL BIOLOGY

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

Stem cells: lineage tracing lets single cells talk about their past

(2018) Vivien Marx   NATURE METHODS

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

(2018) Daniel E. Wagner et al.   SCIENCE

Lineage marker synchrony in hematopoietic genealogies refutes the PU.1/GATA1 toggle switch paradigm

(2018) Michael K. Strasser et al.   Nature Communications

Systems biology of embryonic development: Prospects for a complete understanding of the Caenorhabditis elegans embryo

(2018) John Isaac Murray   Wiley Interdisciplinary Reviews-Developmental Biology

Forty years of cellular clues from worms

(2017) Paul W. Sternberg   NATURE

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

(2017) Kirsten L. Frieda et al.   NATURE

The trickiest family tree in biology

(2017) Ewen Callaway   NATURE

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

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

Quantitative Analysis of Synthetic Cell Lineage Tracing Using Nuclease Barcoding

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

Single-Cell Approaches: Pandora’s Box of Developmental Mechanisms

(2016) Anna-Katerina Hadjantonakis et al.   DEVELOPMENTAL CELL

Real-Time Three-Dimensional Cell Segmentation in Large-Scale Microscopy Data of Developing Embryos

(2016) Johannes Stegmaier et al.   DEVELOPMENTAL CELL

Group Symmetric Robust Covariance Estimation

(2016) Ilya Soloveychik et al.   IEEE TRANSACTIONS ON SIGNAL PROCESSING

Challenges in long-term imaging and quantification of single-cell dynamics

(2016) Stavroula Skylaki et al.   NATURE BIOTECHNOLOGY

Whole-organism lineage tracing by combinatorial and cumulative genome editing

(2016) Aaron McKenna et al.   SCIENCE

Long-term time-lapse microscopy of C. elegans post-embryonic development

(2016) Nicola Gritti et al.   Nature Communications

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

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

Analysis of Cell Lineage Trees by Exact Bayesian Inference Identifies Negative Autoregulation of Nanog in Mouse Embryonic Stem Cells

(2016) Justin Feigelman et al.   Cell Systems

Inferring Cell-State Transition Dynamics from Lineage Trees and Endpoint Single-Cell Measurements

(2016) Sahand Hormoz et al.   Cell Systems

Factor graph analysis of live cell–imaging data reveals mechanisms of cell fate decisions

(2015) Theresa Niederberger et al.   BIOINFORMATICS

Defiant daughters and coordinated cousins

(2015) Andreas Hilfinger et al.   NATURE

Lineage correlations of single cell division time as a probe of cell-cycle dynamics

(2015) Oded Sandler et al.   NATURE

Digital development: a database of cell lineage differentiation inC. eleganswith lineage phenotypes, cell-specific gene functions and a multiscale model

(2015) Anthony Santella et al.   NUCLEIC ACIDS RESEARCH

Inferring epigenetic dynamics from kin correlations

(2015) Sahand Hormoz et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Real-time tracking of cell cycle progression during CD8+ effector and memory T-cell differentiation

(2015) Ichiko Kinjyo et al.   Nature Communications

De Novo Inference of Systems-Level Mechanistic Models of Development from Live-Imaging-Based Phenotype Analysis

(2014) Zhuo Du et al.   CELL

Fast, accurate reconstruction of cell lineages from large-scale fluorescence microscopy data

(2014) Fernando Amat et al.   NATURE METHODS

TACTICS, an interactive platform for customized high-content bioimaging analysis

(2013) R. Shimoni et al.   BIOINFORMATICS

Statistical study of asymmetry in cell lineage data

(2013) Benoîte de Saporta et al.   COMPUTATIONAL STATISTICS & DATA ANALYSIS

Single-cell sequencing-based technologies will revolutionize whole-organism science

(2013) Ehud Shapiro et al.   NATURE REVIEWS GENETICS

Group symmetry and covariance regularization

(2012) Parikshit Shah et al.   Electronic Journal of Statistics

Long-term single-cell imaging of mammalian stem cells

(2011) Timm Schroeder   NATURE METHODS

Asymmetric Cell Division of T Cells upon Antigen Presentation Uses Multiple Conserved Mechanisms

(2010) J. Oliaro et al.   JOURNAL OF IMMUNOLOGY

The effect of correlations on the population dynamics of lymphocytes

(2010) C. Wellard et al.   JOURNAL OF THEORETICAL BIOLOGY

Stochasticity versus determinism in development: a false dichotomy?

(2010) Magdalena Zernicka-Goetz et al.   NATURE REVIEWS GENETICS

Cell Lineage Reconstruction of Early Zebrafish Embryos Using Label-Free Nonlinear Microscopy

(2010) N. Olivier et al.   SCIENCE

High resolution cell lineage tracing reveals developmental variability in leech

(2009) Stephanie E. Gline et al.   DEVELOPMENTAL DYNAMICS

Cell Lineage Analysis of a Mouse Tumor

(2008) D. Frumkin et al.   CANCER RESEARCH

Control of cell cycle timing during C. elegans embryogenesis

(2008) Zhirong Bao et al.   DEVELOPMENTAL BIOLOGY

Reconstruction of Cell Lineage Trees in Mice

(2008) Adam Wasserstrom et al.   PLoS One

Reconstruction of Zebrafish Early Embryonic Development by Scanned Light Sheet Microscopy

(2008) P. J. Keller et al.   SCIENCE