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Rank Product
The rank product is a biologically motivated test for the detection of differentially expressed genes in replicated microarray experiments. It is a simple non-parametric statistical method based on ranks of fold changes. In addition to its use in expression profiling, it can be used to combine ranked lists in various application domains, including proteomics, metabolomics, statistical meta-analysis, and general feature selection. Calculation of the rank product Given ''n'' genes and ''k'' replicates, let r_ the rank of gene ''g'' in the ''i''-th replicate. Compute the rank product via the geometric mean: : RP(g)=(\Pi_^kr_)^ Determination of significance levels Simple permutation-based estimation is used to determine how likely a given RP value or better is observed in a random experiment. # generate ''p'' permutations of ''k'' rank lists of length ''n''. # calculate the rank products of the ''n'' genes in the ''p'' permutations. # count how many times the rank products of ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Gene Expression
Gene expression is the process by which information from a gene is used in the synthesis of a functional gene product that enables it to produce end products, protein or non-coding RNA, and ultimately affect a phenotype, as the final effect. These products are often proteins, but in non-protein-coding genes such as transfer RNA (tRNA) and small nuclear RNA (snRNA), the product is a functional non-coding RNA. Gene expression is summarized in the central dogma of molecular biology first formulated by Francis Crick in 1958, further developed in his 1970 article, and expanded by the subsequent discoveries of reverse transcription and RNA replication. The process of gene expression is used by all known life—eukaryotes (including multicellular organisms), prokaryotes (bacteria and archaea), and utilized by viruses—to generate the macromolecular machinery for life. In genetics, gene expression is the most fundamental level at which the genotype gives rise to the phenotype, '' ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Geometric Mean
In mathematics, the geometric mean is a mean or average which indicates a central tendency of a set of numbers by using the product of their values (as opposed to the arithmetic mean which uses their sum). The geometric mean is defined as the th root of the product of numbers, i.e., for a set of numbers , the geometric mean is defined as :\left(\prod_^n a_i\right)^\frac = \sqrt /math> or, equivalently, as the arithmetic mean in logscale: :\exp For instance, the geometric mean of two numbers, say 2 and 8, is just the square root of their product, that is, \sqrt = 4. As another example, the geometric mean of the three numbers 4, 1, and 1/32 is the cube root of their product (1/8), which is 1/2, that is, \sqrt = 1/2. The geometric mean applies only to positive numbers. The geometric mean is often used for a set of numbers whose values are meant to be multiplied together or are exponential in nature, such as a set of growth figures: values of the human population or inter ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Anna Amtmann
Anna Amtmann is a German scientist. She is professor for Molecular Plant Physiology at the University of Glasgow. She serves as Editor-in-Chief of the journal '' Plant, Cell & Environment''. Early life and education Amtmann studied languages, mathematics and biology at the University of Paris and Heidelberg University. She was an Erasmus Programme student at the University of Barcelona. Amtmann completed her graduate degrees in biology in the laboratory of Dietrich Gradmann at the University of Göttingen. Her doctoral research involved the use of electrophysiology to study unicellular marine algae, in an effort to understand how they maintain homeostasis for calcium and sodium ions. Research and career In 1993, after earning her PhD, Amtmann investigated ion transport properties in barley in Dale Sanders' laboratory at the University of York. Whilst at York she developed microarrays that could be used to monitor how ion transporters responded to nutrient deficiency and ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Arrow's Impossibility Theorem
Arrow's impossibility theorem, the general possibility theorem or Arrow's paradox is an impossibility theorem in social choice theory that states that when voters have three or more distinct alternatives (options), no ranked voting electoral system can convert the ranked preferences of individuals into a community-wide (complete and transitive) ranking while also meeting the specified set of criteria: '' unrestricted domain'', '' non-dictatorship'', ''Pareto efficiency'', and ''independence of irrelevant alternatives''. The theorem is often cited in discussions of voting theory as it is further interpreted by the Gibbard–Satterthwaite theorem. The theorem is named after economist and Nobel laureate Kenneth Arrow, who demonstrated the theorem in his doctoral thesis and popularized it in his 1951 book ''Social Choice and Individual Values''. The original paper was titled "A Difficulty in the Concept of Social Welfare". In short, the theorem states that no rank-order electoral syst ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Comparison Of Electoral Systems
Electoral systems are the rules for conducting elections, a main component of which is the algorithm for determining the winner (or several winners) from the ballots cast. This article discusses methods and results of comparing different electoral systems, both those which elect a unique candidate in a 'single-winner' election and those which elect a group of representatives in a multiwinner election. There are 4 main types of reasoning which have been used to try to determine the best voting method: # Argument by example # Adherence to logical criteria # Results of simulated elections # Results of real elections Expert opinions on single-winner voting methods In 2010, a panel of 22 experts on voting procedures were asked: "What is the best voting rule for your town to use to elect the mayor?". One member abstained. Approval voting was used to decide between 18 single-winner voting methods. The ranking (with number ''N'' of approvers from a maximum of 21) of the various syst ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Schulze Method
The Schulze method () is an electoral system developed in 1997 by Markus Schulze that selects a single winner using votes that express preferences. The method can also be used to create a sorted list of winners. The Schulze method is also known as Schwartz Sequential dropping (SSD), cloneproof Schwartz sequential dropping (CSSD), the beatpath method, beatpath winner, path voting, and path winner. The Schulze method is a Condorcet method, which means that if there is a candidate who is preferred by a majority over every other candidate in pairwise comparisons, then this candidate will be the winner when the Schulze method is applied. The output of the Schulze method gives an ordering of candidates. Therefore, if several positions are available, the method can be used for this purpose without modification, by letting the ''k'' top-ranked candidates win the ''k'' available seats. Furthermore, for proportional representation elections, a single transferable vote (STV) variant known as ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Ranking
A ranking is a relationship between a set of items such that, for any two items, the first is either "ranked higher than", "ranked lower than" or "ranked equal to" the second. In mathematics, this is known as a weak order or total preorder of objects. It is not necessarily a total order of objects because two different objects can have the same ranking. The rankings themselves are totally ordered. For example, materials are totally preordered by hardness, while degrees of hardness are totally ordered. If two items are the same in rank it is considered a tie. By reducing detailed measures to a sequence of ordinal numbers, rankings make it possible to evaluate complex information according to certain criteria. Thus, for example, an Internet search engine may rank the pages it finds according to an estimation of their relevance, making it possible for the user quickly to select the pages they are likely to want to see. Analysis of data obtained by ranking commonly requires non-par ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Permutation
In mathematics, a permutation of a set is, loosely speaking, an arrangement of its members into a sequence or linear order, or if the set is already ordered, a rearrangement of its elements. The word "permutation" also refers to the act or process of changing the linear order of an ordered set. Permutations differ from combinations, which are selections of some members of a set regardless of order. For example, written as tuples, there are six permutations of the set , namely (1, 2, 3), (1, 3, 2), (2, 1, 3), (2, 3, 1), (3, 1, 2), and (3, 2, 1). These are all the possible orderings of this three-element set. Anagrams of words whose letters are different are also permutations: the letters are already ordered in the original word, and the anagram is a reordering of the letters. The study of permutations of finite sets is an important topic in the fields of combinatorics and group theory. Permutations are used in almost every branch of mathematics, and in many other fields of scie ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Rank Product
The rank product is a biologically motivated test for the detection of differentially expressed genes in replicated microarray experiments. It is a simple non-parametric statistical method based on ranks of fold changes. In addition to its use in expression profiling, it can be used to combine ranked lists in various application domains, including proteomics, metabolomics, statistical meta-analysis, and general feature selection. Calculation of the rank product Given ''n'' genes and ''k'' replicates, let r_ the rank of gene ''g'' in the ''i''-th replicate. Compute the rank product via the geometric mean: : RP(g)=(\Pi_^kr_)^ Determination of significance levels Simple permutation-based estimation is used to determine how likely a given RP value or better is observed in a random experiment. # generate ''p'' permutations of ''k'' rank lists of length ''n''. # calculate the rank products of the ''n'' genes in the ''p'' permutations. # count how many times the rank products of ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
DNA Microarray
A DNA microarray (also commonly known as DNA chip or biochip) is a collection of microscopic DNA spots attached to a solid surface. Scientists use DNA microarrays to measure the expression levels of large numbers of genes simultaneously or to genotype multiple regions of a genome. Each DNA spot contains picomoles (10−12 moles) of a specific DNA sequence, known as '' probes'' (or ''reporters'' or '' oligos''). These can be a short section of a gene or other DNA element that are used to hybridize a cDNA or cRNA (also called anti-sense RNA) sample (called ''target'') under high-stringency conditions. Probe-target hybridization is usually detected and quantified by detection of fluorophore-, silver-, or chemiluminescence-labeled targets to determine relative abundance of nucleic acid sequences in the target. The original nucleic acid arrays were macro arrays approximately 9 cm × 12 cm and the first computerized image based analysis was published in 1981. It was inv ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Feature Selection
In machine learning and statistics, feature selection, also known as variable selection, attribute selection or variable subset selection, is the process of selecting a subset of relevant features (variables, predictors) for use in model construction. Feature selection techniques are used for several reasons: :* simplification of models to make them easier to interpret by researchers/users, :* shorter training times, :* to avoid the curse of dimensionality, :*improve data's compatibility with a learning model class, :*encode inherent symmetries present in the input space. The central premise when using a feature selection technique is that the data contains some features that are either ''redundant'' or ''irrelevant'', and can thus be removed without incurring much loss of information. ''Redundant'' and ''irrelevant'' are two distinct notions, since one relevant feature may be redundant in the presence of another relevant feature with which it is strongly correlated. Feature sele ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Meta-analysis
A meta-analysis is a statistical analysis that combines the results of multiple scientific studies. Meta-analyses can be performed when there are multiple scientific studies addressing the same question, with each individual study reporting measurements that are expected to have some degree of error. The aim then is to use approaches from statistics to derive a pooled estimate closest to the unknown common truth based on how this error is perceived. Meta-analytic results are considered the most trustworthy source of evidence by the evidence-based medicine literature.Herrera Ortiz AF., Cadavid Camacho E, Cubillos Rojas J, Cadavid Camacho T, Zoe Guevara S, Tatiana Rincón Cuenca N, Vásquez Perdomo A, Del Castillo Herazo V, & Giraldo Malo R. A Practical Guide to Perform a Systematic Literature Review and Meta-analysis. Principles and Practice of Clinical Research. 2022;7(4):47–57. https://doi.org/10.21801/ppcrj.2021.74.6 Not only can meta-analyses provide an estimate of the un ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
