Proneural factors Ascl1 and Neurog2 contribute to neuronal subtype identities by establishing distinct chromatin landscapes

Integrating single-cell transcriptomic data across different conditions, technologies, and species

(2018) Andrew Butler et al.   NATURE BIOTECHNOLOGY

Diverse reprogramming codes for neuronal identity

(2018) Rachel Tsunemoto et al.   NATURE

Myt1l safeguards neuronal identity by actively repressing many non-neuronal fates

(2017) Moritz Mall et al.   NATURE

RNA localization is a key determinant of neurite-enriched proteome

(2017) Alessandra Zappulo et al.   Nature Communications

Rapid Chromatin Switch in the Direct Reprogramming of Fibroblasts to Neurons

(2017) Orly L. Wapinski et al.   Cell Reports

Deconvolving sequence features that discriminate between overlapping regulatory annotations

(2017) Akshay Kakumanu et al.   PLoS Computational Biology

Post-translational Control of the Temporal Dynamics of Transcription Factor Activity Regulates Neurogenesis

(2016) Xiao-Jiang Quan et al.   CELL

Small Molecules Modulate Chromatin Accessibility to Promote NEUROG2-Mediated Fibroblast-to-Neuron Reprogramming

(2016) Derek K. Smith et al.   Stem Cell Reports

DNAshapeR: an R/Bioconductor package for DNA shape prediction and feature encoding

(2015) Tsu-Pei Chiu et al.   BIOINFORMATICS

Pioneer Transcription Factors Target Partial DNA Motifs on Nucleosomes to Initiate Reprogramming

(2015) Abdenour Soufi et al.   CELL

Transcriptional Mechanisms of Proneural Factors and REST in Regulating Neuronal Reprogramming of Astrocytes

(2015) Giacomo Masserdotti et al.   Cell Stem Cell

Generation of functional human serotonergic neurons from fibroblasts

(2015) K C Vadodaria et al.   MOLECULAR PSYCHIATRY

Regulatory Logic of Pan-Neuronal Gene Expression in C. elegans

(2015) Nikolaos Stefanakis et al.   NEURON

Reference sequence (RefSeq) database at NCBI: current status, taxonomic expansion, and functional annotation

(2015) Nuala A. O'Leary et al.   NUCLEIC ACIDS RESEARCH

Conversion of MyoD to a Neurogenic Factor: Binding Site Specificity Determines Lineage

(2015) Abraham P. Fong et al.   Cell Reports

Ascl1 Coordinately Regulates Gene Expression and the Chromatin Landscape during Neurogenesis

(2015) Alexandre A.S.F. Raposo et al.   Cell Reports

The phosphorylation status of Ascl1 is a key determinant of neuronal differentiation and maturation in vivo and in vitro

(2014) F. R. Ali et al.   DEVELOPMENT

RAS/ERK Signaling Controls Proneural Genetic Programs in Cortical Development and Gliomagenesis

(2014) S. Li et al.   JOURNAL OF NEUROSCIENCE

Absence of a simple code: how transcription factors read the genome

(2014) Matthew Slattery et al.   TRENDS IN BIOCHEMICAL SCIENCES

Neurogenesis in the embryonic and adult brain: same regulators, different roles

(2014) Noelia Urbán et al.   Frontiers in Cellular Neuroscience

An Integrated Model of Multiple-Condition ChIP-Seq Data Reveals Predeterminants of Cdx2 Binding

(2014) Shaun Mahony et al.   PLoS Computational Biology

Generation of Induced Neuronal Cells by the Single Reprogramming Factor ASCL1

(2014) Soham Chanda et al.   Stem Cell Reports

Hierarchical Mechanisms for Direct Reprogramming of Fibroblasts to Neurons

(2013) Orly L. Wapinski et al.   CELL

DNA-Binding Specificities of Human Transcription Factors

(2013) Arttu Jolma et al.   CELL

Transposition of native chromatin for fast and sensitive epigenomic profiling of open chromatin, DNA-binding proteins and nucleosome position

(2013) Jason D Buenrostro et al.   NATURE METHODS

Synergistic binding of transcription factors to cell-specific enhancers programs motor neuron identity

(2013) Esteban O Mazzoni et al.   NATURE NEUROSCIENCE

Rapid Single-Step Induction of Functional Neurons from Human Pluripotent Stem Cells

(2013) Yingsha Zhang et al.   NEURON

The Subread aligner: fast, accurate and scalable read mapping by seed-and-vote

(2013) Yang Liao et al.   NUCLEIC ACIDS RESEARCH

Mapping Neuronal Diversity One Cell at a Time

(2013) H. Wichterle et al.   SCIENCE

Genomic Regions Flanking E-Box Binding Sites Influence DNA Binding Specificity of bHLH Transcription Factors through DNA Shape

(2013) Raluca Gordân et al.   Cell Reports

TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions

(2013) Daehwan Kim et al.   GENOME BIOLOGY

Post-translational modification of Ngn2 differentially affects transcription of distinct targets to regulate the balance between progenitor maintenance and differentiation

(2012) C. Hindley et al.   DEVELOPMENT

GSK3 Temporally Regulates Neurogenin 2 Proneural Activity in the Neocortex

(2012) S. Li et al.   JOURNAL OF NEUROSCIENCE

Regulation of Terminal Differentiation Programs in the Nervous System

(2011) Oliver Hobert   Annual Review of Cell and Developmental Biology

Transcriptional Control of the Terminal Fate of Monoaminergic Neurons

(2011) Nuria Flames et al.   Annual Review of Neuroscience

MEME-ChIP: motif analysis of large DNA datasets

(2011) Philip Machanick et al.   BIOINFORMATICS

Embryonic stem cell–based mapping of developmental transcriptional programs

(2011) Esteban O Mazzoni et al.   NATURE METHODS

Generation of subtype-specific neurons from postnatal astroglia of the mouse cerebral cortex

(2011) Christophe Heinrich et al.   Nature Protocols

Using a structural and logics systems approach to infer bHLH–DNA binding specificity determinants

(2011) Federico De Masi et al.   NUCLEIC ACIDS RESEARCH

Inducible Cassette Exchange: A Rapid and Efficient System Enabling Conditional Gene Expression in Embryonic Stem and Primary Cells

(2011) Michelina Iacovino et al.   STEM CELLS

Origins of Specificity in Protein-DNA Recognition

(2010) Remo Rohs et al.   Annual Review of Biochemistry

GREAT improves functional interpretation of cis-regulatory regions

(2010) Cory Y McLean et al.   NATURE BIOTECHNOLOGY

  Ca2+/CaM-dependent kinase type II triggers upregulation of GluA1 to coordinate adaptation to synaptic inactivity in hippocampal neurons

(2010) R. D. Groth et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

edgeR: a Bioconductor package for differential expression analysis of digital gene expression data

(2009) M. D. Robinson et al.   BIOINFORMATICS

Phylotypic expression of the bHLH genesNeurogenin2, Neurod, andMash1in the mouse embryonic forebrain

(2009) Joana Osório et al.   JOURNAL OF COMPARATIVE NEUROLOGY

Analysis of the platypus genome suggests a transposon origin for mammalian imprinting

(2009) Andrew J Pask et al.   GENOME BIOLOGY

Prezygotic reproductive isolation between Saccharomyces cerevisiae and Saccharomyces paradoxus

(2008) Calum J Maclean et al.   BMC EVOLUTIONARY BIOLOGY