---
title: "ASICSdata: 1D NMR spectra for ASICS"
author: "Gaëlle Lefort, Rémi Servien and Nathalie Villa-Vialaneix"
date: "`r Sys.Date()`"
output:
  BiocStyle::html_document:
    toc: FALSE
vignette: |
  %\VignetteIndexEntry{ASICSdata}
  %\VignetteEncoding{UTF-8}
  %\VignetteEngine{knitr::rmarkdown}
---

# Overview of the `ASICSdata` package

The `ASICSdata` package contains an example of 1D NMR spectra for use with the
`ASICS` package. 

It includes a subset of the public dataset from Salek *et al.* (2007). The 
experiment has been designed to improve the understanding of early stage of 
type 2 diabetes mellitus (T2DM) development. The current dataset consists of 
$^1$H-NMR human metabolome obtained from 25 healthy volunteers and 25 T2DM 
patients. Raw 1D Bruker spectral data files were found in the MetaboLights 
database (https://www.ebi.ac.uk/metabolights/, study MTBLS1). 


# References

Salek R.M., Maguire M.L., Bentley E., Rubtsov D.V., Hough T., Cheeseman M., 
Nunez D., Sweatman B.C., Haselden J.N., Cox R.D., Connor S.C., Griffin J.L. 
(2007). A metabolomic comparison of urinary changes in type 2 diabetes in mouse,
rat, and human. *Physiological genomics*, **29**(2), 99-108. DOI:
10.1152/physiolgenomics.00194.2006

Tardivel P., Canlet C., Lefort G., Tremblay-Franco M., Debrauwer L., Concordet 
D., Servien R. (2017). ASICS: an automatic method for identification and 
quantification of metabolites in complex 1D 1H NMR spectra. *Metabolomics*,
**13**(10), 109. DOI: 10.1007/s11306-017-1244-5