Sten Linnarsson

The paper extracts cis-regulatory rules from sequence-to-function models in human neural development using new single-cell multiome data and a computational tool called TF-MINDI.

This study maps spatial dynamics in early human heart development using single-cell and spatial transcriptomics, identifying cell states and novel features like cardiac fibroblasts and chromaffin cells.

OTTR combines live imaging and spatial transcriptomics to link cell behavior to molecular states in human tissues.

The paper generates a single-cell and spatial transcriptomic atlas of human fetal meninges and finds that meningiomas likely originate from dura lineage cells.

This study maps the spatial organization of the developing human lung using high-parametric protein imaging, revealing cell type composition and temporal changes across five developmental timepoints.

The paper identifies two distinct radial glia subtypes in the developing midbrain and shows their different roles in dopaminergic neuron development using human stem cells.

The paper uses single-cell genomics to reconstruct developmental trajectories of 170 neuronal subtypes in the human hypothalamus across development.

The paper uses single nucleus RNA-sequencing to analyze human cortical areas, revealing cell type proportions and gene expression patterns that correlate with functional connectivity and areal specialization.

The paper constructs a single-cell chromatin accessibility atlas of the human brain, identifies cell-type-specific regulatory elements, and develops models to predict regulatory function of disease risk variants.

This study creates a comprehensive cell atlas of the first-trimester human brain using single-cell RNA sequencing and spatial transcriptomics, identifying over 600 distinct cell states and their spatial organization.

This study uses single nucleus transcriptomics to compare human and non-human primate cortical tissues, identifying human-specific gene expression patterns and their potential functional roles.

This study identifies 461 cell clusters and 3313 subclusters in the adult human brain using single-nucleus RNA sequencing, revealing regional diversity in neurons and astrocytes.

This study investigates the role of Sox6 in maintaining somatostatin interneuron subtype identity during migration, finding that its removal reduces subtype diversity in the mature cortex.

The paper constructs a single-cell chromatin accessibility atlas of the human first trimester brain, identifies regulatory elements linked to gene expression, and links disease SNPs to potential pathogenic mechanisms.

The paper creates a developmental cell atlas of the human spinal cord using single-cell and spatial transcriptomics, revealing spatiotemporal gene regulation and novel insights into ependymoma cancer stem cells.

The paper identifies 188 cell types in the human brain using single-cell DNA methylation and 3D genome data, and develops a tool to predict cell types based on methylation patterns.

This study improves human embryonic stem cell differentiation into midbrain dopaminergic neurons using specific factors and reveals developmental dynamics and high-quality cell types through single-cell RNA-sequencing.

This study identifies an early wave of oligodendrogenesis in the human forebrain at PCW 8 using single-cell RNA-Seq and ATAC-Seq, supported by spatial gene expression analysis.

The paper develops a multi-omic single-nucleus sequencing method and framework to analyze regulatory genome diversity in human cortical cells and link it to disease risk variants.

This paper introduces EEL FISH, a method for spatial transcriptome profiling that improves throughput while maintaining single-cell resolution, applied to mouse and human tissues.

The paper creates a comprehensive topographic atlas of early human lung development, identifying cell states, trajectories, and interactions to understand cell heterogeneity origins.

The paper generates a multimodal cell census and atlas of the mammalian primary motor cortex, revealing a unified molecular genetic landscape and cross-species taxonomy of cell types.

The paper creates a single-cell transcriptome atlas of mouse brain development, identifying over 1000 cell states and linking tumor cells to developmental states.

The paper develops a high-throughput single-cell ATAC-seq method and applies it to cluster PBMCs by hematopoietic cell type.

Unspliced versus spliced mRNA in standard scRNA-seq gives RNA velocity, a per-cell vector predicting future state over hours, validated in neural crest and used to trace mouse hippocampal lineages.

The paper maps cell types in the mouse nervous system using single-cell RNA sequencing and identifies distinct astrocyte and oligodendrocyte subtypes with specific molecular and spatial characteristics.

The paper uses single-cell transcriptomics to show that embryonic Pdgfra+ cells give rise to OPCs with convergent transcriptional profiles in different CNS regions.

This study identifies 206 new genomic loci and 1,041 genes associated with intelligence using a large GWAS meta-analysis of 279,930 individuals.

This study conducts a large GWAS meta-analysis of neuroticism, identifying 136 novel genetic loci and 599 genes, with functional insights into brain regions and pathways.

The paper uses single-cell transcriptomics to analyze hippocampal CA1 inhibitory neurons, revealing both discrete classes and continuous variation in their diversity.