- Single-cell and spatial transcriptomics
- Cell Image Analysis Techniques
- Neural dynamics and brain function
- Neuroinflammation and Neurodegeneration Mechanisms
- Gene expression and cancer classification
- Neuroscience and Neuropharmacology Research
- Bioinformatics and Genomic Networks
- Medical Image Segmentation Techniques
- Functional Brain Connectivity Studies
- Congenital heart defects research
- Mitochondrial Function and Pathology
- Advanced Fluorescence Microscopy Techniques
- Advanced Neuroimaging Techniques and Applications
- Photoreceptor and optogenetics research
- Gene Regulatory Network Analysis
- Radiomics and Machine Learning in Medical Imaging
- Visual perception and processing mechanisms
- Memory and Neural Mechanisms
- Scientific Computing and Data Management
- Neurogenesis and neuroplasticity mechanisms
- Health, Environment, Cognitive Aging
- Medical Imaging Techniques and Applications
- Birth, Development, and Health
- Neurobiology and Insect Physiology Research
- Neuroscience and Neural Engineering
Allen Institute
2016-2025
Allen Institute for Brain Science
2016-2025
Bridge University
2023
University of Washington
2007-2018
Cleveland Clinic
2018
Pathwest Laboratory Medicine
2009
Strategic Insight (United States)
2003
The Allen Brain Atlas (http://www.brain-map.org) provides a unique online public resource integrating extensive gene expression data, connectivity data and neuroanatomical information with powerful search viewing tools for the adult developing brain in mouse, human non-human primate. Here, we review resources available at Atlas, describing each product type [such as situ hybridization (ISH) supporting histology, microarray, RNA sequencing, reference atlases, projection mapping magnetic...
Glioblastoma is an aggressive brain tumor that carries a poor prognosis. The tumor's molecular and cellular landscapes are complex, their relationships to histologic features routinely used for diagnosis unclear. We present the Ivy Atlas, anatomically based transcriptional atlas of human glioblastoma aligns individual with genomic alterations gene expression patterns, thus assigning information most important morphologic hallmarks tumor. its clinical database freely accessible online data...
Significant advances in circuit-level analyses of the brain require tools that allow for labeling, modulation gene expression, and monitoring manipulation cellular activity specific cell types and/or anatomical regions. Large-scale projects individual laboratories have produced hundreds gene-specific promoter-driven Cre mouse lines invaluable enabling genetic access to subpopulations cells brain. However, potential utility each line may not be fully realized without systematic whole...
Here we report the generation of a multimodal cell census and atlas mammalian primary motor cortex as initial product BRAIN Initiative Cell Census Network (BICCN). This was achieved by coordinated large-scale analyses single-cell transcriptomes, chromatin accessibility, DNA methylomes, spatially resolved morphological electrophysiological properties cellular resolution input-output mapping, integrated through cross-modal computational analysis. Our results advance collective knowledge...
The mammalian brain consists of millions to billions cells that are organized into many cell types with specific spatial distribution patterns and structural functional properties1-3. Here we report a comprehensive high-resolution transcriptomic cell-type atlas for the whole adult mouse brain. was created by combining single-cell RNA-sequencing (scRNA-seq) dataset around 7 million profiled (approximately 4.0 passing quality control), approximately 4.3 using multiplexed error-robust...
ABSTRACT Detailed anatomical understanding of the human brain is essential for unraveling its functional architecture, yet current reference atlases have major limitations such as lack whole‐brain coverage, relatively low image resolution, and sparse structural annotation. We present first digital atlas to incorporate neuroimaging, high‐resolution histology, chemoarchitecture across a complete adult female brain, consisting magnetic resonance imaging (MRI), diffusion‐weighted (DWI), 1,356...
Understanding how brain activation mediates behaviors is a central goal of systems neuroscience. Here, we apply an automated method for mapping in the mouse order to probe sex-specific social are represented male brain. Our uses immediate-early-gene c-fos, marker neuronal activation, visualized by serial two-photon tomography: c-fos-GFP+ neurons computationally detected, their distribution registered reference and atlas, numbers analyzed statistical tests. results reveal distinct shared...
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...