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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...
Autores principales: | , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Oxford University Press
2018
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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 |
format | Online Article Text |
id | pubmed-5998942 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2018 |
publisher | Oxford University Press |
record_format | MEDLINE/PubMed |
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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