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Valuation (geometry)-Operations on translation-invariant valuations-There are several natural operations defined on the subspace of smooth valuations Val Val ⁡(V). The most important one is the product of two smooth valuations. Together with pullback and pushforward, this operation extends to valuations on manifolds. ...
milkshake721/2.1M-wiki-STEM
Valuation (geometry)-Operations on translation-invariant valuations-if vol V⁡(∙+A) and vol W⁡(∙+B) where A∈K(V) and B∈K(W) are convex bodies with smooth boundary and strictly positive Gauss curvature, and vol V and vol W are densities on V and W, then Product The product of two smooth valuations Val ∞⁡(V) is d...
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Valuation (geometry)-Operations on translation-invariant valuations-Alesker-Poincaré duality By a theorem of Alesker, the restriction of the product is a non-degenerate pairing. This motivates the definition of the k -homogeneous generalized valuation, denoted Val k−∞⁡(V), as Val Dens ⁡(V), topologized with the wea...
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Valuation (geometry)-Operations on translation-invariant valuations-For simplicity, we fix a density vol on V to trivialize the second factor. Define for fixed A,B∈K(V) with smooth boundary and strictly positive Gauss curvature There is then a unique extension by continuity to a map called the convolution. Unlike ...
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Valuation (geometry)-Valuations on manifolds-In a series of papers beginning in 2006, Alesker laid down the foundations for a theory of valuations on manifolds that extends the theory of valuations on convex bodies. The key observation leading to this extension is that via integration over the normal cycle (1), a smoot...
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Valuation (geometry)-Valuations on manifolds-Let X be an n-dimensional smooth manifold and let PX=P+(T∗X) be the co-sphere bundle of X, that is, the oriented projectivization of the cotangent bundle. Let P(X) denote the collection of compact differentiable polyhedra in X. The normal cycle N(A)⊂PX of A∈P(X), whi...
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Valuation (geometry)-Valuations on manifolds-For ease of presentation we henceforth assume that X is oriented, even though the concept of smooth valuations in fact does not depend on orientability. The space of smooth valuations V∞(X) on X consists of functions ϕ:P(X)→C of the form where μ∈Ωn(X) and ω∈Ωn−1(PX) ca...
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Valuation (geometry)-Valuations on manifolds-Examples The following are examples of smooth valuations on a smooth manifold X Smooth measures on X. The Euler characteristic; this follows from the work of Chern on the Gauss-Bonnet theorem, where such μ and ω were constructed to represent the Euler characteristic. In ...
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Valuation (geometry)-Applications in Integral Geometry-Let M be a Riemannian manifold and let G be a Lie group of isometries of M acting transitively on the sphere bundle SM. Under these assumptions the space V∞(M)G of G -invariant smooth valuations on M is finite-dimensional; let ϕ1,…,ϕm be a basis. Let A,B∈P...
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Valuation (geometry)-Applications in Integral Geometry-Then integrals of the form ∫Gϕi(A∩gB)dg are expressible as linear combinations of ϕk(A)ϕl(B) with coefficients cikl independent of A and B : Formulas of this type are called kinematic formulas. Their existence in this generality was proved by Fu. For the thre...
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Valuation (geometry)-Applications in Integral Geometry-Describing the kinematic formulas explicitly is typically a difficult problem. In fact already in the step from real to complex space forms, considerable difficulties arise and these have only recently been resolved by Bernig, Fu, and Solanes. The key insight respo...
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Valuation (geometry)-Applications in Integral Geometry-For a precise statement, let be the kinematic operator, that is, the map determined by the kinematic formulas (2). Let denote the Alesker-Poincaré duality, which is a linear isomorphism. Finally let mG∗ be the adjoint of the product map The Fundamental theorem o...
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Trial graphics-Trial graphics-Trial graphics are images that have been designed by expert graphic artists for use in legal trials and procedures. Graphs and other images can be created to use as evidential support in a court of law by utilizing current graphic design technology. Effective jury presentations are a key p...
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Standard Geographical Classification code (Canada)-Standard Geographical Classification code (Canada)-The Standard Geographical Classification (SGC) is a system maintained by Statistics Canada for categorizing and enumerating the census geographic units of Canada. Each geographic area receives a unique numeric code ran...
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Standard Geographical Classification code (Canada)-Regions-The SGC code format for regions is X, where X is a unique identifier incrementing from east to west, then north. 1: Atlantic Canada2: Quebec3: Ontario4: Prairies5: British Columbia6: Northern Canada
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Standard Geographical Classification code (Canada)-Provinces and Territories-The SGC code format for provinces and territories is XY, where X is the above regional prefix, and Y is a further identifier incrementing from east to west. Taken as a single digit, each value of Y is unique within the province group, or uniqu...
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Standard Geographical Classification code (Canada)-Census divisions-The SGC code format for census divisions is XX YY, where XX is the above province/territory code, and YY is the census division's code, unique within its own province. Census divisions are generally numbered from east to west. In some locations, a simi...
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Standard Geographical Classification code (Canada)-Census divisions-Examples:10 04: Division No. 4, Newfoundland and Labrador10 05: Division No. 5, Newfoundland and Labrador13 08: Kent County, New Brunswick13 09: Northumberland County, New Brunswick13 10: York County, New Brunswick24 64: Les Moulins Regional County Mun...
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Standard Geographical Classification code (Canada)-Census subdivisions-The SGC code format for census subdivisions is XX YY ZZZ, where XX is the province/territory code, YY is the census division code, and ZZZ is the census subdivision's code, unique within its own census division. Census subdivisions are again general...
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MAP3K8-MAP3K8-Mitogen-activated protein kinase kinase kinase 8 is an enzyme that in humans is encoded by the MAP3K8 gene.
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MAP3K8-Function-The gene was identified by its oncogenic transforming activity in cells. The encoded protein is a member of the serine/threonine-specific protein kinase family. This kinase can activate ERK1, ERK2 and p38 MAP kinases. This kinase was shown to activate IkappaB kinases, and thus induce the nuclear product...
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MAP3K8-Interactions-MAP3K8 has been shown to interact with AKT1, CHUK, NFKB2, NFKB1, C22orf25 and TNIP2.
milkshake721/2.1M-wiki-STEM
Textile bleaching-Textile bleaching-The textile bleaching (or bleaching of textiles) is one of the steps in the textile manufacturing process. The objective of bleaching is to remove the natural color for the following steps such as dyeing or printing or to achieve full white. All raw textile materials, when they are i...
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Textile bleaching-History-Bleaching can be dated back to at least 1000BC from an Egyptian list found in the tomb of Rekh-mi-re at Thebes, which mentioned both bleached and unbleached linen. Mulrooney dates it back as far as 5000BC, while Walton claims it was introduced to Egypt from Asia. It’s plausible that it was dis...
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Textile bleaching-History-Discovery of Chlorine After discovering Chlorine in the late 18th century, when chemical bleaching came into existence, the chemical bleaching rose above Grassing, as it was quicker and possible in indoors.The French chemist Claude Louis Berthollet first demonstrated the bleaching properties o...
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Textile bleaching-Scouring-Scouring is the first process carried out with or without chemicals, at room temperature or at suitable higher temperatures with the addition of suitable wetting agents, alkali and so on. Scouring removes the impurities such as waxes, pectins and makes the textile material hydrophilichy or wa...
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Textile bleaching-Bleaching-Bleaching is the process of decolorizing the material after it has been scoured.: 169  Bleaching textiles can be classified as oxidative bleaching and reductive bleaching which can be carried out with oxidizing and reductive bleaching agents.: 161  Bleaching agents attack the chromophores an...
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Textile bleaching-Bleaching-Oxygen bleaching action It is the conjugated double bonds of the substrate that makes the substrate capable of absorbing visible light. Hence, it looks yellower and need bleaching. When bleaching action carries out with oxygen, it removes the chromophoric sites and makes the cloths whiter. O...
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Textile bleaching-Bleaching-Reductive bleaching Reductive bleaching is done with sodium hydrosulphite, a powerful reducing agent. Fibres like polyamides, polyacrylics and polyacetates can be bleached using reductive bleaching technology.
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Textile bleaching-Bleaching-Textile whitening Bleaching of textiles may include an additional application of optical brighteners (OBAs). Optical brightening agents are chemical compounds that absorb light in the ultraviolet and violet region (usually 340-370 nm) of the electromagnetic spectrum, and re-emit light in the...
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Textile bleaching-Whiteness-Whiteness in colorimetry is the degree to which a surface is white. The term "whiteness" refers to the degree to which a surface resembles the properties of a perfect reflecting diffuser, i.e. an ideal reflecting surface that neither absorbs nor transmits light, but instead reflects it evenl...
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Occupancy grid mapping-Occupancy grid mapping-Occupancy Grid Mapping refers to a family of computer algorithms in probabilistic robotics for mobile robots which address the problem of generating maps from noisy and uncertain sensor measurement data, with the assumption that the robot pose is known. Occupancy grids were...
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Occupancy grid mapping-Algorithm outline-There are four major components of occupancy grid mapping approach. They are: Interpretation Integration Position estimation Exploration
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Occupancy grid mapping-Occupancy grid mapping algorithm-The goal of an occupancy mapping algorithm is to estimate the posterior probability over maps given the data: p(m∣z1:t,x1:t) , where m is the map, z1:t is the set of measurements from time 1 to t, and x1:t is the set of robot poses from time 1 to t. The contro...
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Occupancy grid mapping-Occupancy grid mapping algorithm-Occupancy grid algorithms represent the map m as a fine-grained grid over the continuous space of locations in the environment. The most common type of occupancy grid maps are 2d maps that describe a slice of the 3d world. If we let mi denote the grid cell with ...
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Occupancy grid mapping-Occupancy grid mapping algorithm-The standard approach, then, is to break the problem down into smaller problems of estimating p(mi∣z1:t,x1:t) for all grid cells mi . Each of these estimation problems is then a binary problem. This breakdown is convenient but does lose some of the structure of ...
milkshake721/2.1M-wiki-STEM
Christopher Burge-Christopher Burge-Christopher Boyce Burge is Professor of Biology and Biological Engineering at Massachusetts Institute of Technology.
milkshake721/2.1M-wiki-STEM
Christopher Burge-Education-Burge completed his Bachelor of Science at Stanford University in 1990, and continued graduate studies in computational biology at Stanford University, gaining his PhD in 1997 under the supervision of Samuel Karlin. During his time at Stanford he was responsible for developing algorithms for...
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Christopher Burge-Research-From 1997 to 1999 Burge worked as a postdoc in the laboratory of Phillip Allen Sharp, working in the fields of RNA splicing and molecular evolution. Burge joined the Massachusetts Institute of Technology in 1999 as a Bioinformatics Fellow. He became Assistant Professor in 2002, Associate Prof...
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Christopher Burge-Awards-In 2001 he was awarded the Overton Prize for Computational Biology by the International Society for Computational Biology. He was awarded a Searle Scholar Award in 2003 for his research in the computational biology of gene expression. In 2007 he was awarded the Schering-Plough Research Institut...
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Median (geometry)-Median (geometry)-In geometry, a median of a triangle is a line segment joining a vertex to the midpoint of the opposite side, thus bisecting that side. Every triangle has exactly three medians, one from each vertex, and they all intersect each other at the triangle's centroid. In the case of isoscele...
milkshake721/2.1M-wiki-STEM
Median (geometry)-Median (geometry)-The concept of a median extends to tetrahedra.
milkshake721/2.1M-wiki-STEM
Median (geometry)-Relation to center of mass-Each median of a triangle passes through the triangle's centroid, which is the center of mass of an infinitely thin object of uniform density coinciding with the triangle. Thus the object would balance on the intersection point of the medians. The centroid is twice as close ...
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Median (geometry)-Equal-area division-Each median divides the area of the triangle in half; hence the name, and hence a triangular object of uniform density would balance on any median. (Any other lines which divide the area of the triangle into two equal parts do not pass through the centroid.) The three medians divid...
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Median (geometry)-Equal-area division-We have: [ABO]=[ABE]−[BEO] [ACO]=[ACE]−[CEO] Thus, [ABO]=[ACO] and [ADO]=[DBO],[ADO]=12[ABO] Since [AFO]=[FCO],[AFO]=12[ACO]=12[ABO]=[ADO] , therefore, [AFO]=[FCO]=[DBO]=[ADO] Using the same method, one can show that [AFO]=[FCO]=[DBO]=[ADO]=[BEO]=[CEO] Three congruent triangle...
milkshake721/2.1M-wiki-STEM
Median (geometry)-Formulas involving the medians' lengths-The lengths of the medians can be obtained from Apollonius' theorem as: where a,b, and c are the sides of the triangle with respective medians ma,mb, and mc from their midpoints. These formulas imply the relationships:
milkshake721/2.1M-wiki-STEM
Median (geometry)-Other properties-Let ABC be a triangle, let G be its centroid, and let D, E, and F be the midpoints of BC, CA, and AB, respectively. For any point P in the plane of ABC then The centroid divides each median into parts in the ratio 2:1, with the centroid being twice as close to the midpoint of a side a...
milkshake721/2.1M-wiki-STEM
Median (geometry)-Other properties-For any triangle with sides a,b,c and medians ma,mb,mc, The medians from sides of lengths a and b are perpendicular if and only if a2+b2=5c2. The medians of a right triangle with hypotenuse c satisfy ma2+mb2=5mc2. Any triangle's area T can be expressed in terms of its medians ...
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Median (geometry)-Tetrahedron-A tetrahedron is a three-dimensional object having four triangular faces. A line segment joining a vertex of a tetrahedron with the centroid of the opposite face is called a median of the tetrahedron. There are four medians, and they are all concurrent at the centroid of the tetrahedron. A...
milkshake721/2.1M-wiki-STEM
Abandoned mine-Abandoned mine-An abandoned mine refers to a former mining or quarrying operation that is no longer in use and has no responsible entity to finance the cost of remediation and/or restoration of the mine feature or site. Such mines are typically left unattended and may pose safety hazards or cause environ...
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Abandoned mine-Hazards-Abandoned mines contain many hazards, including: Subsidence, or collapsing ground Blasting caps and other unexploded explosives Blackdamp, which accumulates in old mines and can cause suffocation Hidden mine shafts, often hidden beneath bushes, grasses, and other vegetation that has grown up arou...
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Abandoned mine-Abandoned mines in the United States-Definitions Department of the Interior – Bureau of Land Management – Abandoned mines are those mines that were abandoned before January 1, 1981, the effective date of the Bureau of Land Management's Surface Management regulations issued under the authority of the Fede...
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Abandoned mine-Abandoned mines in the United States-In the U.S., the estimation is that approximately 80% of the abandoned mine lands (AML) sites pose physical safety hazards and require more work in determining the proper safety of these lands.Every year, dozens are injured or killed in recreational accidents on mine ...
milkshake721/2.1M-wiki-STEM
Abandoned mine-Abandoned mines in the United States-In the U.S., the Abandoned Mine Land Initiative, launched by the Western Governor's Association and the National Mining Association is also an effort focusing on reporting the number of high-priority AML sites. The initiative identifies, measures, and reports on the p...
milkshake721/2.1M-wiki-STEM
Abandoned mine-Abandoned mines in the United States-Legislation Surface Mining Control and Reclamation Act It can be hazardous and detrimental to reside close to an abandoned coal mining site. The Surface Mining Control and Reclamation Act (SMCRA) was passed in 1977 in two parts: one to control the effects of active mi...
milkshake721/2.1M-wiki-STEM
Abandoned mine-Abandoned mines in Canada-Definitions National Orphaned/Abandoned Mines Initiative – Orphaned or abandoned mines are those mines for which the owner cannot be found or, the owner is financially unable or unwilling to carry out clean-up. They pose environmental, health, safety, and economic problems to co...
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Abandoned mine-Reuse of abandoned mines-Abandoned mines may be reused for other purposes, such as pumped-storage hydropower.
milkshake721/2.1M-wiki-STEM
Nude calendar-Nude calendar-Nude calendars are a type of wall calendar that feature nude models in a variety of scenes and locations. Predominantly in the United Kingdom, nude calendars are produced to raise money for charity.
milkshake721/2.1M-wiki-STEM
Nude calendar-Types-Calendars featuring pin-up models Commercial advertising on calendars started in the late 19th century and has often been linked to pictures or photographs of pin-up models. The products being advertised may be incorporated via product placement in the pictures themselves or separate via logos and c...
milkshake721/2.1M-wiki-STEM
Nude calendar-Types-An example is the Pirelli Calendar. Sports nude calendars Some sports teams have produced nude calendars, often to raise their profile or increase funding. Examples include the Australian women's football team prior to the 2000 Summer Olympics in Sydney, the Canadian cross-country ski team in 2001 a...
milkshake721/2.1M-wiki-STEM
Nude calendar-Types-Charity nude calendars The first nude charity calendar was made by a group of middle-aged Englishwomen, members of a local branch of the Women's Institute, who were posing nude to raise funds for Leukaemia Research. The calendar was released in 1999, and became an international sensation, and also i...
milkshake721/2.1M-wiki-STEM
Nude calendar-Types-The women's rugby match Oxford and Cambridge, which was played at Twickenham in 2015, was publicised by the Oxford team making a nude calendar.Successful charity nude calendars include: Rylstone Women's Institute 2000 Alternative WI Calendar, the first ever nude charity calendar Dieux du Stade (Fran...
milkshake721/2.1M-wiki-STEM
Vruk-Vruk-The Vruk is a proprietary bass drum pedal design produced by Vruk Corporation. The term vruk also refers to playing techniques associated with this design, and related accessories produced by the corporation for attachment to other brands of pedal. Proponents claim that the technique gives greater control and...
milkshake721/2.1M-wiki-STEM
Self-brand-Self-brand-Throughout the long history of consumer research, there has been much interest regarding how consumers choose which brand to buy and why they continue to purchase these brands. Self-branding describes the process in which consumers match their own self-concept with the images of a certain brand.
milkshake721/2.1M-wiki-STEM
Self-brand-Self-brand-People engaged in consumption do not merely buy certain products to satisfy basic needs. In fact, consumer buying habits are at a much deeper level. Owning a certain brand can help consumers to express and build their own self-concept. Specifically, consumers will often only purchase certain trade...
milkshake721/2.1M-wiki-STEM
Self-brand-Formation of connections-Based on self-congruity theory The above explanation for self-branding can be summarized by Sirgy's self-congruity theory. It is proposed that consumer behavior is partially determined by the similarity between consumers' psychological comparisons of the brand-user-image. This self-c...
milkshake721/2.1M-wiki-STEM
Self-brand-Formation of connections-Brand evaluation Besides assisting consumer to choose which product and brand to buy, the matching process between self-concept and image of brand and product also determines how consumers evaluate the brand and product. When we say that a brand has a positive brand-image, it means t...
milkshake721/2.1M-wiki-STEM
Self-brand-Constructing a self-concept-When the set of brand associations are linked or connected to the self, these associations can help consumers achieve certain goals. These goals include what they might become, what they would like to become, and what they are afraid of becoming. People are motivated to create a f...
milkshake721/2.1M-wiki-STEM
Self-brand-Constructing a self-concept-Self-enhancement In self-enhancement, the impressions individuals hold about themselves are often biased towards a positive direction. Therefore, they over-emphasize favorable evaluations and minimize critical assessment of self. People use brand to represent favorable self-images...
milkshake721/2.1M-wiki-STEM
Self-brand-Constructing a self-concept-The first aspect in self-enhancement is the need to maintain and enhance self-esteem. Another aspect is about social interaction (e.g. staff meetings). In terms of impression management, people actively manage their presentation (e.g. the brand of garment) in front of other people...
milkshake721/2.1M-wiki-STEM
Self-brand-Constructing a self-concept-Self-verification Self-verification refers to seek accurate information about self. In general, people seek and interpret situations and behavioral strategies that match their present self-conceptions. In contrast, they avoid situations and behaviors that derive contradictory info...
milkshake721/2.1M-wiki-STEM
Self-brand-Constructing a self-concept-Compatibility of self-enhancement and self-verification It seems that it is incompatible to seek feedback that is favorable (self-enhancement) and at the same time seek accurate feedback regardless of favorability (self-verification). Social psychology shows that there are factors...
milkshake721/2.1M-wiki-STEM
Self-brand-Use of YouTube to promote a brand-YouTube has become an increasingly popular platform for self-branding. As self-branding is known for its strategic placement of oneself through a media outlet, it is a commonplace for many individuals to post videos, clips, tutorials, and other visual aides under their chann...
milkshake721/2.1M-wiki-STEM
Self-brand-Use of YouTube to promote a brand-The concept of self-branding a product can be seen particularly in the case of physical exercise gurus, beauty gurus, health gurus, food expert, and other gurus as well. This concept can be seen in the successful Michelle Phan, who is a beauty guru on YouTube. Michelle Phan ...
milkshake721/2.1M-wiki-STEM
Self-brand-Development of concepts-In the process of consumer socialization, self-brand connections develop throughout childhood as a result of developmental changes. Major changes occur in the representation of self-concepts between early childhood and adolescence. As children grow older, they conceptualize the self i...
milkshake721/2.1M-wiki-STEM
Self-brand-Development of concepts-Children recognize brand at an early age, as young as 3 or 4 years of age. John and Sujan (1990) found that children 4–7 years of age used perceptual cues (shape, package color), whereas older children (8–10 years) used no observable conceptual cues (taste) as a basis for classifying ...
milkshake721/2.1M-wiki-STEM
Self-brand-Development of concepts-Late childhood (10–12 years of age) begin heightened appreciation for subtle meanings imbedded in brand images converges with a trend toward defining the self in more abstract and complex terms. Brands gain recognition as useful devices for characterizing the self in terms of personal...
milkshake721/2.1M-wiki-STEM
Self-brand-Development of concepts-As children move into adolescence, children have deeper self-brand connections because they think about brand in a very specific way—as having personalities and symbolizing group membership—that provides a natural link to their self-concepts. A greater understanding of the self, combi...
milkshake721/2.1M-wiki-STEM
Self-brand-Reference group-As mentioned in the social comparison theory proposed by social psychologist Leon Festinger in 1954, humans have a drive to evaluate themselves by examining their opinions and abilities in comparison to others. Consumers often use the images of other brands' users as a source of information f...
milkshake721/2.1M-wiki-STEM
Self-brand-Reference group-In many consumer researches, reference group is a key concept for demonstrating the congruency between group membership and brand usage. It refers to the social groups that are important to a consumer and against which he/she compares oneself. With different personal goals, individuals would ...
milkshake721/2.1M-wiki-STEM
Self-brand-Use-On the marketing level, companies gain an enduring competitive advantage by utilizing the association between brand and self-concept. This type of association is difficult for competitors to imitate. For example, in a sport consumption context, when consumer fans identify with the team (i.e., a branded o...
milkshake721/2.1M-wiki-STEM
Id Tech 7-Id Tech 7-id Tech 7 is a multiplatform proprietary game engine developed by id Software. As part of the id Tech series of game engines, it is the successor to id Tech 6. The software was first demonstrated at QuakeCon 2018 as part of the id Software announcement of Doom Eternal.
milkshake721/2.1M-wiki-STEM
Id Tech 7-Technology-id Tech 7 features ten times the geometric detail, and higher texture fidelity of id Tech 6. Moreover the capabilities of the game engine allow it to have a new system called "Destructible Demons", in which enemies' bodies become progressively destroyed and deteriorated in combat as they suffer dam...
milkshake721/2.1M-wiki-STEM
Id Tech 7-Technology-Improvements in comparison to id Tech 6 1 million fewer lines of code, due in part to the removal of the OpenGL render-engine Unified HDR lighting and shadowing Full HDR-support on PS4, PS4 Pro, PS5, Xbox One S, Xbox One X, Xbox Series S, Xbox Series X, PC and Stadia Multi PBR material compositing,...
milkshake721/2.1M-wiki-STEM
Id Tech 7-Technology-Rewritten jobs-system to use all available CPU-cores more efficiently Improved post-processing effects, including more detailed anti-aliasing and enhanced motion blur Support for gameplay areas twice the size of those in id Tech 6 Improved image streaming Expanded decal system Improved LOD system N...
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Id Tech 7-Games using id Tech 7-Doom Eternal (2020) – id Software
milkshake721/2.1M-wiki-STEM
TASB (psychedelics)-TASB (psychedelics)-TASB, or thioasymbescaline, is a series of lesser-known psychedelic drugs similar in structure to asymbescaline and to mescaline. They were first synthesized by Alexander Shulgin and written up in his book PiHKAL (Phenethylamines i Have Known And Loved). Very little is known abou...
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TASB (psychedelics)-TASB compounds-3-TASB Dosage: 160 mg or greater Duration: 10–18 hours Effects: Mild stimulative effects 4-TASB Dosage: 60–100 mg Duration: 10–15 hours Effects: Negative effects 5-TASB Dosage: 160 mg or greater Duration: 8 hours Effects: Warmth at extremities, diarrhea
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Sequence assembly-Sequence assembly-In bioinformatics, sequence assembly refers to aligning and merging fragments from a longer DNA sequence in order to reconstruct the original sequence. This is needed as DNA sequencing technology might not be able to 'read' whole genomes in one go, but rather reads small pieces of be...
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Sequence assembly-Sequence assembly-The problem of sequence assembly can be compared to taking many copies of a book, passing each of them through a shredder with a different cutter, and piecing the text of the book back together just by looking at the shredded pieces. Besides the obvious difficulty of this task, there...
milkshake721/2.1M-wiki-STEM
Sequence assembly-Genome assemblers-The first sequence assemblers began to appear in the late 1980s and early 1990s as variants of simpler sequence alignment programs to piece together vast quantities of fragments generated by automated sequencing instruments called DNA sequencers. As the sequenced organisms grew in si...
milkshake721/2.1M-wiki-STEM
Sequence assembly-EST assemblers-Expressed sequence tag or EST assembly was an early strategy, dating from the mid-1990s to the mid-2000s, to assemble individual genes rather than whole genomes. The problem differs from genome assembly in several ways. The input sequences for EST assembly are fragments of the transcrib...
milkshake721/2.1M-wiki-STEM
Sequence assembly-EST assemblers-EST assembly is made much more complicated by features like (cis-) alternative splicing, trans-splicing, single-nucleotide polymorphism, and post-transcriptional modification. Beginning in 2008 when RNA-Seq was invented, EST sequencing was replaced by this far more efficient technology,...
milkshake721/2.1M-wiki-STEM
Sequence assembly-Types of sequence assembly-There are three approaches to assembling sequencing data: De-novo: assembling sequencing reads to create full-length (sometimes novel) sequences, without using a template (see de novo sequence assemblers, de novo transcriptome assembly) Mapping/Aligning: assembling reads by ...
milkshake721/2.1M-wiki-STEM
Sequence assembly-Types of sequence assembly-Reference-guided: grouping of reads by similarity to the most similar region within the reference (step wise mapping). Reads within each group are then shortened down to mimic short reads quality. A typical method to do so is the k-mer approach. Reference-guided assembly is ...
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Sequence assembly-De-novo vs. mapping assembly-In terms of complexity and time requirements, de-novo assemblies are orders of magnitude slower and more memory intensive than mapping assemblies. This is mostly due to the fact that the assembly algorithm needs to compare every read with every other read (an operation tha...
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Sequence assembly-De-novo vs. mapping assembly-de Bruijn Graph (DBG) approach, which is most widely applied to the short reads from the Solexa and SOLiD platforms. It relies on K-mer graphs, which performs well with vast quantities of short reads.
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Sequence assembly-De-novo vs. mapping assembly-Greedy graph-based approach, which may also use one of the OLC or DBG approaches. With greedy graph-based algorithms, the contigs grow by greedy extension, always taking on the read that is found by following the highest-scoring overlap.Referring to the comparison drawn to...
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Sequence assembly-De-novo vs. mapping assembly-Handling repeats in de-novo assembly requires the construction of a graph representing neighboring repeats. Such information can be derived from reading a long fragment covering the repeats in full or only its two ends. On the other hand, in a mapping assembly, parts with ...
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Sequence assembly-Sequence assembly pipeline (bioinformatics)-In general, there are three steps in assembling sequencing reads into a scaffold: 1) Pre-assembly: this step is essential to ensure the integrity of downline analysis such as variant calling or final scaffold sequence. This step consists of two chronological...
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