Markovchain Monte Carlo « Jared Lander
Tag Archives: Markov chain Monte Carlo. First Bayesian Short Course. Posted on July 22, 2015. by Jared , Leave a reply ... Bob laid the theoretical foundation for Markov chain Monte Carlo (MCMC), explaining both with math and geometry, and discussed ...
https://www.jaredlander.com/tag/markov-chain-monte-carlo/
Capturing Human Sequence-Learning Abilities in Configuration Design Tasks through MarkovChains - Human Systems Design Lab
Behavioral data from the two studies is first analyzed using Markov chains to determine how much representation complexity is ... It is discovered that first-order Markov chains are capable of accurately representing designers' sequences. Next, the ability ... Capturing Human Sequence-Learning Abilities in Configuration Design Tasks through Markov Chains. ... Capturing Human Sequence-Learning Abilities in Configuration Design Tasks through Markov Chains ...
PyVideo.org · Title To Be Determined; A tale of graphs and Markovchains
... will briefly describe Markov Chains as a means to simulate conversations and graph databases as a means to store Markov Chains ... Title To Be Determined; A tale of graphs and Markov chains Sat 19 September 2015 By Gary Martin * YouTube ... I wish I had something interesting to talk about.' Nine seconds later someone replied 'create a markov chain to generate a talk ...
http://pyvideo.org/pycon-uk-2015/title-to-be-determined-a-tale-of-graphs-and-markov-chains.html
Browse - Oxford Scholarship
The book deals with the numerical solution of structured Markov chains which include M/G/1 and G/M/1-type Markov chains, QBD ... The book deals with the numerical solution of structured Markov chains which include M/G/1 and G/M/1-type Markov chains, QBD ... The book deals with the numerical solution of structured Markov chains which include M/G/1 and G/M/1-type Markov chains, QBD ... Numerical Methods for Structured Markov Chains. Dario A. Bini, Guy Latouche, and Beatrice Meini. Published in print:. 2005. ...
http://www.oxfordscholarship.com/browse?pageSize=10&sort=titlesort&t_0=OSO%3Amaths&t_1=OSO%3Amatnume
The Markov Chain Algorithm 1.2 is A classic algorithm which can produce entertaining output, given a sufficiently ... chain-of-memories , chain transmission , markov , audio soundmax 4 xl , mpeg4 maker , value chain , chain store , integrator. ... daisy chain , offline chain , 3230 mobile software , evoiz dialer 311 , chain link gates , usb memory key , gom lab eng , chain ... For The Markov Chain Algorithm 1.2 Tags. super ramdisk plus , xbox dvd covers , food chain games , diktator simulator , food ...
Comment on "On the Metropolis-Hastings Acceptance Probability to Add or Drop a Quantitative Trait Locus in MarkovChain Monte...
AS Jean-Luc Jannink and Rohan L. Fernando (Jannink and Fernando 2004) nicely illustrated, when applying Markov chain Monte ... Gaffney, P. J., 2001 An efficient reversible jump Markov chain Monte Carlo approach to detect multiple loci and their effects ... Comment on "On the Metropolis-Hastings Acceptance Probability to Add or Drop a Quantitative Trait Locus in Markov Chain Monte ... Comment on "On the Metropolis-Hastings Acceptance Probability to Add or Drop a Quantitative Trait Locus in Markov Chain Monte ...
http://www.genetics.org/content/167/2/1037
talks.cam : Approximations for Markovchain models
Approximations for Markov chain models. Add to your list(s) Download to your calendar using vCal ... The talk will begin by reviewing methods of specifying continuous-time Markov chains and classical limit theorems that arise ... University of Cambridge , Talks.cam , Isaac Newton Institute Seminar Series , Approximations for Markov chain models ...
http://www.talks.cam.ac.uk/talk/index/65289
MarkovChains, part I - PDF
Introduction A Markov Chain is a sequence of random variables X 0, X 1,, where each X i S, such that P(X i+1 = s i+1 X i = s i ... 1 Markov Chains, part I December 8, Introduction A Markov Chain is a sequence of random variables X 0, X 1,, where each X i S, ... 2 11 Graphical representation Sometimes, a more convenient way to represent a Markov chain is to use a transition diagram, ... j which completely determine the dynamics of the Markov chain well, almost: we need to either be given X 0, or we to choose its ...
http://docplayer.net/30813445-Markov-chains-part-i.html
"MarkovChain Monte Carlo With Application to Image Denoising" by Jakub Michel
A special case of the Markov chain Monte Carlo is the Gibbs sampling algorithm. This algorithm can be used in such a way that ... has become a very popular class of algorithms for sampling from probability distributions based on constructing a Markov chain ... Markov chain Monte Carlo in the last few decades ... Markov chain Monte Carlo in the last few decades has become a ... A special case of the Markov chain Monte Carlo is the Gibbs sampling algorithm. This algorithm can be used in such a way that ...
https://bearworks.missouristate.edu/theses/1649/
Linear Models and MarkovChain MBA Assignment Help, Online Business Assignment Writing Service and Homework Help
Online MBA Assignment Writing Service and Homework Help Linear Models and Markov Chain Assignment Help Linear models explain a ... Linear Models and Markov Chain MBA Assignment Help, ... Linear Models and Markov Chain. Linear Models and Markov Chain ... A Markov chain is a stochastic procedure with the Markov home. The term "Markov chain" describes the series of random variables ... A Markov Chain is a random procedure that goes through shifts from one state to another on a state area. A Markov chain is a ...
https://assignmentsmba.com/linear-models-and-markov-chain-assignment-help-13262
On Input Design for System Identification : Input Design Using MarkovChains
A finite Markov chain is used to model the input of the system. This allows to directly include input amplitude constraints ... On Input Design for System Identification: Input Design Using Markov Chains. Brighenti, Chiara KTH, School of Electrical ... The probability distribution of the Markov chain is shaped in order to minimize an objective function defined in the input ... by properly choosing the state space of the Markov chain. The state space is defined so that the model generates a binary ...
http://kth.diva-portal.org/smash/record.jsf?pid=diva2:573328
Hidden Markov models, Markovchains in random environments, and systems theory | Math
Hidden Markov models, Markov chains in random environments, and systems theory Hidden Markov models, Markov chains in random ... Hidden Markov models, Markov chains in random environments, and systems theory February 6, 2008 - 11:00. - February 6, 2008 - ... weakly ergodic signals with nondegenerate observations by exploiting a surprising connection with the theory of Markov chains ... An essential ingredient of the statistical inference theory for hidden Markov models is the nonlinear filter. The asymptotic ...
https://www.math.princeton.edu/events/hidden-markov-models-markov-chains-random-environments-and-systems-theory-2008-02-06t160002
MarkovChains - Artificial Intelligence - GameDev.net
A brief introduction to Markov Chains. (also called Markov Models, Hidden Markov Models).. Markov Chains are models for the ... The Markov chain arises because we run this system over many such time steps. The name also arises from the fact that Markov ... "Markov chains". Some of the first of them were:. http://www.ms.uky.edu/~viele/sta281f97/markov/markov.html. http://forum. ... I found out about Hidden Markov Models, but they seem very Mathsy for me.... Many of the uses of Hidden Markov Models (HMMs) to ...
https://www.gamedev.net/forums/topic/46688-markov-chains/
Simulate Random Walks Through MarkovChain
Create Markov Chain From Random Transition Matrix. Create a Markov chain object from a randomly generated, right-stochastic ... Simulate Random Walks Through Markov Chain. This example shows how to generate and visualize random walks through a Markov ... Create the Markov chain that is characterized by the transition matrix P. ... Plot a directed graph of the Markov chain and identify classes using node color and markers. ...
http://www.mathworks.com/examples/econometrics/mw/econ-ex08753404-simulate-random-walks-through-markov-chain
MarkovChains - Recurrence
... Hi, I was reading about Markov chains in wikipedia and I've got a doubt on this topic: Markov chain ... Hi, I was reading about Markov chains in wikipedia and I've got a doubt on this topic: Markov chain - Wikipedia, the free ... The most simple example of a null-recurrent Markov chain is the symmetric random walk on \$\displaystyle \mathbb{Z}\$: it is ... Since \$\displaystyle p_{21},0\$, if the state 2 is visited infinitely often, the Markov chain will also visit the state 1 ...
MarkovChains and Invariant Probabilities | Onesimo Hernandez-Lerma | Springer
This book concerns discrete-time homogeneous Markov chains that admit an invariant probability measure. The main objective is ... Markov Chains and Invariant Probabilities. Authors: Hernandez-Lerma, Onesimo, Lasserre, Jean B. ... This book concerns discrete-time homogeneous Markov chains that admit an invariant probability measure. The main objective is ... self-contained presentation on some key issues about the ergodic behavior of that class of Markov chains. These issues include ...
http://www.springer.com/us/book/9783764370008
Monotone dependence in graphical models for multivariate Markovchains
... and the dependence of an univariate component of the chain on its parents-according to the graph terminology-is described in ... We show that a deeper insight into the relations among marginal processes of a multivariate Markov chain can be gained by ... "Alternative Markov Properties for Chain Graphs," Scandinavian Journal of Statistics, Danish Society for Theoretical Statistics; ... "Monotone dependence in graphical models for multivariate Markov chains," Metrika: International Journal for Theoretical and ...
https://ideas.repec.org/a/spr/metrik/v76y2013i7p873-885.html
MarkovChain Monte Carlo - Sampling Methods | Coursera
And a Markov chain defines a probabilistic transition model which, given that I'm at a given state, x tells me how likely I am ... Markov Chain Monte Carlo. To view this video please enable JavaScript, and consider upgrading to a web browser that supports ... a Markov chain is defined over a state space which we are going to use x's to ... Most commonly used among these is the class of Markov Chain Monte Carlo (MCMC) algorithms, which includes the simple Gibbs ...
https://www.coursera.org/learn/probabilistic-graphical-models-2-inference/lecture/oVFyb/markov-chain-monte-carlo
Stochastic Processes : Poisson Process and MarkovChains
a) Find the transition probabilities of the Markov chain.. (b) Find the stationary distribution of the Markov chain.. (c) ... Stochastic Processes : Poisson Process and Markov Chains. Add. Remove. 1. Suppose that shocks occur according to a Poisson ... Define X7, to be the number of white balls in the first urn at time n. Then {X0,X1,X2,.. .} is a Markov chain.. ( ... Poisson Processes and Markov Chains are investigated. The solution is detailed and well presented. The response received a ...
https://brainmass.com/math/probability/stochastic-processes-poisson-process-and-markov-chains-50874
MarkovChain == Dynamic Bayesian Network? - Artificial Intelligence - GameDev.net
Markov Chain == Dynamic Bayesian Network? By phi , August 17, 2008. in Artificial Intelligence ... 1 I've been looking into Markov chains and understand some of the maths and probability side. However, I've noticed in many ...
https://www.gamedev.net/forums/topic/505305-markov-chain--dynamic-bayesian-network/
Metropolitan/non-metropolitan divergence: A spatial Markovchain approach
Use of a spatial Markov approach shows that non-metropolitan neighbours of metropolitan regions have tended to converge during ... "The properties of tests for spatial effects in discrete Markov chain models of regional income distribution dynamics," Journal ... "Specification and Testing of Markov Chain Models: An Application to Convergence in the European Union," Oxford Bulletin of ... Keywords: Distribution dynamics; convergence; spatial Markov chain; metropolitan; non-metropolitan; Other versions of this item ...
https://ideas.repec.org/a/spr/ecogov/v83y2004i3p543-563.html
MarkovChain Transition Probabilities Help.
For a project I am using a Markov Chain model with 17 states. I have used data to estimate transition probabilities. From these ... Markov Chain Transition Probabilities Help. Hi. For a project I am using a Markov Chain model with 17 states. I have used data ... Re: Markov Chain Transition Probabilities Help. Hi. First you form a matrix P (dimensions k x k where k is the number of ... Re: Markov Chain Transition Probabilities Help. That is exactly what I was looking for! Thanks so much. ...
http://mathhelpforum.com/statistics/202911-markov-chain-transition-probabilities-help.html
Statistics - Discrete MarkovChains | Physics Forums - The Fusion of Science and Community
Well for b) I got .21 and believed that I solved the problem correctly. I don't know exactly what c is even asking me. Find P(X_1 = 0). What exactly are the alphas? Like what do they represent? Alpha 1 = probability x equals zero is .25 ...
Dienekes' Anthropology Blog: 02/2013
We then used a likelihood-based Markov chain Monte Carlo procedure to estimate the most probable times in years separating ...
http://dienekes.blogspot.com/2013_02_01_archive.html?m=0

(1/3175) Genome-wide bioinformatic and molecular analysis of introns in Saccharomyces cerevisiae.

Introns have typically been discovered in an ad hoc fashion: introns are found as a gene is characterized for other reasons. As complete eukaryotic genome sequences become available, better methods for predicting RNA processing signals in raw sequence will be necessary in order to discover genes and predict their expression. Here we present a catalog of 228 yeast introns, arrived at through a combination of bioinformatic and molecular analysis. Introns annotated in the Saccharomyces Genome Database (SGD) were evaluated, questionable introns were removed after failing a test for splicing in vivo, and known introns absent from the SGD annotation were added. A novel branchpoint sequence, AAUUAAC, was identified within an annotated intron that lacks a six-of-seven match to the highly conserved branchpoint consensus UACUAAC. Analysis of the database corroborates many conclusions about pre-mRNA substrate requirements for splicing derived from experimental studies, but indicates that splicing in yeast may not be as rigidly determined by splice-site conservation as had previously been thought. Using this database and a molecular technique that directly displays the lariat intron products of spliced transcripts (intron display), we suggest that the current set of 228 introns is still not complete, and that additional intron-containing genes remain to be discovered in yeast. The database can be accessed at http://www.cse.ucsc.edu/research/compbi o/yeast_introns.html.  (+info)

(2/3175) Economic consequences of the progression of rheumatoid arthritis in Sweden.

OBJECTIVE: To develop a simulation model for analysis of the cost-effectiveness of treatments that affect the progression of rheumatoid arthritis (RA). METHODS: The Markov model was developed on the basis of a Swedish cohort of 116 patients with early RA who were followed up for 5 years. The majority of patients had American College of Rheumatology (ACR) functional class II disease, and Markov states indicating disease severity were defined based on Health Assessment Questionnaire (HAQ) scores. Costs were calculated from data on resource utilization and patients' work capacity. Utilities (preference weights for health states) were assessed using the EQ-5D (EuroQol) questionnaire. Hypothetical treatment interventions were simulated to illustrate the model. RESULTS: The cohort distribution among the 6 Markov states clearly showed the progression of the disease over 5 years of followup. Costs increased with increasing severity of the Markov states, and total costs over 5 years were higher for patients who were in more severe Markov states at diagnosis. Utilities correlated well with the Markov states, and the EQ-5D was able to discriminate between patients with different HAQ scores within ACR functional class II. CONCLUSION: The Markov model was able to assess disease progression and costs in RA. The model can therefore be a useful tool in calculating the cost-effectiveness of different interventions aimed at changing the progression of the disease.  (+info)

(3/3175) Multipoint oligogenic analysis of age-at-onset data with applications to Alzheimer disease pedigrees.

It is usually difficult to localize genes that cause diseases with late ages at onset. These diseases frequently exhibit complex modes of inheritance, and only recent generations are available to be genotyped and phenotyped. In this situation, multipoint analysis using traditional exact linkage analysis methods, with many markers and full pedigree information, is a computationally intractable problem. Fortunately, Monte Carlo Markov chain sampling provides a tool to address this issue. By treating age at onset as a right-censored quantitative trait, we expand the methods used by Heath (1997) and illustrate them using an Alzheimer disease (AD) data set. This approach estimates the number, sizes, allele frequencies, and positions of quantitative trait loci (QTLs). In this simultaneous multipoint linkage and segregation analysis method, the QTLs are assumed to be diallelic and to interact additively. In the AD data set, we were able to localize correctly, quickly, and accurately two known genes, despite the existence of substantial genetic heterogeneity, thus demonstrating the great promise of these methods for the dissection of late-onset oligogenic diseases.  (+info)

(4/3175) Machine learning approaches for the prediction of signal peptides and other protein sorting signals.

Prediction of protein sorting signals from the sequence of amino acids has great importance in the field of proteomics today. Recently, the growth of protein databases, combined with machine learning approaches, such as neural networks and hidden Markov models, have made it possible to achieve a level of reliability where practical use in, for example automatic database annotation is feasible. In this review, we concentrate on the present status and future perspectives of SignalP, our neural network-based method for prediction of the most well-known sorting signal: the secretory signal peptide. We discuss the problems associated with the use of SignalP on genomic sequences, showing that signal peptide prediction will improve further if integrated with predictions of start codons and transmembrane helices. As a step towards this goal, a hidden Markov model version of SignalP has been developed, making it possible to discriminate between cleaved signal peptides and uncleaved signal anchors. Furthermore, we show how SignalP can be used to characterize putative signal peptides from an archaeon, Methanococcus jannaschii. Finally, we briefly review a few methods for predicting other protein sorting signals and discuss the future of protein sorting prediction in general.  (+info)

(5/3175) Genome-wide linkage analyses of systolic blood pressure using highly discordant siblings.

BACKGROUND: Elevated blood pressure is a risk factor for cardiovascular, cerebrovascular, and renal diseases. Complex mechanisms of blood pressure regulation pose a challenge to identifying genetic factors that influence interindividual blood pressure variation in the population at large. METHODS AND RESULTS: We performed a genome-wide linkage analysis of systolic blood pressure in humans using an efficient, highly discordant, full-sibling design. We identified 4 regions of the human genome that show statistical significant linkage to genes that influence interindividual systolic blood pressure variation (2p22.1 to 2p21, 5q33.3 to 5q34, 6q23.1 to 6q24.1, and 15q25.1 to 15q26.1). These regions contain a number of candidate genes that are involved in physiological mechanisms of blood pressure regulation. CONCLUSIONS: These results provide both novel information about genome regions in humans that influence interindividual blood pressure variation and a basis for identifying the contributing genes. Identification of the functional mutations in these genes may uncover novel mechanisms for blood pressure regulation and suggest new therapies and prevention strategies.  (+info)

(6/3175) FORESST: fold recognition from secondary structure predictions of proteins.

MOTIVATION: A method for recognizing the three-dimensional fold from the protein amino acid sequence based on a combination of hidden Markov models (HMMs) and secondary structure prediction was recently developed for proteins in the Mainly-Alpha structural class. Here, this methodology is extended to Mainly-Beta and Alpha-Beta class proteins. Compared to other fold recognition methods based on HMMs, this approach is novel in that only secondary structure information is used. Each HMM is trained from known secondary structure sequences of proteins having a similar fold. Secondary structure prediction is performed for the amino acid sequence of a query protein. The predicted fold of a query protein is the fold described by the model fitting the predicted sequence the best. RESULTS: After model cross-validation, the success rate on 44 test proteins covering the three structural classes was found to be 59%. On seven fold predictions performed prior to the publication of experimental structure, the success rate was 71%. In conclusion, this approach manages to capture important information about the fold of a protein embedded in the length and arrangement of the predicted helices, strands and coils along the polypeptide chain. When a more extensive library of HMMs representing the universe of known structural families is available (work in progress), the program will allow rapid screening of genomic databases and sequence annotation when fold similarity is not detectable from the amino acid sequence. AVAILABILITY: FORESST web server at http://absalpha.dcrt.nih.gov:8008/ for the library of HMMs of structural families used in this paper. FORESST web server at http://www.tigr.org/ for a more extensive library of HMMs (work in progress). CONTACT: valedf@tigr.org; munson@helix.nih.gov; garnier@helix.nih.gov  (+info)

(7/3175) Age estimates of two common mutations causing factor XI deficiency: recent genetic drift is not necessary for elevated disease incidence among Ashkenazi Jews.

The type II and type III mutations at the FXI locus, which cause coagulation factor XI deficiency, have high frequencies in Jewish populations. The type III mutation is largely restricted to Ashkenazi Jews, but the type II mutation is observed at high frequency in both Ashkenazi and Iraqi Jews, suggesting the possibility that the mutation appeared before the separation of these communities. Here we report estimates of the ages of the type II and type III mutations, based on the observed distribution of allelic variants at a flanking microsatellite marker (D4S171). The results are consistent with a recent origin for the type III mutation but suggest that the type II mutation appeared >120 generations ago. This finding demonstrates that the high frequency of the type II mutation among Jews is independent of the demographic upheavals among Ashkenazi Jews in the 16th and 17th centuries.  (+info)

(8/3175) Does over-the-counter nicotine replacement therapy improve smokers' life expectancy?

OBJECTIVE: To determine the public health benefits of making nicotine replacement therapy available without prescription, in terms of number of quitters and life expectancy. DESIGN: A decision-analytic model was developed to compare the policy of over-the-counter (OTC) availability of nicotine replacement therapy with that of prescription ([symbol: see text]) availability for the adult smoking population in the United States. MAIN OUTCOME MEASURES: Long-term (six-month) quit rates, life expectancy, and smoking attributable mortality (SAM) rates. RESULTS: OTC availability of nicotine replacement therapy would result in 91,151 additional successful quitters over a six-month period, and a cumulative total of approximately 1.7 million additional quitters over 25 years. All-cause SAM would decrease by 348 deaths per year and 2940 deaths per year at six months and five years, respectively. Relative to [symbol: see text] nicotine replacement therapy availability, OTC availability would result in an average gain in life expectancy across the entire adult smoking population of 0.196 years per smoker. In sensitivity analyses, the benefits of OTC availability were evident across a wide range of changes in baseline parameters. CONCLUSIONS: Compared with [symbol: see text] availability of nicotine replacement therapy, OTC availability would result in more successful quitters, fewer smoking-attributable deaths, and increased life expectancy for current smokers.  (+info)