|
NeuronStudio
NeuronStudio was a non-commercial program created at Icahn School of Medicine at Mount Sinai by the Computational Neurobiology and Imaging Center. This program performed automatic tracing and reconstruction of neuron structures from confocal image stacks. The resulting models were then exported to file using standard formats for further processing, modeling, or for statistical analyses. NeuronStudio handled morphologic details on scales spanning local Dendritic spine geometry through complex tree topology to the gross spatial arrangement of multi-neuron networks. Its capability for automated digitization avoided the subjective errors inherent in manual tracing. The program ceased to be supported in 2012 and the project pages were eventually removed from the ISMMS Website. Its documentation and the #External_links, Windows source code however are still available via the Internet Archive. Deconvolution Deconvolution of imaged data is essential for accurate 3D reconstructions. De ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Neuronal Tracing
Neuronal tracing, or neuron reconstruction is a technique used in neuroscience to determine the pathway of the neurites or neuronal processes, the axons and dendrites, of a neuron. From a sample preparation point of view, it may refer to some of the following as well as other genetic neuron labeling techniques, * Anterograde tracing, for labeling from the cell body to synapse; * Retrograde tracing, for labeling from the synapse to cell body; * Viral neuronal tracing, for a technique which can be used to label in either direction; * Manual tracing of neuronal imagery. In broad sense, neuron tracing is more often related to digital reconstruction of a neuron's morphology from imaging data of above samples. Digital neuronal reconstruction and neuronal tracing Digital reconstruction or tracing of neuron morphology is a fundamental task in computational neuroscience. It is also critical for mapping neuronal circuits based on advanced microscope images, usually based on light micros ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Topological Skeleton
In shape analysis, skeleton (or topological skeleton) of a shape is a thin version of that shape that is equidistant to its boundaries. The skeleton usually emphasizes geometrical and topological properties of the shape, such as its connectivity, topology, length, direction, and width. Together with the distance of its points to the shape boundary, the skeleton can also serve as a representation of the shape (they contain all the information necessary to reconstruct the shape). Skeletons have several different mathematical definitions in the technical literature, and there are many different algorithms for computing them. Various different variants of skeleton can also be found, including straight skeletons, morphological skeletons, etc. In the technical literature, the concepts of skeleton and medial axis are used interchangeably by some authors,, Section 11.1.5, p. 650 while some other authors, Section 9.9, p. 382., Section 17.5.2, p. 234. regard them as rel ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Icahn School Of Medicine At Mount Sinai
The Icahn School of Medicine at Mount Sinai (ISMMS or Mount Sinai), formerly the Mount Sinai School of Medicine, is a private medical school in New York City. It is the academic teaching arm of the Mount Sinai Health System, which manages eight hospital campuses in the New York metropolitan area, including Mount Sinai Hospital and the New York Eye and Ear Infirmary. Mount Sinai is ranked #11 among American medical schools by the 2023 '' U.S. News & World Report''.https://www.usnews.com/best-graduate-schools/top-medical-schools/icahn-school-of-medicine-at-mount-sinai-04072 In 2021, it was ranked 15th in the country for biomedical research and leads the country in research funding from the National Institutes of Health for neuroscience (#2) and genetics (#2). It attracted over $400 million in total NIH funding in 2021. Mount Sinai's faculty includes 23 elected members of the National Academies of Sciences, Engineering, and Medicine and 40 members of the American Society fo ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Voxel
In 3D computer graphics, a voxel represents a value on a regular grid in three-dimensional space. As with pixels in a 2D bitmap, voxels themselves do not typically have their position (i.e. coordinates) explicitly encoded with their values. Instead, rendering systems infer the position of a voxel based upon its position relative to other voxels (i.e., its position in the data structure that makes up a single volumetric image). In contrast to pixels and voxels, polygons are often explicitly represented by the coordinates of their vertices (as points). A direct consequence of this difference is that polygons can efficiently represent simple 3D structures with much empty or homogeneously filled space, while voxels excel at representing regularly sampled spaces that are non-homogeneously filled. Voxels are frequently used in the visualization and analysis of medical and scientific data (e.g. geographic information systems (GIS)). Some volumetric displays use voxels to describ ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Morphology (biology)
Morphology is a branch of biology dealing with the study of the form and structure of organisms and their specific structural features. This includes aspects of the outward appearance ( shape, structure, colour, pattern, size), i.e. external morphology (or eidonomy), as well as the form and structure of the internal parts like bones and organs, i.e. internal morphology (or anatomy). This is in contrast to physiology, which deals primarily with function. Morphology is a branch of life science dealing with the study of gross structure of an organism or taxon and its component parts. History The etymology of the word "morphology" is from the Ancient Greek (), meaning "form", and (), meaning "word, study, research". While the concept of form in biology, opposed to function, dates back to Aristotle (see Aristotle's biology), the field of morphology was developed by Johann Wolfgang von Goethe (1790) and independently by the German anatomist and physiologist Karl Friedr ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Particle Physics
Particle physics or high energy physics is the study of fundamental particles and forces that constitute matter and radiation. The fundamental particles in the universe are classified in the Standard Model as fermions (matter particles) and bosons (force-carrying particles). There are three generations of fermions, but ordinary matter is made only from the first fermion generation. The first generation consists of up and down quarks which form protons and neutrons, and electrons and electron neutrinos. The three fundamental interactions known to be mediated by bosons are electromagnetism, the weak interaction, and the strong interaction. Quarks cannot exist on their own but form hadrons. Hadrons that contain an odd number of quarks are called baryons and those that contain an even number are called mesons. Two baryons, the proton and the neutron, make up most of the mass of ordinary matter. Mesons are unstable and the longest-lived last for only a few hundredt ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Grayscale
In digital photography, computer-generated imagery, and colorimetry, a grayscale image is one in which the value of each pixel is a single sample representing only an ''amount'' of light; that is, it carries only intensity information. Grayscale images, a kind of black-and-white or gray monochrome, are composed exclusively of shades of gray. The contrast ranges from black at the weakest intensity to white at the strongest. Grayscale images are distinct from one-bit bi-tonal black-and-white images, which, in the context of computer imaging, are images with only two colors: black and white (also called ''bilevel'' or ''binary images''). Grayscale images have many shades of gray in between. Grayscale images can be the result of measuring the intensity of light at each pixel according to a particular weighted combination of frequencies (or wavelengths), and in such cases they are monochromatic proper when only a single frequency (in practice, a narrow band of frequencies) is ca ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Dendrite
Dendrites (from Greek δένδρον ''déndron'', "tree"), also dendrons, are branched protoplasmic extensions of a nerve cell that propagate the electrochemical stimulation received from other neural cells to the cell body, or soma, of the neuron from which the dendrites project. Electrical stimulation is transmitted onto dendrites by upstream neurons (usually via their axons) via synapses which are located at various points throughout the dendritic tree. Dendrites play a critical role in integrating these synaptic inputs and in determining the extent to which action potentials are produced by the neuron. Dendritic arborization, also known as dendritic branching, is a multi-step biological process by which neurons form new dendritic trees and branches to create new synapses. The morphology of dendrites such as branch density and grouping patterns are highly correlated to the function of the neuron. Malformation of dendrites is also tightly correlated to impaired nervous sys ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Voxel
In 3D computer graphics, a voxel represents a value on a regular grid in three-dimensional space. As with pixels in a 2D bitmap, voxels themselves do not typically have their position (i.e. coordinates) explicitly encoded with their values. Instead, rendering systems infer the position of a voxel based upon its position relative to other voxels (i.e., its position in the data structure that makes up a single volumetric image). In contrast to pixels and voxels, polygons are often explicitly represented by the coordinates of their vertices (as points). A direct consequence of this difference is that polygons can efficiently represent simple 3D structures with much empty or homogeneously filled space, while voxels excel at representing regularly sampled spaces that are non-homogeneously filled. Voxels are frequently used in the visualization and analysis of medical and scientific data (e.g. geographic information systems (GIS)). Some volumetric displays use voxels to describ ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Dendrite
Dendrites (from Greek δένδρον ''déndron'', "tree"), also dendrons, are branched protoplasmic extensions of a nerve cell that propagate the electrochemical stimulation received from other neural cells to the cell body, or soma, of the neuron from which the dendrites project. Electrical stimulation is transmitted onto dendrites by upstream neurons (usually via their axons) via synapses which are located at various points throughout the dendritic tree. Dendrites play a critical role in integrating these synaptic inputs and in determining the extent to which action potentials are produced by the neuron. Dendritic arborization, also known as dendritic branching, is a multi-step biological process by which neurons form new dendritic trees and branches to create new synapses. The morphology of dendrites such as branch density and grouping patterns are highly correlated to the function of the neuron. Malformation of dendrites is also tightly correlated to impaired nervous sys ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
