Developmental landscape of human forebrain at a single-cell level identifies early waves of oligodendrogenesis

CellRank for directed single-cell fate mapping

(2022) Marius Lange et al.   NATURE METHODS

ArchR is a scalable software package for integrative single-cell chromatin accessibility analysis

(2021) Jeffrey M. Granja et al.   NATURE GENETICS

Heterogeneity of glial progenitor cells during the neurogenesis-to-gliogenesis switch in the developing human cerebral cortex

(2021) Yuanyuan Fu et al.   Cell Reports

Single-cell atlas of early human brain development highlights heterogeneity of human neuroepithelial cells and early radial glia

(2021) Ugomma C. Eze et al.   NATURE NEUROSCIENCE

UCSC Cell Browser: visualize your single-cell data

(2021) Matthew L Speir et al.   BIOINFORMATICS

Integrated analysis of multimodal single-cell data

(2021) Yuhan Hao et al.   CELL

Single-cell transcriptome profiling of the human developing spinal cord reveals a conserved genetic programme with human-specific features

(2021) Teresa Rayon et al.   DEVELOPMENT

Molecular logic of cellular diversification in the mouse cerebral cortex

(2021) Daniela J. Di Bella et al.   NATURE

Comprehensive in situ mapping of human cortical transcriptomic cell types

(2021) Christoffer Mattsson Langseth et al.   Communications Biology

Human Glial Progenitor Cells Effectively Remyelinate the Demyelinated Adult Brain

(2020) Martha S. Windrem et al.   Cell Reports

Origins and Proliferative States of Human Oligodendrocyte Precursor Cells

(2020) Wei Huang et al.   CELL

Generalizing RNA velocity to transient cell states through dynamical modeling

(2020) Volker Bergen et al.   NATURE BIOTECHNOLOGY

A scalable SCENIC workflow for single-cell gene regulatory network analysis

(2020) Bram Van de Sande et al.   Nature Protocols

Hybridization-based in situ sequencing (HybISS) for spatially resolved transcriptomics in human and mouse brain tissue

(2020) Daniel Gyllborg et al.   NUCLEIC ACIDS RESEARCH

Distinct oligodendrocyte populations have spatial preference and different responses to spinal cord injury

(2020) Elisa M. Floriddia et al.   Nature Communications

The single-cell transcriptional landscape of mammalian organogenesis

(2019) Junyue Cao et al.   NATURE

Single-Cell Transcriptomics Uncovers Glial Progenitor Diversity and Cell Fate Determinants during Development and Gliomagenesis

(2019) Qinjie Weng et al.   Cell Stem Cell

Comprehensive Integration of Single-Cell Data

(2019) Tim Stuart et al.   CELL

Crazy Little Thing Called Sox—New Insights in Oligodendroglial Sox Protein Function

(2019) Jan Wittstatt et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Starfish enterprise: finding RNA patterns in single cells

(2019) Jeffrey M. Perkel   NATURE

ilastik: interactive machine learning for (bio)image analysis

(2019) Stuart Berg et al.   NATURE METHODS

Probabilistic cell typing enables fine mapping of closely related cell types in situ

(2019) Xiaoyan Qian et al.   NATURE METHODS

Fast, sensitive and accurate integration of single-cell data with Harmony

(2019) Ilya Korsunsky et al.   NATURE METHODS

From single-cell RNA-seq to transcriptional regulation

(2019) Gioele La Manno   NATURE BIOTECHNOLOGY

The Dorsal Wave of Neocortical Oligodendrogenesis Begins Embryonically and Requires Multiple Sources of Sonic Hedgehog

(2018) Caitlin C Winkler et al.   JOURNAL OF NEUROSCIENCE

Insm1 Induces Neural Progenitor Delamination in Developing Neocortex via Downregulation of the Adherens Junction Belt-Specific Protein Plekha7

(2018) Stefania Tavano et al.   NEURON

Molecular Architecture of the Mouse Nervous System

(2018) Amit Zeisel et al.   CELL

Transcriptional Convergence of Oligodendrocyte Lineage Progenitors during Development

(2018) Sueli Marques et al.   DEVELOPMENTAL CELL

chromVAR: inferring transcription-factor-associated accessibility from single-cell epigenomic data

(2017) Alicia N Schep et al.   NATURE METHODS

SCENIC: single-cell regulatory network inference and clustering

(2017) Sara Aibar et al.   NATURE METHODS

Spatiotemporal gene expression trajectories reveal developmental hierarchies of the human cortex

(2017) Tomasz J. Nowakowski et al.   SCIENCE

IL-17 induced NOTCH1 activation in oligodendrocyte progenitor cells enhances proliferation and inflammatory gene expression

(2017) Chenhui Wang et al.   Nature Communications

Foxb1 Regulates Negatively the Proliferation of Oligodendrocyte Progenitors

(2017) Yuanfeng Zhang et al.   Frontiers in Neuroanatomy

Doublecortin in Oligodendrocyte Precursor Cells in the Adult Mouse Brain

(2017) Jenna J. Boulanger et al.   Frontiers in Neuroscience

STRT-seq-2i: dual-index 5ʹ single cell and nucleus RNA-seq on an addressable microwell array

(2017) Hannah Hochgerner et al.   Scientific Reports

Smoothing Parameter and Model Selection for General Smooth Models

(2016) Simon N. Wood et al.   JOURNAL OF THE AMERICAN STATISTICAL ASSOCIATION

Near-optimal probabilistic RNA-seq quantification

(2016) Nicolas L Bray et al.   NATURE BIOTECHNOLOGY

Diffusion pseudotime robustly reconstructs lineage branching

(2016) Laleh Haghverdi et al.   NATURE METHODS

INSM1: A Novel Immunohistochemical and Molecular Marker for Neuroendocrine and Neuroepithelial Neoplasms

(2015) Jason N. Rosenbaum et al.   AMERICAN JOURNAL OF CLINICAL PATHOLOGY

Molecular Identity of Human Outer Radial Glia during Cortical Development

(2015) Alex A. Pollen et al.   CELL

Droplet Barcoding for Single-Cell Transcriptomics Applied to Embryonic Stem Cells

(2015) Allon M. Klein et al.   CELL

Single-cell chromatin accessibility reveals principles of regulatory variation

(2015) Jason D. Buenrostro et al.   NATURE

E2F1 Coregulates Cell Cycle Genes and Chromatin Components during the Transition of Oligodendrocyte Progenitors from Proliferation to Differentiation

(2014) L. Magri et al.   JOURNAL OF NEUROSCIENCE

Astrocyte-Derived Endothelin-1 Inhibits Remyelination through Notch Activation

(2014) Timothy R. Hammond et al.   NEURON

In situ sequencing for RNA analysis in preserved tissue and cells

(2013) Rongqin Ke et al.   NATURE METHODS

Quantitative single-cell RNA-seq with unique molecular identifiers

(2013) Saiful Islam et al.   NATURE METHODS

Detailed Expression Analysis of Regulatory Genes in the Early Developing Human Neural Tube

(2013) Ulrika Marklund et al.   STEM CELLS AND DEVELOPMENT

Dll1 maintains quiescence of adult neural stem cells and segregates asymmetrically during mitosis

(2013) Daichi Kawaguchi et al.   Nature Communications

Pleiotrophin Suppression of Receptor Protein Tyrosine Phosphatase- /  Maintains the Self-Renewal Competence of Fetal Human Oligodendrocyte Progenitor Cells

(2012) C. R. McClain et al.   JOURNAL OF NEUROSCIENCE

The ZEB1/miR-200 feedback loop controls Notch signalling in cancer cells

(2011) Simone Brabletz et al.   EMBO JOURNAL

CD140a identifies a population of highly myelinogenic, migration-competent and efficiently engrafting human oligodendrocyte progenitor cells

(2011) Fraser J Sim et al.   NATURE BIOTECHNOLOGY

Developmental genetics of vertebrate glial–cell specification

(2010) David H. Rowitch et al.   NATURE

Inferring Regulatory Networks from Expression Data Using Tree-Based Methods

(2010) Vân Anh Huynh-Thu et al.   PLoS One

The Glial Nature of Embryonic and Adult Neural Stem Cells

(2009) Arnold Kriegstein et al.   Annual Review of Neuroscience

SoxE function in vertebrate nervous system development

(2009) C. Claus Stolt et al.   INTERNATIONAL JOURNAL OF BIOCHEMISTRY & CELL BIOLOGY

Oligodendrocyte development and the onset of myelination in the human fetal brain

(2009) Igor Jakovcevski   Frontiers in Neuroanatomy

Notch-regulated oligodendrocyte specification from radial glia in the spinal cord of zebrafish embryos

(2008) Ho Kim et al.   DEVELOPMENTAL DYNAMICS

Requirement for COUP-TFI and II in the temporal specification of neural stem cells in CNS development

(2008) Hayato Naka et al.   NATURE NEUROSCIENCE

Model-based Analysis of ChIP-Seq (MACS)

(2008) Yong Zhang et al.   GENOME BIOLOGY