|
Single Particle Reconstruction
Single particle analysis is a group of related computerized image processing techniques used to analyze images from transmission electron microscopy (TEM). These methods were developed to improve and extend the information obtainable from TEM images of particulate samples, typically proteins or other large biological entities such as viruses. Individual images of stained or unstained particles are very noisy, making interpretation difficult. Combining several digitized images of similar particles together gives an image with stronger and more easily interpretable features. An extension of this technique uses single particle methods to build up a three-dimensional reconstruction of the particle. Using cryo-electron microscopy it has become possible to generate reconstructions with sub-nanometer resolution and near-atomic resolution first in the case of highly symmetric viruses, and now in smaller, asymmetric proteins as well. Single particle analysis can also be performed by indu ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Translation (geometry)
In Euclidean geometry, a translation is a geometric transformation that moves every point of a figure, shape or space by the same Distance geometry, distance in a given direction (geometry), direction. A translation can also be interpreted as the addition of a constant vector space, vector to every point, or as shifting the Origin (mathematics), origin of the coordinate system. In a Euclidean space, any translation is an isometry. As a function If \mathbf is a fixed vector, known as the ''translation vector'', and \mathbf is the initial position of some object, then the translation function T_ will work as T_(\mathbf)=\mathbf+\mathbf. If T is a translation, then the image (mathematics), image of a subset A under the function (mathematics), function T is the translate of A by T . The translate of A by T_ is often written as A+\mathbf . Application in classical physics In classical physics, translational motion is movement that changes the Position (geometry), positio ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Contrast Transfer Function
The contrast transfer function (CTF) mathematically describes how aberrations in a transmission electron microscope (TEM) modify the image of a sample.Spence, John C. H. (1988 2nd ed) ''Experimental high-resolution electron microscopy'' (Oxford U. Press, NY) .Ludwig Reimer (1997 4th ed) ''Transmission electron microscopy: Physics of image formation and microanalysis'' (Springer, BerlinpreviewEarl J. Kirkland (1998) ''Advanced computing in electron microscopy'' (Plenum Press, NY). This contrast transfer function (CTF) sets the resolution of high-resolution transmission electron microscopy (HRTEM), also known as phase contrast TEM. By considering the recorded image as a CTF-degraded true object, describing the CTF allows the true object to be reverse-engineered. This is typically denoted CTF-correction, and is vital to obtain high resolution structures in three-dimensional electron microscopy, especially electron cryo-microscopy. Its equivalent in light-based optics is the optical tr ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Point Spread Function
The point spread function (PSF) describes the response of a focused optical imaging system to a point source or point object. A more general term for the PSF is the system's impulse response; the PSF is the impulse response or impulse response function (IRF) of a focused optical imaging system. The PSF in many contexts can be thought of as the shapeless blob in an image that should represent a single point object. We can consider this as a spatial impulse response function. In functional terms, it is the spatial domain version (i.e., the inverse Fourier transform) of the Optical transfer function, optical transfer function (OTF) of an imaging system. It is a useful concept in Fourier optics, astronomy, astronomical imaging, medical imaging, electron microscope, electron microscopy and other imaging techniques such as dimension, 3D microscopy (like in confocal laser scanning microscopy) and fluorescence microscopy. The degree of spreading (blurring) in the image of a point ob ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Focus (optics)
In geometrical optics, a focus, also called an image point, is a point where ray (optics), light rays originating from a point on the object vergence (optics), converge. Although the focus is conceptually a point, physically the focus has a spatial extent, called the circle of confusion, blur circle. This non-ideal focusing may be caused by optical aberration, aberrations of the imaging optics. Even in the absence of aberrations, the smallest possible blur circle is the Airy disc caused by diffraction from the optical system's aperture; diffraction is the ultimate limit to the light focusing ability of any optical system. Aberrations tend to worsen as the aperture diameter increases, while the Airy circle is smallest for large apertures. An image, or image point or region, is in focus if light from object points is converged almost as much as possible in the image, and defocus aberration, out of focus if light is not well converged. The border between these is sometimes define ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Bright-field Microscopy
Bright-field microscopy (BF) is the simplest of all the optical microscopy illumination techniques. Sample illumination is transmitted (i.e., illuminated from below and observed from above) white light, and contrast in the sample is caused by attenuation of the transmitted light in dense areas of the sample. Bright-field microscopy is the simplest of a range of techniques used for illumination of samples in light microscopes, and its simplicity makes it a popular technique. The typical appearance of a bright-field microscopy image is a dark sample on a bright background, hence the name. History of microscopy Compound microscopes first appeared in Europe around 1620. The actual inventor of the compound microscope is unknown although many claims have been made over the years. These include a dubious claim that Dutch spectacle-maker Zacharias Janssen invented the compound microscope and the telescope as early as 1590. Another claim is that Janssen's competitor Hans Lippersh ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Reciprocal Lattice
Reciprocal lattice is a concept associated with solids with translational symmetry which plays a major role in many areas such as X-ray and electron diffraction as well as the energies of electrons in a solid. It emerges from the Fourier transform of the lattice associated with the arrangement of the atoms. The ''direct lattice'' or ''real lattice'' is a periodic function in physical space, such as a crystal system (usually a Bravais lattice). The reciprocal lattice exists in the mathematical space of spatial frequencies or wavenumbers ''k'', known as reciprocal space or ''k'' space; it is the dual of physical space considered as a vector space. In other words, the reciprocal lattice is the sublattice which is dual to the direct lattice. The reciprocal lattice is the set of all vectors \mathbf_m, that are wavevectors k of plane waves in the Fourier series of a spatial function whose periodicity is the same as that of a direct lattice \mathbf_n. Each plane wave in th ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Normal Distribution
In probability theory and statistics, a normal distribution or Gaussian distribution is a type of continuous probability distribution for a real-valued random variable. The general form of its probability density function is f(x) = \frac e^\,. The parameter is the mean or expectation of the distribution (and also its median and mode), while the parameter \sigma^2 is the variance. The standard deviation of the distribution is (sigma). A random variable with a Gaussian distribution is said to be normally distributed, and is called a normal deviate. Normal distributions are important in statistics and are often used in the natural and social sciences to represent real-valued random variables whose distributions are not known. Their importance is partly due to the central limit theorem. It states that, under some conditions, the average of many samples (observations) of a random variable with finite mean and variance is itself a random variable—whose distribution c ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Fast Fourier Transform
A fast Fourier transform (FFT) is an algorithm that computes the discrete Fourier transform (DFT) of a sequence, or its inverse (IDFT). A Fourier transform converts a signal from its original domain (often time or space) to a representation in the frequency domain and vice versa. The DFT is obtained by decomposing a sequence of values into components of different frequencies. This operation is useful in many fields, but computing it directly from the definition is often too slow to be practical. An FFT rapidly computes such transformations by Matrix decomposition, factorizing the DFT matrix into a product of Sparse matrix, sparse (mostly zero) factors. As a result, it manages to reduce the Computational complexity theory, complexity of computing the DFT from O(n^2), which arises if one simply applies the definition of DFT, to O(n \log n), where is the data size. The difference in speed can be enormous, especially for long data sets where may be in the thousands or millions. ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Spatial Frequency
In mathematics, physics, and engineering, spatial frequency is a characteristic of any structure that is periodic across position in space. The spatial frequency is a measure of how often sinusoidal components (as determined by the Fourier transform) of the structure repeat per unit of distance. The SI unit of spatial frequency is the reciprocal metre (m−1), (11 pages) although cycle (rotational unit), cycles per (c/m) is also common. In image-processing applications, spatial freque ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Band-pass Filter
A band-pass filter or bandpass filter (BPF) is a device that passes frequencies within a certain range and rejects ( attenuates) frequencies outside that range. It is the inverse of a '' band-stop filter''. Description In electronics and signal processing, a filter is usually a two-port circuit or device which removes frequency components of a signal (an alternating voltage or current). A band-pass filter allows through components in a specified band of frequencies, called its ''passband'' but blocks components with frequencies above or below this band. This contrasts with a high-pass filter, which allows through components with frequencies above a specific frequency, and a low-pass filter, which allows through components with frequencies below a specific frequency. In digital signal processing, in which signals represented by digital numbers are processed by computer programs, a band-pass filter is a computer algorithm that performs the same function. The term band ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Iteration
Iteration is the repetition of a process in order to generate a (possibly unbounded) sequence of outcomes. Each repetition of the process is a single iteration, and the outcome of each iteration is then the starting point of the next iteration. In mathematics and computer science, iteration (along with the related technique of recursion) is a standard element of algorithms. Mathematics In mathematics, iteration may refer to the process of iterated function, iterating a function, i.e. applying a function repeatedly, using the output from one iteration as the input to the next. Iteration of apparently simple functions can produce complex behaviors and difficult problems – for examples, see the Collatz conjecture and juggler sequences. Another use of iteration in mathematics is in iterative methods which are used to produce approximate numerical solutions to certain mathematical problems. Newton's method is an example of an iterative method. Manual calculation of a number's sq ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
