
Associate Professor
Neurological Surgery
Tomasz Nowakowski, PhD studies the principles of tissue development, the timing of cell generation, intercellular interactions, and developmental lineage relationships to uncover underlying neurodevelopmental events, tissue organization and cellular demographics.
Publications
CRISPRi-based screen of autism spectrum disorder risk genes in microglia uncovers roles of ADNP in microglia endocytosis and synaptic pruning.
Molecular psychiatry
An enhancer-AAV toolbox to target and manipulate distinct interneuron subtypes.
bioRxiv : the preprint server for biology
Author Correction: Opportunities and challenges of single-cell and spatially resolved genomics methods for neuroscience discovery.
Nature neuroscience
Multiscale Cloud-based Pipeline for Neuronal Electrophysiology Analysis and Visualization.
bioRxiv : the preprint server for biology
High-Complexity Barcoded Rabies Virus for Scalable Circuit Mapping Using Single-Cell and Single-Nucleus Sequencing.
bioRxiv : the preprint server for biology
Applying single-cell and single-nucleus genomics to studies of cellular heterogeneity and cell fate transitions in the nervous system.
Nature neuroscience
Implementation and validation of single-cell genomics experiments in neuroscience.
Nature neuroscience
Opportunities and challenges of single-cell and spatially resolved genomics methods for neuroscience discovery.
Nature neuroscience
An organotypic atlas of human vascular cells.
Nature medicine
CRISPRi-based screen of Autism Spectrum Disorder risk genes in microglia uncovers roles of ADNP in microglia endocytosis and synaptic pruning.
bioRxiv : the preprint server for biology
Multimodal evaluation of network activity and optogenetic interventions in human hippocampal slices.
Nature neuroscience
Pathological microcircuits initiate epileptiform events in patient hippocampal slices.
bioRxiv : the preprint server for biology
Group 2 innate lymphoid cells promote inhibitory synapse development and social behavior.
Science (New York, N.Y.)
Microglia regulate GABAergic neurogenesis in prenatal human brain through IGF1.
bioRxiv : the preprint server for biology
Adhesion G protein-coupled receptor ADGRG1 promotes protective microglial response in Alzheimer's disease.
bioRxiv : the preprint server for biology
MAGIC matrices: freeform bioprinting materials to support complex and reproducible organoid morphogenesis.
bioRxiv : the preprint server for biology
Ciliary biology intersects autism and congenital heart disease.
bioRxiv : the preprint server for biology
Massively parallel characterization of regulatory elements in the developing human cortex.
Science (New York, N.Y.)
Thalamocortical organoids enable in vitro modeling of 22q11.2 microdeletion associated with neuropsychiatric disorders.
Cell stem cell
A foundational atlas of autism protein interactions reveals molecular convergence.
bioRxiv : the preprint server for biology
Optimal trade-off control in machine learning-based library design, with application to adeno-associated virus (AAV) for gene therapy.
Science advances
Improving cellular diversity in human cerebellar organoids.
Cell stem cell
Single-cell analysis of prenatal and postnatal human cortical development.
Science (New York, N.Y.)
Spatiotemporal molecular dynamics of the developing human thalamus.
Science (New York, N.Y.)
Three-dimensional genome rewiring in loci with human accelerated regions.
Science (New York, N.Y.)
Transcriptomic cell type structures in vivo neuronal activity across multiple timescales.
Cell reports
Type I interferon responsive microglia shape cortical development and behavior.
bioRxiv : the preprint server for biology
Massively parallel characterization of psychiatric disorder-associated and cell-type-specific regulatory elements in the developing human cortex.
bioRxiv : the preprint server for biology
New York Stem Cell Foundation Robertson Investigators.
Cell stem cell
In preprints: new insights into truncated radial glia.
Development (Cambridge, England)
Integrated gene analyses of de novo variants from 46,612 trios with autism and developmental disorders.
Proceedings of the National Academy of Sciences of the United States of America
IoT cloud laboratory: Internet of Things architecture for cellular biology.
Internet of things (Amsterdam, Netherlands)
Tropism of SARS-CoV-2 for human cortical astrocytes.
Proceedings of the National Academy of Sciences of the United States of America
Fate mapping of neural stem cell niches reveals distinct origins of human cortical astrocytes.
Science (New York, N.Y.)
Dissecting cellular diversity of cortical GABAergic cells across multiple modalities: A turning point in neuronal taxonomy.
Faculty reviews
Microglial GPR56 is the molecular target of maternal immune activation-induced parvalbumin-positive interneuron deficits.
Science advances
A single-cell atlas of the normal and malformed human brain vasculature.
Science (New York, N.Y.)
DynaMorph: self-supervised learning of morphodynamic states of live cells.
Molecular biology of the cell
Nests of dividing neuroblasts sustain interneuron production for the developing human brain.
Science (New York, N.Y.)
UCSC Cell Browser: visualize your single-cell data.
Bioinformatics (Oxford, England)
Endovascular Biopsy of Vertebrobasilar Aneurysm in Patient With Polyarteritis Nodosa.
Frontiers in neurology
Light-weight electrophysiology hardware and software platform for cloud-based neural recording experiments.
Journal of neural engineering
Picroscope: low-cost system for simultaneous longitudinal biological imaging.
Communications biology
Human microglia states are conserved across experimental models and regulate neural stem cell responses in chimeric organoids.
Cell stem cell
Low cost cloud based remote microscopy for biological sciences.
Internet of Things
Distinct nuclear compartment-associated genome architecture in the developing mammalian brain.
Nature neuroscience
The CHD8/CHD7/Kismet family links blood-brain barrier glia and serotonin to ASD-associated sleep defects.
Science advances
Rare deleterious mutations of HNRNP genes result in shared neurodevelopmental disorders.
Genome medicine
Single-cell atlas of early human brain development highlights heterogeneity of human neuroepithelial cells and early radial glia.
Nature neuroscience
The Expanding Cell Diversity of the Brain Vasculature.
Frontiers in physiology
Are Organoids Ready for Prime Time?
Cell stem cell
Medulloblastoma Arises from the Persistence of a Rare and Transient Sox2+ Granule Neuron Precursor.
Cell reports
Evolutionary Expansion of Human Cerebellar Germinal Zones.
Trends in neurosciences
Outer Radial Glia-like Cancer Stem Cells Contribute to Heterogeneity of Glioblastoma.
Cell stem cell
Disruptive mutations in TANC2 define a neurodevelopmental syndrome associated with psychiatric disorders.
Nature communications
Automated four-dimensional long term imaging enables single cell tracking within organotypic brain slices to study neurodevelopment and degeneration.
Communications biology
Multimodal Single-Cell Analysis Reveals Physiological Maturation in the Developing Human Neocortex.
Neuron
Mafb and c-Maf Have Prenatal Compensatory and Postnatal Antagonistic Roles in Cortical Interneuron Fate and Function.
Cell reports
Neuroserpin expression during human brain development and in adult brain revealed by immunohistochemistry and single cell RNA sequencing.
Journal of anatomy
Regulation of cell-type-specific transcriptomes by microRNA networks during human brain development.
Nature neuroscience
Building blocks of the human brain.
Science (New York, N.Y.)
Identification of cell types in a mouse brain single-cell atlas using low sampling coverage.
BMC biology
An analytical framework for whole-genome sequence association studies and its implications for autism spectrum disorder.
Nature genetics
Evolution of New miRNAs and Cerebro-Cortical Development.
Annual review of neuroscience
Spatiotemporal gene expression trajectories reveal developmental hierarchies of the human cortex.
Science (New York, N.Y.)
Human iPSC-Derived Cerebral Organoids Model Cellular Features of Lissencephaly and Reveal Prolonged Mitosis of Outer Radial Glia.
Cell stem cell
The impact of microRNAs on transcriptional heterogeneity and gene co-expression across single embryonic stem cells.
Nature communications
Zika virus cell tropism in the developing human brain and inhibition by azithromycin.
Proceedings of the National Academy of Sciences of the United States of America
Single-cell sequencing maps gene expression to mutational phylogenies in PDGF- and EGF-driven gliomas.
Molecular systems biology
SCell: integrated analysis of single-cell RNA-seq data.
Bioinformatics (Oxford, England)
Expression Analysis Highlights AXL as a Candidate Zika Virus Entry Receptor in Neural Stem Cells.
Cell stem cell
The long noncoding RNA Pnky regulates neuronal differentiation of embryonic and postnatal neural stem cells.
Cell stem cell
Low-coverage single-cell mRNA sequencing reveals cellular heterogeneity and activated signaling pathways in developing cerebral cortex.
Nature biotechnology
Loss of functional Dicer in mouse radial glia cell-autonomously prolongs cortical neurogenesis.
Developmental biology
MicroRNA-92b regulates the development of intermediate cortical progenitors in embryonic mouse brain.
Proceedings of the National Academy of Sciences of the United States of America
The expression and activity of β-catenin in the thalamus and its projections to the cerebral cortex in the mouse embryo.
BMC neuroscience