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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, and so hard to interpret. 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 induced c ... [...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 in a given direction. A translation can also be interpreted as the addition of a constant vector to every point, or as shifting the 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 of a subset A under the function T is the translate of A by T . The translate of A by T_ is often written A+\mathbf . Horizontal and vertical translations In geometry, a vertical translation (also known as vertical shift) is a translation of a geometric object in a direction parallel to the vertical axis of the Cartesian coordinate system. Often, vertical translation ... [...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 t ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Focus (optics)
In geometrical optics, a focus, also called an image point, is a point where light rays originating from a point on the object converge. Although the focus is conceptually a point, physically the focus has a spatial extent, called the blur circle. This non-ideal focusing may be caused by aberrations of the imaging optics. In the absence of significant aberrations, the smallest possible blur circle is the Airy disc, which is caused by diffraction from the optical system's aperture. 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 out of focus if light is not well converged. The border between these is sometimes defined using a " circle of confusion" criterion. A principal focus or focal point is a special focus: * For a lens, or a spherical or parabolic mirror, it is a ... [...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. Light path The light path of a bright-field microscope is extremely simple, no additional components are required beyond the normal light-microscope setup. The light path therefore consists of: * a transillumination light source, commonly a halogen lamp in the microscope stand; * a condenser lens, which focuses light from the light source onto the sample; * an objective lens, which collects lig ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Reciprocal Lattice
In physics, the reciprocal lattice represents the Fourier transform of another lattice (group) (usually a Bravais lattice). In normal usage, the initial lattice (whose transform is represented by the reciprocal lattice) is a periodic spatial function in real space known as the ''direct lattice''. While the direct lattice exists in real space and is commonly understood to be a physical lattice (such as the lattice of a crystal), the reciprocal lattice exists in the space of spatial frequencies known as reciprocal space or k space, where \mathbf refers to the wavevector. In quantum physics, reciprocal space is closely related to momentum space according to the proportionality \mathbf = \hbar \mathbf, where \mathbf is the momentum vector and \hbar is the Planck constant. The reciprocal lattice of a reciprocal lattice is equivalent to the original direct lattice, because the defining equations are symmetrical with respect to the vectors in real and reciprocal space. Mathematicall ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Normal Distribution
In 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 \mu is the mean or expectation of the distribution (and also its median and mode), while the parameter \sigma is its standard deviation. The variance of the distribution is \sigma^2. 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 converges to a normal d ... [...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). Fourier analysis 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 factorizing the DFT matrix into a product of sparse (mostly zero) factors. As a result, it manages to reduce the complexity of computing the DFT from O\left(N^2\right), which arises if one simply applies the definition of DFT, to O(N \log N), where N is the data size. The difference in speed can be enormous, especially for long data sets where ''N'' may be in the thousands or millions. In the presence of round-off error, many FFT algo ... [...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 cycles per meter (m). In image-processing applications, spatial frequency is often expressed in units of cycles per millimeter (mm) or equivalently line pairs per mm. In wave propagation, the spatial frequency is also known as ''wavenumber''. Ordinary wavenumber is defined as the reciprocal of wavelength \lambda and is commonly denoted by \xi or sometimes \nu: :\xi = \frac. Angular wavenumber k, expressed in rad per m, is related to ordinary wavenumber and wavelength by :k = 2 \pi \xi = \frac. Visual perception In the study of visual perception, sinusoidal gratings are frequently used to probe the capabilities of the visual system. In these ... [...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. 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-pass filter is also used for optical filters, she ... [...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 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 square root is a c ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
