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327,187
An optimal algorithm for perfect phylogeny haplotyping
 Journal of Computational Biology
"... Inferring of haplotype data from genotype data is a crucial step in linking SNPs to human diseases. The Perfect Phylogeny Haplotyping (PPH) problem is one of the many computational approaches to the Haplotype Inference (HI) problem. Though there are many O(nm 2) solutions to the PPH problem, the com ..."
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Cited by 12 (2 self)
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Inferring of haplotype data from genotype data is a crucial step in linking SNPs to human diseases. The Perfect Phylogeny Haplotyping (PPH) problem is one of the many computational approaches to the Haplotype Inference (HI) problem. Though there are many O(nm 2) solutions to the PPH problem
An optimal algorithm for perfect phylogeny haplotyping
 Journal of Computational Biology
, 2005
"... The Perfect Phylogeny Haplotyping (PPH) problem is one of the many computational approaches to the Haplotype Inference (HI) problem. Though there are many O(nm 2) solutions to the PPH problem, the complexity of the PPH problem itself has remained an open question. In this paper, We introduce the Fle ..."
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Cited by 9 (2 self)
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The Perfect Phylogeny Haplotyping (PPH) problem is one of the many computational approaches to the Haplotype Inference (HI) problem. Though there are many O(nm 2) solutions to the PPH problem, the complexity of the PPH problem itself has remained an open question. In this paper, We introduce
A Simple, Fast, and Accurate Algorithm to Estimate Large Phylogenies by Maximum Likelihood
, 2003
"... The increase in the number of large data sets and the complexity of current probabilistic sequence evolution models necessitates fast and reliable phylogeny reconstruction methods. We describe a new approach, based on the maximumlikelihood principle, which clearly satisfies these requirements. The ..."
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Cited by 2109 (30 self)
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The increase in the number of large data sets and the complexity of current probabilistic sequence evolution models necessitates fast and reliable phylogeny reconstruction methods. We describe a new approach, based on the maximumlikelihood principle, which clearly satisfies these requirements
SNOPT: An SQP Algorithm For LargeScale Constrained Optimization
, 2002
"... Sequential quadratic programming (SQP) methods have proved highly effective for solving constrained optimization problems with smooth nonlinear functions in the objective and constraints. Here we consider problems with general inequality constraints (linear and nonlinear). We assume that first deriv ..."
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Cited by 582 (23 self)
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Sequential quadratic programming (SQP) methods have proved highly effective for solving constrained optimization problems with smooth nonlinear functions in the objective and constraints. Here we consider problems with general inequality constraints (linear and nonlinear). We assume that first
Planning Algorithms
, 2004
"... This book presents a unified treatment of many different kinds of planning algorithms. The subject lies at the crossroads between robotics, control theory, artificial intelligence, algorithms, and computer graphics. The particular subjects covered include motion planning, discrete planning, planning ..."
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Cited by 1108 (51 self)
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This book presents a unified treatment of many different kinds of planning algorithms. The subject lies at the crossroads between robotics, control theory, artificial intelligence, algorithms, and computer graphics. The particular subjects covered include motion planning, discrete planning
Instancebased learning algorithms
 Machine Learning
, 1991
"... Abstract. Storing and using specific instances improves the performance of several supervised learning algorithms. These include algorithms that learn decision trees, classification rules, and distributed networks. However, no investigation has analyzed algorithms that use only specific instances to ..."
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Cited by 1359 (18 self)
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Abstract. Storing and using specific instances improves the performance of several supervised learning algorithms. These include algorithms that learn decision trees, classification rules, and distributed networks. However, no investigation has analyzed algorithms that use only specific instances
Algorithms for Nonnegative Matrix Factorization
 In NIPS
, 2001
"... Nonnegative matrix factorization (NMF) has previously been shown to be a useful decomposition for multivariate data. Two different multiplicative algorithms for NMF are analyzed. They differ only slightly in the multiplicative factor used in the update rules. One algorithm can be shown to minim ..."
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Cited by 1230 (5 self)
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. The algorithms can also be interpreted as diagonally rescaled gradient descent, where the rescaling factor is optimally chosen to ensure convergence.
Factor Graphs and the SumProduct Algorithm
 IEEE TRANSACTIONS ON INFORMATION THEORY
, 1998
"... A factor graph is a bipartite graph that expresses how a "global" function of many variables factors into a product of "local" functions. Factor graphs subsume many other graphical models including Bayesian networks, Markov random fields, and Tanner graphs. Following one simple c ..."
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Cited by 1787 (72 self)
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computational rule, the sumproduct algorithm operates in factor graphs to computeeither exactly or approximatelyvarious marginal functions by distributed messagepassing in the graph. A wide variety of algorithms developed in artificial intelligence, signal processing, and digital communications can
An Efficient Boosting Algorithm for Combining Preferences
, 1999
"... The problem of combining preferences arises in several applications, such as combining the results of different search engines. This work describes an efficient algorithm for combining multiple preferences. We first give a formal framework for the problem. We then describe and analyze a new boosting ..."
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Cited by 707 (18 self)
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The problem of combining preferences arises in several applications, such as combining the results of different search engines. This work describes an efficient algorithm for combining multiple preferences. We first give a formal framework for the problem. We then describe and analyze a new
A learning algorithm for Boltzmann machines
 Cognitive Science
, 1985
"... The computotionol power of massively parallel networks of simple processing elements resides in the communication bandwidth provided by the hardware connections between elements. These connections con allow a significant fraction of the knowledge of the system to be applied to an instance of a probl ..."
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Cited by 586 (13 self)
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to a general learning rule for modifying the connection strengths so as to incorporate knowledge obout o task domain in on efficient way. We describe some simple examples in which the learning algorithm creates internal representations thot ore demonstrobly the most efficient way of using
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