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PEITH(Θ): perfecting experiments with information theory in Python with GPU support

MOTIVATION: Different experiments provide differing levels of information about a biological system. This makes it difficult, a priori, to select one of them beyond mere speculation and/or belief, especially when resources are limited. With the increasing diversity of experimental approaches and gen...

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Detalles Bibliográficos
Autores principales: Dony, Leander, Mackerodt, Jonas, Ward, Scott, Filippi, Sarah, Stumpf, Michael P H, Liepe, Juliane
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2018
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5998942/
https://www.ncbi.nlm.nih.gov/pubmed/29228182
http://dx.doi.org/10.1093/bioinformatics/btx776
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author Dony, Leander
Mackerodt, Jonas
Ward, Scott
Filippi, Sarah
Stumpf, Michael P H
Liepe, Juliane
author_facet Dony, Leander
Mackerodt, Jonas
Ward, Scott
Filippi, Sarah
Stumpf, Michael P H
Liepe, Juliane
author_sort Dony, Leander
collection PubMed
description MOTIVATION: Different experiments provide differing levels of information about a biological system. This makes it difficult, a priori, to select one of them beyond mere speculation and/or belief, especially when resources are limited. With the increasing diversity of experimental approaches and general advances in quantitative systems biology, methods that inform us about the information content that a given experiment carries about the question we want to answer, become crucial. RESULTS: PEITH(Θ) is a general purpose, Python framework for experimental design in systems biology. PEITH(Θ) uses Bayesian inference and information theory in order to derive which experiments are most informative in order to estimate all model parameters and/or perform model predictions. AVAILABILITY AND IMPLEMENTATION: https://github.com/MichaelPHStumpf/Peitho
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spelling pubmed-59989422018-06-18 PEITH(Θ): perfecting experiments with information theory in Python with GPU support Dony, Leander Mackerodt, Jonas Ward, Scott Filippi, Sarah Stumpf, Michael P H Liepe, Juliane Bioinformatics Applications Notes MOTIVATION: Different experiments provide differing levels of information about a biological system. This makes it difficult, a priori, to select one of them beyond mere speculation and/or belief, especially when resources are limited. With the increasing diversity of experimental approaches and general advances in quantitative systems biology, methods that inform us about the information content that a given experiment carries about the question we want to answer, become crucial. RESULTS: PEITH(Θ) is a general purpose, Python framework for experimental design in systems biology. PEITH(Θ) uses Bayesian inference and information theory in order to derive which experiments are most informative in order to estimate all model parameters and/or perform model predictions. AVAILABILITY AND IMPLEMENTATION: https://github.com/MichaelPHStumpf/Peitho Oxford University Press 2018-04-01 2017-12-07 /pmc/articles/PMC5998942/ /pubmed/29228182 http://dx.doi.org/10.1093/bioinformatics/btx776 Text en © The Author 2017. Published by Oxford University Press. http://creativecommons.org/licenses/by/4.0/ This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Applications Notes
Dony, Leander
Mackerodt, Jonas
Ward, Scott
Filippi, Sarah
Stumpf, Michael P H
Liepe, Juliane
PEITH(Θ): perfecting experiments with information theory in Python with GPU support
title PEITH(Θ): perfecting experiments with information theory in Python with GPU support
title_full PEITH(Θ): perfecting experiments with information theory in Python with GPU support
title_fullStr PEITH(Θ): perfecting experiments with information theory in Python with GPU support
title_full_unstemmed PEITH(Θ): perfecting experiments with information theory in Python with GPU support
title_short PEITH(Θ): perfecting experiments with information theory in Python with GPU support
title_sort peith(θ): perfecting experiments with information theory in python with gpu support
topic Applications Notes
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5998942/
https://www.ncbi.nlm.nih.gov/pubmed/29228182
http://dx.doi.org/10.1093/bioinformatics/btx776
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