A5081264796- Cell Image Analysis Techniques
- Advanced Fluorescence Microscopy Techniques
- Neural dynamics and brain function
- Advanced Electron Microscopy Techniques and Applications
- Fetal and Pediatric Neurological Disorders
- Advanced Neuroimaging Techniques and Applications
- Image Retrieval and Classification Techniques
- Advanced MRI Techniques and Applications
- Neuroinflammation and Neurodegeneration Mechanisms
- Gastrointestinal Bleeding Diagnosis and Treatment
- Neuroscience and Neuropharmacology Research
- Functional Brain Connectivity Studies
- Medical Image Segmentation Techniques
- Advanced Image and Video Retrieval Techniques
- Colorectal Cancer Screening and Detection
- Force Microscopy Techniques and Applications
- Receptor Mechanisms and Signaling
- Neurogenesis and neuroplasticity mechanisms
- Retinal Development and Disorders
- Advanced Memory and Neural Computing
- Neonatal and fetal brain pathology
- Advanced Vision and Imaging
- Image Processing Techniques and Applications
- Genetic and Kidney Cyst Diseases
- Gastric Cancer Management and Outcomes
Allen Institute
2018-2024
Allen Institute for Brain Science
2017-2024
Allen Institute for Neural Dynamics
2023-2024
University of Washington
2013-2023
Princeton University
2021
Neuroscience Institute
2021
Laboratoire d'Informatique de Paris-Nord
2021
University of Washington Medical Center
2016
Johns Hopkins University
2006-2011
Washington University in St. Louis
2009
Neurons in the developing brain undergo extensive structural refinement as nascent circuits adopt their mature form. This physical transformation of neurons is facilitated by engulfment and degradation axonal branches synapses surrounding glial cells, including microglia astrocytes. However, small size phagocytic organelles complex, highly ramified morphology glia have made it difficult to define contribution these other cell types this crucial process. Here, we used large-scale, serial...
Mammalian cortex features a vast diversity of neuronal cell types, each with characteristic anatomical, molecular and functional properties. Synaptic connectivity powerfully shapes how type participates in the cortical circuit, but mapping rules at resolution distinct types remains difficult. Here, we used millimeter-scale volumetric electron microscopy 1 to investigate all inhibitory neurons across densely-segmented population 1352 cells spanning layers mouse visual cortex, producing wiring...
Seeking new insights into the homeostasis, modulation and plasticity of cortical synaptic networks, we have analyzed results from a single-cell RNA-seq study 22,439 mouse neocortical neurons. Our analysis exposes transcriptomic evidence for dozens molecularly distinct neuropeptidergic modulatory networks that directly interconnect all This begins with discovery transcripts one or more neuropeptide precursor (NPP) neuropeptide-selective G-protein-coupled receptor (NP-GPCR) genes are highly...
This paper presents an approach to 3-D diffusion tensor image (DTI) reconstruction from multi-slice weighted (DW) magnetic resonance imaging acquisitions of the moving fetal brain. Motion scatters slice measurements in spatial and spherical domain with respect underlying anatomy. Previous registration techniques have been described estimate between head motion, allowing 3D a on regular grid using interpolation. We propose Approach Unified Diffusion Sensitive Slice Alignment Reconstruction...
Capsule endoscopy (CE) provides noninvasive access to a large part of the small bowel that is otherwise inaccessible without invasive and traumatic treatment. However, it also produces amounts data (approximately 50,000 images) must be then manually reviewed by clinician. Such datasets provide an opportunity for application image analysis supervised learning methods. Automated CE images has only focused on detection, often bleeding. Compared these detection approaches, we explored assessment...
A primary cilium is a thin membrane-bound extension off cell surface that contains receptors for perceiving and transmitting signals modulate state activity. While many types have cilium, little known about cilia in the brain, where they are less accessible than on cultured cells or epithelial tissues protrude from bodies into deep, dense network of glial neuronal processes. Here, we investigated frequency, internal structure, shape, position large, high-resolution transmission electron...
Recent advances in tissue processing, labeling, and fluorescence microscopy are providing unprecedented views of the structure cells tissues at sub-diffraction resolutions near single molecule sensitivity, driving discoveries diverse fields biology, including neuroscience. Biological is organized over scales nanometers to centimeters. Harnessing molecular imaging across three-dimensional samples on this scale requires new types microscopes with larger view working distance, as well higher...
A primary cilium is a membrane-bound extension from the cell surface that contains receptors for perceiving and transmitting signals modulate state activity. Primary cilia in brain are less accessible than on cultured cells or epithelial tissues because they protrude into deep, dense network of glial neuronal processes. Here, we investigated frequency, internal structure, shape, position large, high-resolution transmission electron microscopy volumes mouse visual cortex. Cilia extended...
Understanding living cells as integrated systems, a challenge central to modern biology, is complicated by limitations of available imaging methods. While fluorescence microscopy can resolve subcellular structure in cells, it expensive, slow, and damaging cells. Here, we present label-free method for predicting 3D directly from transmitted light images demonstrate that be used generate multi-structure, images.
Neural circuit function is shaped both by the cell types that comprise and connections between those 1 . have previously been defined morphology 2, 3 , electrophysiology 4, 5 transcriptomic expression 6-8 connectivity 9-13 or even a combination of such modalities 14-16 More recently, Patch-seq technique has enabled characterization (M), (E), (T) properties from individual cells 17-20 Using this technique, these were integrated to define 28, inhibitory multimodal, MET-types in mouse primary...
Abstract Recent advances in tissue processing, labeling, and fluorescence microscopy are providing unprecedented views of the structure cells tissues at sub-diffraction resolutions near single molecule sensitivity, driving discoveries diverse fields biology, including neuroscience. Biological is organized over scales nanometers to centimeters. Harnessing molecular imaging across intact, three-dimensional samples on this scale requires new types microscopes with larger view working distance,...
Purpose Maximization of the blood oxygen level–dependent (BOLD) functional MRI (fMRI) contrast requires echo time MR sequence to match T2* value tissue interest, which is expected be higher in fetal brain compared with a child or an adult. Methods values cortical plate/cortical gray matter utero healthy fetuses from mid‐gestation onward (20–36 gestational weeks) were measured using 3D maps calculated 2D dual‐echo T2*‐weighted data corrected for between‐slice motion and reconstructed 1.0 mm 3...
Mammalian neocortex contains a highly diverse set of cell types. These types have been mapped systematically using variety molecular, electrophysiological and morphological approaches. Each modality offers new perspectives on the variation biological processes underlying type specialization. Cellular scale electron microscopy (EM) provides dense ultrastructural examination an unbiased perspective into subcellular organization brain cells, including their synaptic connectivity nanometer...
Recent advances in tissue processing, labeling, and fluorescence microscopy are providing unprecedented views of the structure cells tissues at sub-diffraction resolutions near single molecule sensitivity, driving discoveries diverse fields biology, including neuroscience. Biological is organized over scales nanometers to centimeters. Harnessing molecular imaging across intact, three-dimensional samples on this scale requires new types microscopes with larger view working distance, as well...
Recently, there has been considerable interest, especially for in utero imaging, the detection of functional connectivity subjects whose motion cannot be controlled while MRI scanner. These cases require two advances over current studies: (1) multiecho acquisitions and (2) post processing reconstruction that can deal with significant between slice during multislice protocols to allow ability detect temporal correlations introduced by spatial scattering slices into account. This article...
ABSTRACT Neurons in the developing brain undergo extensive structural refinement as nascent circuits adopt their mature form 1 . This transformation is facilitated by engulfment and degradation of excess axonal branches inappropriate synapses surrounding glial cells, including microglia astrocytes 2,3 However, small size phagocytic organelles complex, highly ramified morphology glia has made it difficult to determine contribution these other cell types this process. Here, we used large...
<title>Abstract</title> The neocortex is composed of microcircuits built from distinct cell types. Despite significant progress in characterizing these types, understanding the full synaptic connections individual excitatory cells remains elusive. This study investigates connectivity arguably most well recognized neuron neocortex: thick tufted layer 5 pyramidal also known as extra telencephalic (ET) neurons using a 1 mm3 publicly available electron microscopy dataset. analysis reveals that...
Motion correction of MRI sequences is a very active area research. Several postprocessing techniques for volume and more recently slice have been proposed. Slice motion fMRI data typically involves iterative registration slices to target volume. The usually reconstructed at each iteration using current estimates, with all possible views the subject. However, in presence large movements, quality reconstruction can be greatly degraded without good initialization, this turn affect accuracy...
Abstract Neurons in the developing brain undergo extensive structural refinement as nascent circuits adopt their mature form1. This transformation is facilitated by engulfment and degradation of excess axonal branches inappropriate synapses surrounding glial cells, including microglia astrocytes2,3. However, small size phagocytic organelles complex, highly ramified morphology glia has made it difficult to determine contribution these other cell types this process. Here, we used large scale,...
Endoscopy is an invaluable tool for several surgical and diagnostic applications. It permits minimally invasive visualization of internal structures thus involving little or no injury to structures. This method however restricts the size imaging device therefore compromises on field view captured in a single image. The problem narrow can be solved by capturing video sequences stitching them generate mosaic scene under consideration. Registration images sequence crucial step. Existing methods...
Summary Seeking new insights into the homeostasis, modulation and plasticity of cortical synaptic networks, we have analyzed results from a single-cell RNA-seq study 22,439 mouse neocortical neurons. Our analysis exposes transcriptomic evidence for dozens molecularly distinct neuropeptidergic modulatory networks that directly interconnect all This begins with discovery transcripts one or more neuropeptide precursor (NPP) neuropeptide-selective G-protein-coupled receptor (NP-GPCR) genes are...