Single-cell Stereo-seq reveals induced progenitor cells involved in axolotl brain regeneration

Mapping transcriptomic vector fields of single cells

(2022) Xiaojie Qiu et al.   CELL

Spatiotemporal transcriptomic atlas of mouse organogenesis using DNA nanoball-patterned arrays

(2022) Ao Chen et al.   CELL

Method of the Year: spatially resolved transcriptomics

(2021) Vivien Marx   NATURE METHODS

Transcriptome-scale spatial gene expression in the human dorsolateral prefrontal cortex

(2021) Kristen R. Maynard et al.   NATURE NEUROSCIENCE

M-CSF, IL-6, and TGF-β promote generation of a new subset of tissue repair macrophage for traumatic brain injury recovery

(2021) Zhiqi Li et al.   Science Advances

The giant axolotl genome uncovers the evolution, scaling, and transcriptional control of complex gene loci

(2021) Siegfried Schloissnig et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

MRI- and histologically derived neuroanatomical atlas of the Ambystoma mexicanum (axolotl)

(2021) Ivan Lazcano et al.   Scientific Reports

Integrated analysis of multimodal single-cell data

(2021) Yuhan Hao et al.   CELL

Single-nucleus chromatin accessibility and transcriptomic characterization of Alzheimer’s disease

(2021) Samuel Morabito et al.   NATURE GENETICS

Injured adult neurons regress to an embryonic transcriptional growth state

(2020) Gunnar H. D. Poplawski et al.   NATURE

Dynamic cell transition and immune response landscapes of axolotl limb regeneration revealed by single-cell analysis

(2020) Hanbo Li et al.   Protein & Cell

Molecular atlas of the adult mouse brain

(2020) Cantin Ortiz et al.   Science Advances

Transcriptional Reprogramming of Distinct Peripheral Sensory Neuron Subtypes after Axonal Injury

(2020) William Renthal et al.   NEURON

Walking with Salamanders: From Molecules to Biorobotics

(2020) Dimitri Ryczko et al.   TRENDS IN NEUROSCIENCES

Stem-cell-based embryo models for fundamental research and translation

(2020) Jianping Fu et al.   NATURE MATERIALS

Syndecan-1 Stimulates Adult Neurogenesis in the Mouse Ventricular-Subventricular Zone after Injury

(2020) Marc-André Mouthon et al.   iScience

A comparative perspective on brain regeneration in amphibians and teleost fish

(2019) Katharina Lust et al.   Developmental Neurobiology

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

Spatial transcriptome profiling by MERFISH reveals subcellular RNA compartmentalization and cell cycle-dependent gene expression

(2019) Chenglong Xia et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Human Transcription Factors

(2018) Samuel A. Lambert et al.   CELL

Homeostatic and regenerative neurogenesis in salamanders

(2018) Alberto Joven et al.   PROGRESS IN NEUROBIOLOGY

RNA velocity of single cells

(2018) Gioele La Manno et al.   NATURE

Single-cell analysis uncovers convergence of cell identities during axolotl limb regeneration

(2018) Tobias Gerber et al.   SCIENCE

Application and optimization of CRISPR–Cas9-mediated genome engineering in axolotl (Ambystoma mexicanum)

(2018) Ji-Feng Fei et al.   Nature Protocols

Miniscule differences between sex chromosomes in the giant genome of a salamander

(2018) Melissa C. Keinath et al.   Scientific Reports

Cellular localization of the cell cycle inhibitor Cdkn1c controls growth arrest of adult skeletal muscle stem cells

(2018) Despoina Mademtzoglou et al.   eLife

Tenascin-C in the matrisome of neural stem and progenitor cells

(2017) Andreas Faissner et al.   MOLECULAR AND CELLULAR NEUROSCIENCE

Single-cell mRNA quantification and differential analysis with Census

(2017) Xiaojie Qiu et al.   NATURE METHODS

p53 on the crossroad between regeneration and cancer

(2016) Meital Charni et al.   CELL DEATH AND DIFFERENTIATION

Adult axolotls can regenerate original neuronal diversity in response to brain injury

(2016) Ryoji Amamoto et al.   eLife

SeqKit: A Cross-Platform and Ultrafast Toolkit for FASTA/Q File Manipulation

(2016) Wei Shen et al.   PLoS One

Analysis of intronic and exonic reads in RNA-seq data characterizes transcriptional and post-transcriptional regulation

(2015) Dimos Gaidatzis et al.   NATURE BIOTECHNOLOGY

The Influence of Genome and Cell Size on Brain Morphology in Amphibians

(2015) Gerhard Roth et al.   Cold Spring Harbor Perspectives in Biology

Planar cell polarity-mediated induction of neural stem cell expansion during axolotl spinal cord regeneration

(2015) Aida Rodrigo Albors et al.   eLife

SOX2 Reprograms Resident Astrocytes into Neural Progenitors in the Adult Brain

(2015) Wenze Niu et al.   Stem Cell Reports

Biology of the cell cycle inhibitor p21CDKN1A: molecular mechanisms and relevance in chemical toxicology

(2014) Ilaria Dutto et al.   ARCHIVES OF TOXICOLOGY

scikit-image: image processing in Python

(2014) Stéfan van der Walt et al.   PeerJ

Progenitor Cell Dynamics in the Newt Telencephalon during Homeostasis and Neuronal Regeneration

(2014) Matthew Kirkham et al.   Stem Cell Reports

Proliferation zones in the axolotl brain and regeneration of the telencephalon

(2013) Malcolm Maden et al.   Neural Development

Comparative Transcriptional Profiling of the Axolotl Limb Identifies a Tripartite Regeneration-Specific Gene Program

(2013) Dunja Knapp et al.   PLoS One

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

Regenerative Neurogenesis from Neural Progenitor Cells Requires Injury-Induced Expression of Gata3

(2012) Caghan Kizil et al.   DEVELOPMENTAL CELL

Ribosomes take control

(2012) M. Barna   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Regeneration of the adult zebrafish brain from neurogenic radial glia-type progenitors

(2011) V. Kroehne et al.   DEVELOPMENT

Neuronal regeneration in a zebrafish model of adult brain injury

(2011) N. Kishimoto et al.   Disease Models & Mechanisms

Efficient regeneration by activation of neurogenesis in homeostatically quiescent regions of the adult vertebrate brain

(2010) D. A. Berg et al.   DEVELOPMENT

PTEN/mTOR and axon regeneration

(2010) Kevin K. Park et al.   EXPERIMENTAL NEUROLOGY

Considering the evolution of regeneration in the central nervous system

(2009) Elly M. Tanaka et al.   NATURE REVIEWS NEUROSCIENCE

Human Genome Sequencing Using Unchained Base Reads on Self-Assembling DNA Nanoarrays

(2009) R. Drmanac et al.   SCIENCE

WGCNA: an R package for weighted correlation network analysis

(2008) Peter Langfelder et al.   BMC BIOINFORMATICS

Investigation of Frizzled-5 during embryonic neural development in mouse

(2008) Carole J. Burns et al.   DEVELOPMENTAL DYNAMICS

A Sox1 to Pax6 Switch Drives Neuroectoderm to Radial Glia Progression During Differentiation of Mouse Embryonic Stem Cells

(2008) David M. Suter et al.   STEM CELLS