Rachael Larsen
A5089464960- Single-cell and spatial transcriptomics
- Neuroinflammation and Neurodegeneration Mechanisms
- Photoreceptor and optogenetics research
- Cell Image Analysis Techniques
- Neural dynamics and brain function
- Neuroscience and Neuropharmacology Research
- Neuroscience and Neural Engineering
- Gene Regulatory Network Analysis
- Advanced Fluorescence Microscopy Techniques
- CRISPR and Genetic Engineering
- Visual perception and processing mechanisms
- Neurobiology and Insect Physiology Research
- Virus-based gene therapy research
- RNA Research and Splicing
- Neurogenesis and neuroplasticity mechanisms
- Immune cells in cancer
- Hepatitis B Virus Studies
- Animal Virus Infections Studies
- Pluripotent Stem Cells Research
Allen Institute
2017-2024
Allen Institute for Brain Science
2017-2024
Abstract Dendritic and axonal morphology reflects the input output of neurons is a defining feature neuronal types 1,2 , yet our knowledge its diversity remains limited. Here, to systematically examine complete single-neuron morphologies on brain-wide scale, we established pipeline encompassing sparse labelling, whole-brain imaging, reconstruction, registration analysis. We fully reconstructed 1,741 from cortex, claustrum, thalamus, striatum other brain regions in mice. identified 11 major...
We present a unique, extensive, and open synaptic physiology analysis platform dataset. Through its application, we reveal principles that relate cell type to properties intralaminar circuit organization in the mouse human cortex. The dynamics of excitatory synapses align with postsynaptic subclass, whereas inhibitory synapse partly presynaptic subclass but considerable overlap. Synaptic are heterogeneous most subclass-to-subclass connections. two main axes heterogeneity strength...
Transgenic mouse lines are invaluable tools for neuroscience but, as with any technique, care must be taken to ensure that the tool itself does not unduly affect system under study. Here we report aberrant electrical activity, similar interictal spikes, and accompanying fluorescence events in some genotypes of transgenic mice expressing GCaMP6 genetically encoded calcium sensors. These epileptiform have been observed particularly, but exclusively, Emx1-Cre Ai93 transgenes, either sex, across...
Summary To understand how the brain processes sensory information to guide behavior, we must know stimulus representations are transformed throughout visual cortex. Here report an open, large-scale physiological survey of neural activity in awake mouse cortex: Allen Brain Observatory Visual Coding dataset. This publicly available dataset includes cortical from nearly 60,000 neurons collected 6 areas, 4 layers, and 12 transgenic lines 221 adult mice, response a systematic set stimuli. Using...
The mammalian cortex is comprised of cells classified into types according to shared properties. Defining the contribution each cell type processes guided by essential for understanding its function in health and disease. We used transcriptomic epigenomic cortical taxonomies from mouse human define marker genes putative enhancers created a large toolkit transgenic lines enhancer AAVs selective targeting populations. report evaluation fifteen new driver lines, two reporter >800 different...
ABSTRACT Ever since the seminal findings of Ramon y Cajal, dendritic and axonal morphology has been recognized as a defining feature neuronal types. Yet our knowledge concerning diversity morphologies, in particular distal projection patterns, is extremely limited. To systematically obtain single neuron full on brain-wide scale, we established platform with five major components: sparse labeling, whole-brain imaging, reconstruction, registration, classification. We achieved sparse, robust...
Summary The rapid pace of cell type identification by new single-cell analysis methods has not been met with efficient experimental access to the newly discovered types. To enable flexible and specific neural populations in mouse cortex, we collected chromatin accessibility data from individual cells clustered identify enhancers for classes subclasses. When cloned into adeno-associated viruses (AAVs) delivered brain retro-orbital injections, these drive transgene expression subclasses...
ABSTRACT Neocortex contains a multitude of cell types segregated into layers and functionally distinct regions. To investigate the diversity across mouse neocortex, we analyzed 12,714 cells from primary visual cortex (VISp), 9,035 anterior lateral motor (ALM) by deep single-cell RNA-sequencing (scRNA-seq), identifying 116 transcriptomic types. These two regions represent distant poles neocortex perform functions. We define 50 inhibitory types, all which are shared both cortical In contrast,...
Abstract Ever since the seminal findings of Ramon y Cajal, dendritic and axonal morphology has been recognized as a defining feature neuronal types. Yet our knowledge concerning diversity morphologies, in particular distal projection patterns, is extremely limited. To systematically obtain single neuron full on brain-wide scale, we established platform with five major components: sparse labeling, whole-brain imaging, reconstruction, registration, classification. We achieved sparse, robust...
Abstract To elucidate cortical microcircuit structure and synaptic properties we present a unique, extensive, public physiology dataset analysis platform. Through its application, reveal principles that relate cell type to synapse intralaminar circuit organization in the mouse human cortex. The dynamics of excitatory synapses align with postsynaptic subclass, whereas inhibitory partly presynaptic subclass but considerable overlap. Despite these associations, are heterogeneous most...
Abstract Transgenic mouse lines are invaluable tools for neuroscience but as with any technique, care must be taken to ensure that the tool itself does not unduly affect system under study. Here we report aberrant electrical activity, similar interictal spikes, and accompanying fluorescence events in some genotypes of transgenic mice expressing GCaMP6 genetically-encoded calcium sensors. These epileptiform have been observed particularly, exclusively, Emx1-Cre Ai93 transgenes, across...
SUMMARY Modern genetic approaches are powerful in providing access to diverse types of neurons within the mammalian brain and greatly facilitating study their function. We here report a large set driver reporter transgenic mouse lines, including 23 new lines targeting variety cortical subcortical cell populations 26 expressing an array molecular tools. In particular, we describe TIGRE2.0 platform introduce Cre-dependent that enable optical physiology, optogenetics, sparse labeling...
Dendritic and axonal morphology is a defining feature of neuronal types their connectivity. Yet our knowledge concerning the diversity extremely limited. To systematically obtain single neuron full on brain-wide scale in mice, we established pipeline that encompasses five major components: sparse labeling, whole-brain imaging, reconstruction, registration, classification. We achieved sparse, robust consistent fluorescent labeling by combining transgenic or viral Cre delivery with novel...
Modern genetic approaches are powerful in providing access to diverse types of neurons within the mammalian brain and greatly facilitating study their function. We here report a large set driver reporter transgenic mouse lines, including 23 new lines targeting variety cortical subcortical cell populations 26 expressing an array molecular tools. In particular, we describe TIGRE2.0 platform introduce Cre-dependent that enable optical physiology, optogenetics, sparse labeling...