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DNA Code Construction
DNA code construction refers to the application of coding theory to the design of nucleic acid systems for the field of DNA–based computation. Introduction DNA sequences are known to appear in the form of double helices in living cells, in which one DNA strand is hybridized to its complementary strand through a series of hydrogen bonds. For the purpose of this entry, we shall focus on only oligonucleotides. DNA computing involves allowing synthetic oligonucleotide strands to hybridize in such a way as to perform computation. DNA computing requires that the self-assembly of the oligonucleotide strands happen in such a way that hybridization should occur in a manner compatible with the goals of computation. The field of DNA computing was established in Leonard M. Adelman's seminal paper. His work is significant for a number of reasons: * It shows how one could use the highly parallel nature of computation performed by DNA to solve problems that are difficult or almost im ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Coding Theory
Coding theory is the study of the properties of codes and their respective fitness for specific applications. Codes are used for data compression, cryptography, error detection and correction, data transmission and data storage. Codes are studied by various scientific disciplines—such as information theory, electrical engineering, mathematics, linguistics, and computer science—for the purpose of designing efficient and reliable data transmission methods. This typically involves the removal of redundancy and the correction or detection of errors in the transmitted data. There are four types of coding: # Data compression (or ''source coding'') # Error control (or ''channel coding'') # Cryptographic coding # Line coding Data compression attempts to remove unwanted redundancy from the data from a source in order to transmit it more efficiently. For example, ZIP data compression makes data files smaller, for purposes such as to reduce Internet traffic. Data compressio ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Adenine
Adenine () (symbol A or Ade) is a nucleobase (a purine derivative). It is one of the four nucleobases in the nucleic acid of DNA that are represented by the letters G–C–A–T. The three others are guanine, cytosine and thymine. Its derivatives have a variety of roles in biochemistry including cellular respiration, in the form of both the energy-rich adenosine triphosphate (ATP) and the cofactors nicotinamide adenine dinucleotide (NAD), flavin adenine dinucleotide (FAD) and Coenzyme A. It also has functions in protein synthesis and as a chemical component of DNA and RNA. The shape of adenine is complementary to either thymine in DNA or uracil in RNA. The adjacent image shows pure adenine, as an independent molecule. When connected into DNA, a covalent bond is formed between deoxyribose sugar and the bottom left nitrogen (thereby removing the existing hydrogen atom). The remaining structure is called an ''adenine residue'', as part of a larger molecule. Adenosine is adenine ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Bioinformatics
Bioinformatics () is an interdisciplinary field that develops methods and software tools for understanding biological data, in particular when the data sets are large and complex. As an interdisciplinary field of science, bioinformatics combines biology, chemistry, physics, computer science, information engineering, mathematics and statistics to analyze and interpret the biological data. Bioinformatics has been used for '' in silico'' analyses of biological queries using computational and statistical techniques. Bioinformatics includes biological studies that use computer programming as part of their methodology, as well as specific analysis "pipelines" that are repeatedly used, particularly in the field of genomics. Common uses of bioinformatics include the identification of candidates genes and single nucleotide polymorphisms ( SNPs). Often, such identification is made with the aim to better understand the genetic basis of disease, unique adaptations, desirable propertie ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Coding Theory
Coding theory is the study of the properties of codes and their respective fitness for specific applications. Codes are used for data compression, cryptography, error detection and correction, data transmission and data storage. Codes are studied by various scientific disciplines—such as information theory, electrical engineering, mathematics, linguistics, and computer science—for the purpose of designing efficient and reliable data transmission methods. This typically involves the removal of redundancy and the correction or detection of errors in the transmitted data. There are four types of coding: # Data compression (or ''source coding'') # Error control (or ''channel coding'') # Cryptographic coding # Line coding Data compression attempts to remove unwanted redundancy from the data from a source in order to transmit it more efficiently. For example, ZIP data compression makes data files smaller, for purposes such as to reduce Internet traffic. Data compressio ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Circulant Matrix
In linear algebra, a circulant matrix is a square matrix in which all row vectors are composed of the same elements and each row vector is rotated one element to the right relative to the preceding row vector. It is a particular kind of Toeplitz matrix. In numerical analysis, circulant matrices are important because they are diagonalized by a discrete Fourier transform, and hence linear equations that contain them may be quickly solved using a fast Fourier transform. They can be interpreted analytically as the integral kernel of a convolution operator on the cyclic group C_n and hence frequently appear in formal descriptions of spatially invariant linear operations. This property is also critical in modern software defined radios, which utilize Orthogonal Frequency Division Multiplexing to spread the symbols (bits) using a cyclic prefix. This enables the channel to be represented by a circulant matrix, simplifying channel equalization in the frequency domain. In cryptogra ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Monic Polynomial
In algebra, a monic polynomial is a single-variable polynomial (that is, a univariate polynomial) in which the leading coefficient (the nonzero coefficient of highest degree) is equal to 1. Therefore, a monic polynomial has the form: :x^n+c_x^+\cdots+c_2x^2+c_1x+c_0 Univariate polynomials If a polynomial has only one indeterminate ( univariate polynomial), then the terms are usually written either from highest degree to lowest degree ("descending powers") or from lowest degree to highest degree ("ascending powers"). A univariate polynomial in ''x'' of degree ''n'' then takes the general form displayed above, where : ''c''''n'' ≠ 0, ''c''''n''−1, ..., ''c''2, ''c''1 and ''c''0 are constants, the coefficients of the polynomial. Here the term ''c''''n''''x''''n'' is called the ''leading term'', and its coefficient ''c''''n'' the ''leading coefficient''; if the leading coefficient , the univariate polynomial is called monic. Properties Multiplicatively closed The se ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Irreducible Polynomial
In mathematics, an irreducible polynomial is, roughly speaking, a polynomial that cannot be factored into the product of two non-constant polynomials. The property of irreducibility depends on the nature of the coefficients that are accepted for the possible factors, that is, the field to which the coefficients of the polynomial and its possible factors are supposed to belong. For example, the polynomial is a polynomial with integer coefficients, but, as every integer is also a real number, it is also a polynomial with real coefficients. It is irreducible if it is considered as a polynomial with integer coefficients, but it factors as \left(x - \sqrt\right)\left(x + \sqrt\right) if it is considered as a polynomial with real coefficients. One says that the polynomial is irreducible over the integers but not over the reals. Polynomial irreducibility can be considered for polynomials with coefficients in an integral domain, and there are two common definitions. Most often, a po ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Monic Polynomial
In algebra, a monic polynomial is a single-variable polynomial (that is, a univariate polynomial) in which the leading coefficient (the nonzero coefficient of highest degree) is equal to 1. Therefore, a monic polynomial has the form: :x^n+c_x^+\cdots+c_2x^2+c_1x+c_0 Univariate polynomials If a polynomial has only one indeterminate ( univariate polynomial), then the terms are usually written either from highest degree to lowest degree ("descending powers") or from lowest degree to highest degree ("ascending powers"). A univariate polynomial in ''x'' of degree ''n'' then takes the general form displayed above, where : ''c''''n'' ≠ 0, ''c''''n''−1, ..., ''c''2, ''c''1 and ''c''0 are constants, the coefficients of the polynomial. Here the term ''c''''n''''x''''n'' is called the ''leading term'', and its coefficient ''c''''n'' the ''leading coefficient''; if the leading coefficient , the univariate polynomial is called monic. Properties Multiplicatively closed The se ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Finite Field
In mathematics, a finite field or Galois field (so-named in honor of Évariste Galois) is a field that contains a finite number of elements. As with any field, a finite field is a set on which the operations of multiplication, addition, subtraction and division are defined and satisfy certain basic rules. The most common examples of finite fields are given by the integers mod when is a prime number. The ''order'' of a finite field is its number of elements, which is either a prime number or a prime power. For every prime number and every positive integer there are fields of order p^k, all of which are isomorphic. Finite fields are fundamental in a number of areas of mathematics and computer science, including number theory, algebraic geometry, Galois theory, finite geometry, cryptography and coding theory. Properties A finite field is a finite set which is a field; this means that multiplication, addition, subtraction and division (excluding division by zero) ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
GC Content
In molecular biology and genetics, GC-content (or guanine-cytosine content) is the percentage of nitrogenous bases in a DNA or RNA molecule that are either guanine (G) or cytosine (C). This measure indicates the proportion of G and C bases out of an implied four total bases, also including adenine and thymine in DNA and adenine and uracil in RNA. GC-content may be given for a certain fragment of DNA or RNA or for an entire genome. When it refers to a fragment, it may denote the GC-content of an individual gene or section of a gene (domain), a group of genes or gene clusters, a non-coding region, or a synthetic oligonucleotide such as a primer. Structure Qualitatively, guanine (G) and cytosine (C) undergo a specific hydrogen bonding with each other, whereas adenine (A) bonds specifically with thymine (T) in DNA and with uracil (U) in RNA. Quantitatively, each GC base pair is held together by three hydrogen bonds, while AT and AU base pairs are held together by two hydrogen bond ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Hamming Distance
In information theory, the Hamming distance between two strings of equal length is the number of positions at which the corresponding symbols are different. In other words, it measures the minimum number of ''substitutions'' required to change one string into the other, or the minimum number of ''errors'' that could have transformed one string into the other. In a more general context, the Hamming distance is one of several string metrics for measuring the edit distance between two sequences. It is named after the American mathematician Richard Hamming. A major application is in coding theory, more specifically to block codes, in which the equal-length strings are vectors over a finite field. Definition The Hamming distance between two equal-length strings of symbols is the number of positions at which the corresponding symbols are different. Examples The symbols may be letters, bits, or decimal digits, among other possibilities. For example, the Hamming distance betwe ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Mutations
In biology, a mutation is an alteration in the nucleic acid sequence of the genome of an organism, virus, or extrachromosomal DNA. Viral genomes contain either DNA or RNA. Mutations result from errors during DNA or viral replication, mitosis, or meiosis or other types of damage to DNA (such as pyrimidine dimers caused by exposure to ultraviolet radiation), which then may undergo error-prone repair (especially microhomology-mediated end joining), cause an error during other forms of repair, or cause an error during replication ( translesion synthesis). Mutations may also result from insertion or deletion of segments of DNA due to mobile genetic elements. Mutations may or may not produce detectable changes in the observable characteristics (phenotype) of an organism. Mutations play a part in both normal and abnormal biological processes including: evolution, cancer, and the development of the immune system, including junctional diversity. Mutation is the ultimate source of ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
