"Ractopamine Pig" history (W4M00005)

Workflow4Metabolomics Object Identifier: W4M00005

Digital Object Identifier: 10.15454/1.4811287270056958E12

Creator of the history: Yann Guitton

Maintainer: Yann Guitton (yann.guitton at oniris-nantes.fr)

Creation|Updating date: 2016-12-01

Format: Workflow4Metabolomics Galaxy histories

W4M History: https://galaxy.workflow4metabolomics.org/history/list_published

Size:  327 Mo

Keywords: susscrofa, ractopamine, lcms, preprocessing, batch correction, OPLS-DA

Description:

Study: Characterization of the serum physiological variations induced by ractopamine administration in pigs. @w4m

Dataset: The dataset contains 164 mzXML files created from Q-Exactive (*.raw) files. 124 samples and 40 QCs injected in 4 batches. Design: 2 Classes (Treated, Controls) from serum collected at day 3, 9, 16, 18, 23, 29 with for each sample 2 extraction procedure (M and MW):

  • QCs: 40 files, pool of every samples extracts M + MW
  • Controls: Extraction M (31 files) and Extraction MW (33 files)
  • Treated: Extraction M (27 files) and Extraction MW (33 files)

Workflow: The workflow consists of the following steps: preprocessing with XCMS and CAMERA, batch correction (loess), quality controls filters (RT and QCs CV<0.30) and multivariate statistics.

Comments: Please note that, the original publication of the study by Tao PENG et al was made with R and SIMCA and that the presented workflow reproduces the same workflow in W4M Galaxy environment.

 Rights:  Creative Commons

Citations:

  • Tao PENG, Anne-Lise ROYER, Yann GUITTON, Bruno LE BIZEC, Gaud DERVILLY-PINEL (2017) Serum-based metabolomics characterization of pigs treated with ractopamine.
    Metabolomics Under Review

Raw data repository

 

 Please find more referenced W4M histories here.