Population-scale single-cell RNA-seq profiling across dopaminergic neuron differentiation

Identification of rare and common regulatory variants in pluripotent cells using population-scale transcriptomics

(2021) Marc Jan Bonder et al.   NATURE GENETICS

Brain metabolism and neurological symptoms in combined malonic and methylmalonic aciduria

(2020) Sara Tucci   Orphanet Journal of Rare Diseases

A single-cell transcriptomic and anatomic atlas of mouse dorsal raphe Pet1 neurons

(2020) Benjamin W Okaty et al.   eLife

g:Profiler: a web server for functional enrichment analysis and conversions of gene lists (2019 update)

(2019) Uku Raudvere et al.   NUCLEIC ACIDS RESEARCH

Discovery and characterization of variance QTLs in human induced pluripotent stem cells

(2019) Abhishek K. Sarkar et al.   PLoS Genetics

Single-Cell Multi-omic Integration Compares and Contrasts Features of Brain Cell Identity

(2019) Joshua D. Welch et al.   CELL

Dynamic genetic regulation of gene expression during cellular differentiation

(2019) B. J. Strober et al.   SCIENCE

More than just Stem Cells: Functional Roles of the Transcription Factor Sox2 in Differentiated Glia and Neurons

(2019) Sara Mercurio et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Molecular and anatomical organization of the dorsal raphe nucleus

(2019) Kee Wui Huang et al.   eLife

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

(2019) Ilya Korsunsky et al.   NATURE METHODS

Single-cell transcriptomes and whole-brain projections of serotonin neurons in the mouse dorsal and median raphe nuclei

(2019) Jing Ren et al.   eLife

Association of Human iPSC Gene Signatures and X Chromosome Dosage with Two Distinct Cardiac Differentiation Trajectories

(2019) Agnieszka D'Antonio-Chronowska et al.   Stem Cell Reports

The serotonergic system and the control of breathing during development

(2019) Kevin J. Cummings et al.   RESPIRATORY PHYSIOLOGY & NEUROBIOLOGY

Single-cell RNA-seq of human induced pluripotent stem cells reveals cellular heterogeneity and cell state transitions between subpopulations

(2018) Quan H. Nguyen et al.   GENOME RESEARCH

Batch effects in single-cell RNA-sequencing data are corrected by matching mutual nearest neighbors

(2018) Laleh Haghverdi et al.   NATURE BIOTECHNOLOGY

Shared genetic effects on chromatin and gene expression indicate a role for enhancer priming in immune response

(2018) Kaur Alasoo et al.   NATURE GENETICS

Assessment of established techniques to determine developmental and malignant potential of human pluripotent stem cells

(2018)   Nature Communications

Reproducibility of Molecular Phenotypes after Long-Term Differentiation to Human iPSC-Derived Neurons: A Multi-Site Omics Study

(2018) Viola Volpato et al.   Stem Cell Reports

Flexible statistical methods for estimating and testing effects in genomic studies with multiple conditions

(2018) Sarah M. Urbut et al.   NATURE GENETICS

SFXN1 is a mitochondrial serine transporter required for one-carbon metabolism

(2018) Nora Kory et al.   SCIENCE

Heat Shock Proteins Regulatory Role in Neurodevelopment

(2018) David J. Miller et al.   Frontiers in Neuroscience

Impact of regulatory variation across human iPSCs and differentiated cells

(2017) Nicholas E. Banovich et al.   GENOME RESEARCH

Common genetic variation drives molecular heterogeneity in human iPSCs

(2017) Helena Kilpinen et al.   NATURE

Genetic effects on gene expression across human tissues

(2017) François Aguet et al.   NATURE

Guided self-organization and cortical plate formation in human brain organoids

(2017) Madeline A Lancaster et al.   NATURE BIOTECHNOLOGY

Multiplexed droplet single-cell RNA-sequencing using natural genetic variation

(2017) Hyun Min Kang et al.   NATURE BIOTECHNOLOGY

Molecular and functional variation in iPSC-derived sensory neurons

(2017) Jeremy Schwartzentruber et al.   NATURE GENETICS

A molecular census of arcuate hypothalamus and median eminence cell types

(2017) John N Campbell et al.   NATURE NEUROSCIENCE

Human Astrocyte Maturation Captured in 3D Cerebral Cortical Spheroids Derived from Pluripotent Stem Cells

(2017) Steven A. Sloan et al.   NEURON

Cerebral organoids reveal early cortical maldevelopment in schizophrenia—computational anatomy and genomics, role of FGFR1

(2017) E. K. Stachowiak et al.   Translational Psychiatry

Molecular Diversity of Midbrain Development in Mouse, Human, and Stem Cells

(2016) Gioele La Manno et al.   CELL

HspB5/αB-crystallin increases dendritic complexity and protects the dendritic arbor during heat shock in cultured rat hippocampal neurons

(2016) Britta Bartelt-Kirbach et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

Purification and Characterization of Progenitor and Mature Human Astrocytes Reveals Transcriptional and Functional Differences with Mouse

(2016) Ye Zhang et al.   NEURON

Fast and efficient QTL mapper for thousands of molecular phenotypes

(2015) Halit Ongen et al.   BIOINFORMATICS

How to make a midbrain dopaminergic neuron

(2015) E. Arenas et al.   DEVELOPMENT

A qPCR ScoreCard quantifies the differentiation potential of human pluripotent stem cells

(2015) Alexander M Tsankov et al.   NATURE BIOTECHNOLOGY

Efficient set tests for the genetic analysis of correlated traits

(2015) Francesco Paolo Casale et al.   NATURE METHODS

Generation of cerebral organoids from human pluripotent stem cells

(2014) Madeline A Lancaster et al.   Nature Protocols

Bayesian Test for Colocalisation between Pairs of Genetic Association Studies Using Summary Statistics

(2014) Claudia Giambartolomei et al.   PLoS Genetics

Mitochondrial complex I inhibitor rotenone-induced toxicity and its potential mechanisms in Parkinson’s disease models

(2012) Nian Xiong et al.   CRITICAL REVIEWS IN TOXICOLOGY

NEUROG2 Drives Cell Cycle Exit of Neuronal Precursors by Specifically Repressing a Subset of Cyclins Acting at the G1 and S Phases of the Cell Cycle

(2012) M. Lacomme et al.   MOLECULAR AND CELLULAR BIOLOGY

Donor-dependent variations in hepatic differentiation from human-induced pluripotent stem cells

(2012) M. Kajiwara et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Astrocytes as a Source for Extracellular Matrix Molecules and Cytokines

(2012) Stefan Wiese et al.   Frontiers in Pharmacology

Reference Maps of Human ES and iPS Cell Variation Enable High-Throughput Characterization of Pluripotent Cell Lines

(2011) Christoph Bock et al.   CELL

PARK9-associated ATP13A2 localizes to intracellular acidic vesicles and regulates cation homeostasis and neuronal integrity

(2011) David Ramonet et al.   HUMAN MOLECULAR GENETICS

Dopamine neurons derived from human ES cells efficiently engraft in animal models of Parkinson’s disease

(2011) Sonja Kriks et al.   NATURE

A bioinformatic assay for pluripotency in human cells

(2011) Franz-Josef Müller et al.   NATURE METHODS

A highly reproducible rotenone model of Parkinson's disease

(2009) Jason R. Cannon et al.   NEUROBIOLOGY OF DISEASE

Fast unfolding of communities in large networks

(2008) Vincent D Blondel et al.   JOURNAL OF STATISTICAL MECHANICS-THEORY AND EXPERIMENT