MWASTools: an R/bioconductor package for metabolome-wide association studies

SUMMARY: MWASTools is an R package designed to provide an integrated pipeline to analyse metabonomic data in large-scale epidemiological studies. Key functionalities of our package include: quality control analysis; metabolome-wide association analysis using various models (partial correlations, gen...

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Autores principales: Rodriguez-Martinez, Andrea, Posma, Joram M, Ayala, Rafael, Neves, Ana L, Anwar, Maryam, Petretto, Enrico, Emanueli, Costanza, Gauguier, Dominique, Nicholson, Jeremy K, Dumas, Marc-Emmanuel
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2018
Materias:
Applications Notes
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6049002/
https://www.ncbi.nlm.nih.gov/pubmed/28961702
http://dx.doi.org/10.1093/bioinformatics/btx477
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author Rodriguez-Martinez, Andrea
Posma, Joram M
Ayala, Rafael
Neves, Ana L
Anwar, Maryam
Petretto, Enrico
Emanueli, Costanza
Gauguier, Dominique
Nicholson, Jeremy K
Dumas, Marc-Emmanuel
author_facet Rodriguez-Martinez, Andrea
Posma, Joram M
Ayala, Rafael
Neves, Ana L
Anwar, Maryam
Petretto, Enrico
Emanueli, Costanza
Gauguier, Dominique
Nicholson, Jeremy K
Dumas, Marc-Emmanuel
author_sort Rodriguez-Martinez, Andrea
collection PubMed
description SUMMARY: MWASTools is an R package designed to provide an integrated pipeline to analyse metabonomic data in large-scale epidemiological studies. Key functionalities of our package include: quality control analysis; metabolome-wide association analysis using various models (partial correlations, generalized linear models); visualization of statistical outcomes; metabolite assignment using statistical total correlation spectroscopy (STOCSY); and biological interpretation of metabolome-wide association studies results. AVAILABILITY AND IMPLEMENTATION: The MWASTools R package is implemented in R (version  > =3.4) and is available from Bioconductor: https://bioconductor.org/packages/MWASTools/. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.
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spelling pubmed-60490022018-07-20 MWASTools: an R/bioconductor package for metabolome-wide association studies Rodriguez-Martinez, Andrea Posma, Joram M Ayala, Rafael Neves, Ana L Anwar, Maryam Petretto, Enrico Emanueli, Costanza Gauguier, Dominique Nicholson, Jeremy K Dumas, Marc-Emmanuel Bioinformatics Applications Notes SUMMARY: MWASTools is an R package designed to provide an integrated pipeline to analyse metabonomic data in large-scale epidemiological studies. Key functionalities of our package include: quality control analysis; metabolome-wide association analysis using various models (partial correlations, generalized linear models); visualization of statistical outcomes; metabolite assignment using statistical total correlation spectroscopy (STOCSY); and biological interpretation of metabolome-wide association studies results. AVAILABILITY AND IMPLEMENTATION: The MWASTools R package is implemented in R (version  > =3.4) and is available from Bioconductor: https://bioconductor.org/packages/MWASTools/. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online. Oxford University Press 2018-03-01 2017-07-26 /pmc/articles/PMC6049002/ /pubmed/28961702 http://dx.doi.org/10.1093/bioinformatics/btx477 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
Rodriguez-Martinez, Andrea
Posma, Joram M
Ayala, Rafael
Neves, Ana L
Anwar, Maryam
Petretto, Enrico
Emanueli, Costanza
Gauguier, Dominique
Nicholson, Jeremy K
Dumas, Marc-Emmanuel
MWASTools: an R/bioconductor package for metabolome-wide association studies
title MWASTools: an R/bioconductor package for metabolome-wide association studies
title_full MWASTools: an R/bioconductor package for metabolome-wide association studies
title_fullStr MWASTools: an R/bioconductor package for metabolome-wide association studies
title_full_unstemmed MWASTools: an R/bioconductor package for metabolome-wide association studies
title_short MWASTools: an R/bioconductor package for metabolome-wide association studies
title_sort mwastools: an r/bioconductor package for metabolome-wide association studies
topic Applications Notes
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6049002/
https://www.ncbi.nlm.nih.gov/pubmed/28961702
http://dx.doi.org/10.1093/bioinformatics/btx477
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