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Slides
Slides

... Q ::= p | (Q) | Q AND Q | Q OR Q | NOT Q p: a keyword which can be a simple keyword, typed keyword, or conditional keyword Q: a keyword query eg: Ullman AND (database OR algorithm) Search Algorithm  NUITS adopts a data-graph-based search algorithm, and each result is a tuple-connection-tree  The a ...
The use of Minimum spanning Trees in microarray expression data
The use of Minimum spanning Trees in microarray expression data

... minimum F-S clustering measure The feature selection is used to select a subset of genes that single out between the clusters University of Crete ...
the document - Fruit
the document - Fruit

Bayesian updating of mechanical models - Application in fracture mechanics
Bayesian updating of mechanical models - Application in fracture mechanics

An Introduction to Genetic Algorithms and the application
An Introduction to Genetic Algorithms and the application

A Tree Based Data Aggregation Scheme for Wireless Sensor
A Tree Based Data Aggregation Scheme for Wireless Sensor

A Novel Genetic Programming Based Approach for
A Novel Genetic Programming Based Approach for

... and may be greater or equal to the number of classes of the problem at hand. In fact, in many classification problems a single class may contain a variable number of subclasses. Hence, c expressions may not be able to effectively classify all the samples, since a single expression might be inadequat ...
TKTL_luento3
TKTL_luento3

... ML used to select the next change-point • Results from heuristics are analyzed using proposed Bayes model • Evaluation of the results using the artificial data – estimate how well the obtained model predicts the future data sets – compare the models with DJS that uses also prior information ...
AP Biology
AP Biology

... DNA, RNA and protein sequences of a maximum 10,000 base pairs. With a few clicks of a mouse students and scientists alike can compare known and unknown DNA sequences, establish common relationships between organisms, and look for similar protein structures in different organisms. All in a matter of ...
The Use of Cytochrome B Sequence Variation in Estimation of
The Use of Cytochrome B Sequence Variation in Estimation of

... VZREOPHYLOGENY FROM CYT-B SEQUENCE able in the programs. In each analysis, 1,000 bootstrap data bases were created from which trees were constructed. A consensustree of the bootstrap trees was made with the program Consensus, which constructed a majority rule tree. This program producesa consensust ...
Text S1.
Text S1.

3.1/3.2 Solving Systems of Equations by Substitution Method
3.1/3.2 Solving Systems of Equations by Substitution Method

BLIND GENE CLASSIFICATION BASED ON ICA OF MICROARRAY
BLIND GENE CLASSIFICATION BASED ON ICA OF MICROARRAY

Revealing the demographic histories of species
Revealing the demographic histories of species

... Thus, if two DNA sequences are sampled from a population, the probability (h) that they share a common ancestor (i.e. that they coalesce) in the previous generation is the same for any two sequences chosen. Consider the following simple example (Fig. I). A population consists of ten individuals (‘a’ ...
VARIOUS ESTIMATIONS OF π AS
VARIOUS ESTIMATIONS OF π AS

... The Monte Carlo method uses pseudo-random numbers (numbers which are generated by a formula using the selection of one random “seed” number) as values for certain variables in algorithms to generate random variates of chosen probability functions to be used in simulations of statistical models or to ...
Pair-wise sequence alignment
Pair-wise sequence alignment

Bioportal_2010
Bioportal_2010

Challenges . Opportunities . High-dimensional choice data
Challenges . Opportunities . High-dimensional choice data

... patents (Google Patents). In the twenty-first century, due to advances in software engineering, marketers can use this unstructured information to “listen” to what customers have to say about one’s own existing products (or competitors’ products) and to identify gaps in the product space, trends in ...
Statistical classification is a procedure in which individual items are
Statistical classification is a procedure in which individual items are

...  Bayesian Classification Bayesian classifier is defined by a set C of classes and a set A of attributes. A generic class belonging to C is denoted by cj and a generic attribute belonging to A as Ai. Consider a database D with a set of attribute values and the class label of the case. The training ...
Covering the Aztec Diamond
Covering the Aztec Diamond

... In Step 2 the column c has to be chosen from the first two types of columns in (1), the columns which have to be fulfilled with equality. The speed of this algorithm is largely determined by the choice of the data structures. Knuth uses in his algorithm DLX doubly linked lists, all the navigation th ...
Full text
Full text

... function (1 - x - x2 - ••• - xk)~l was found by V. Schlegel in 1894. See [1, Chap. XVII] for this and other classical references. An alternate solution to the problem can be obtained as follows. Consider a sequence of experiments: Toss a p-coin Xl times, until a sequence of k - 1 heads occurs. Then ...
PPT1
PPT1

... • Align all sequences (using multiple sequence alignment). • Compute the frequency of each nucleotide in each position (PSPM). • Incorporate background frequency for each nucleotide (PSSM). ...
Single-copy nuclear genes resolve the phylogeny of the
Single-copy nuclear genes resolve the phylogeny of the

Package `MBCluster.Seq`
Package `MBCluster.Seq`

... The probability model for the count data. The distances between the cluster centroids will be calculated based on the likelihood functions. The model can be ’poisson’ for Poisson or ’nbinom’ for negative binomial distribution. print out the proceeding steps or not ...
Cluster Analysis III
Cluster Analysis III

... necessarily more similar • Hard to read when tree is big ...
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Computational phylogenetics

Computational phylogenetics is the application of computational algorithms, methods, and programs to phylogenetic analyses. The goal is to assemble a phylogenetic tree representing a hypothesis about the evolutionary ancestry of a set of genes, species, or other taxa. For example, these techniques have been used to explore the family tree of hominid species and the relationships between specific genes shared by many types of organisms. Traditional phylogenetics relies on morphological data obtained by measuring and quantifying the phenotypic properties of representative organisms, while the more recent field of molecular phylogenetics uses nucleotide sequences encoding genes or amino acid sequences encoding proteins as the basis for classification. Many forms of molecular phylogenetics are closely related to and make extensive use of sequence alignment in constructing and refining phylogenetic trees, which are used to classify the evolutionary relationships between homologous genes represented in the genomes of divergent species. The phylogenetic trees constructed by computational methods are unlikely to perfectly reproduce the evolutionary tree that represents the historical relationships between the species being analyzed. The historical species tree may also differ from the historical tree of an individual homologous gene shared by those species.Producing a phylogenetic tree requires a measure of homology among the characteristics shared by the taxa being compared. In morphological studies, this requires explicit decisions about which physical characteristics to measure and how to use them to encode distinct states corresponding to the input taxa. In molecular studies, a primary problem is in producing a multiple sequence alignment (MSA) between the genes or amino acid sequences of interest. Progressive sequence alignment methods produce a phylogenetic tree by necessity because they incorporate new sequences into the calculated alignment in order of genetic distance.
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