Search results for "Models"
showing 10 items of 8211 documents
Bayesian Modeling of Sequential Discoveries
2022
We aim at modelling the appearance of distinct tags in a sequence of labelled objects. Common examples of this type of data include words in a corpus or distinct species in a sample. These sequential discoveries are often summarised via accumulation curves, which count the number of distinct entities observed in an increasingly large set of objects. We propose a novel Bayesian method for species sampling modelling by directly specifying the probability of a new discovery, therefore allowing for flexible specifications. The asymptotic behavior and finite sample properties of such an approach are extensively studied. Interestingly, our enlarged class of sequential processes includes highly tr…
A comparison of semiparametric approaches to evaluate composite endpoints in heart failure trials
2021
In heart failure trials efficacy is usually proven by a composite endpoint including cardiovascular death (CVD) and recurrent heart failure hospitalisations (HFH), evaluated with time-to-first-event analysis based on a Cox model. As a considerable fraction of events is ignored that way, recurrent event[for full text, please go to the a.m. URL]
GAMLSS for high-variability data: an application to liver fibrosis case
2020
In this paper, we propose management of the problem caused by overdispersed data by applying the generalized additive model for location, scale and shape framework (GAMLSS) as introduced by Rigby and Stasinopoulos (2005). The idea of using a GAMLSS approach for handling our problem comes from the idea of Aitkin (1996) consisting in the use of an EM maximum likelihood estimation algorithm (Dempster, Laird, and Rubin, 1977) to deal with overdispersed generalized linear models (GLM). As in the GLM case, the algorithm is initially derived as a form of Gaussian quadrature assuming a normal mixing distribution. The GAMLSS specification allows the extension of the Aitkin algorithm to probability d…
Efficient change point detection in genomic sequences of continuous measurements
2010
Abstract Motivation: Knowing the exact locations of multiple change points in genomic sequences serves several biological needs, for instance when data represent aCGH profiles and it is of interest to identify possibly damaged genes involved in cancer and other diseases. Only a few of the currently available methods deal explicitly with estimation of the number and location of change points, and moreover these methods may be somewhat vulnerable to deviations of model assumptions usually employed. Results: We present a computationally efficient method to obtain estimates of the number and location of the change points. The method is based on a simple transformation of data and it provides re…
Contributed discussion on article by Pratola
2016
The author should be commended for his outstanding contribution to the literature on Bayesian regression tree models. The author introduces three innovative sampling approaches which allow for efficient traversal of the model space. In this response, we add a fourth alternative.
Dynamics of Pattern Formation in Biomimetic Systems
2008
This paper is an attempt to conceptualize pattern formation in self-organizing systems and, in particular, to understand how structures, oscillations or waves arise in a steady and homogenous environment, a phenomenon called symmetry breaking. The route followed to develop these ideas was to couple chemical oscillations produced by Belousov-Zhabotinsky reaction with confined reaction environments, the latter being an essential requirement for any process of Life. Special focus was placed on systems showing organic or lipidic compartments, which represent more reliable biomimetic matrices.
A Calvin Bestiary
2017
This paper compares a number of mathematical models for the Calvin cycle of photosynthesis and presents theorems on the existence and stability of steady states of these models. Results on five-variable models in the literature are surveyed. Next a number of larger models related to one introduced by Pettersson and Ryde-Pettersson are discussed. The mathematical nature of this model is clarified, showing that it is naturally defined as a system of differential-algebraic equations. It is proved that there are choices of parameters for which this model admits more than one positive steady state. This is done by analysing the limit where the storage of sugars from the cycle as starch is shut d…
CO-releasing binuclear rhodium complexes as inhibitors of nitric oxide generation in stimulated macrophages.
2013
Nontoxic CO-releasing dirhodium complexes act as inhibitors of NO in stimulated macrophage cells, suggesting that novel antiinflammatory treatments could involve the use of these types of binuclear complexes.
Do dynamic effects play a significant role in enzymatic catalysis? A theoretical analysis of formate dehydrogenase.
2010
A theoretical study of the protein dynamic effects on the hydride transfer between the formate anion and nicotinamide adenine dinucleotide (NAD + ), catalyzed by formate dehydrogenase (FDH), is presented in this paper. The analysis of free downhill molecular dynamic trajectories, performed in the enzyme and compared with the reaction in aqueous solution, has allowed the study of the dynamic coupling between the reacting fragments and the protein or the solvent water molecules, as well as an estimation of the dynamic effect contribution to the catalytic effect from calculation of the transmission coefficient in the enzyme and in solution. The obtained transmission coefficients for the enzyme…
Rotational Isomerism in Acetic Acid: The First Experimental Observation of the High-Energy Conformer
2003
The high-energy conformer of acetic acid (cis-AA) is produced in an Ar matrix by vibrational excitation of the OH stretching overtone of the ground conformational state (trans-AA). IR-absorption spectroscopy provides a clear identification of the reaction product. cis-AA converts back to trans-AA in a time scale of minutes at 8 K by tunneling. http://dx.doi.org/10.1021/ja038341a