Literature DB >> 25491202

Assessment of uncertainty in chemical models by Bayesian probabilities: Why, when, how?

Ullrika Sahlin1.   

Abstract

A prediction of a chemical property or activity is subject to uncertainty. Which type of uncertainties to consider, whether to account for them in a differentiated manner and with which methods, depends on the practical context. In chemical modelling, general guidance of the assessment of uncertainty is hindered by the high variety in underlying modelling algorithms, high-dimensionality problems, the acknowledgement of both qualitative and quantitative dimensions of uncertainty, and the fact that statistics offers alternative principles for uncertainty quantification. Here, a view of the assessment of uncertainty in predictions is presented with the aim to overcome these issues. The assessment sets out to quantify uncertainty representing error in predictions and is based on probability modelling of errors where uncertainty is measured by Bayesian probabilities. Even though well motivated, the choice to use Bayesian probabilities is a challenge to statistics and chemical modelling. Fully Bayesian modelling, Bayesian meta-modelling and bootstrapping are discussed as possible approaches. Deciding how to assess uncertainty is an active choice, and should not be constrained by traditions or lack of validated and reliable ways of doing it.

Mesh:

Year:  2014        PMID: 25491202     DOI: 10.1007/s10822-014-9822-3

Source DB:  PubMed          Journal:  J Comput Aided Mol Des        ISSN: 0920-654X            Impact factor:   3.686


  12 in total

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6.  Arguments for considering uncertainty in QSAR predictions in hazard and risk assessments.

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7.  Confidence limits, error bars and method comparison in molecular modeling. Part 1: the calculation of confidence intervals.

Authors:  A Nicholls
Journal:  J Comput Aided Mol Des       Date:  2014-06-05       Impact factor: 3.686

8.  QSAR with experimental and predictive distributions: an information theoretic approach for assessing model quality.

Authors:  David J Wood; Lars Carlsson; Martin Eklund; Ulf Norinder; Jonna Stålring
Journal:  J Comput Aided Mol Des       Date:  2013-03-16       Impact factor: 3.686

9.  Critical assessment of QSAR models of environmental toxicity against Tetrahymena pyriformis: focusing on applicability domain and overfitting by variable selection.

Authors:  Igor V Tetko; Iurii Sushko; Anil Kumar Pandey; Hao Zhu; Alexander Tropsha; Ester Papa; Tomas Oberg; Roberto Todeschini; Denis Fourches; Alexandre Varnek
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10.  Using beta binomials to estimate classification uncertainty for ensemble models.

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  1 in total

1.  Statistics in molecular modeling: a summary.

Authors:  Anthony Nicholls
Journal:  J Comput Aided Mol Des       Date:  2016-03-21       Impact factor: 3.686

  1 in total

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