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IonFlow: a galaxy tool for the analysis of ionomics data sets.

Published version
Peer-reviewed

Type

Article

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Authors

Lin, W 
Griffin, JL 
Glen, RC 

Abstract

INTRODUCTION: Inductively coupled plasma mass spectrometry (ICP-MS) experiments generate complex multi-dimensional data sets that require specialist data analysis tools. OBJECTIVE: Here we describe tools to facilitate analysis of the ionome composed of high-throughput elemental profiling data. METHODS: IonFlow is a Galaxy tool written in R for ionomics data analysis and is freely accessible at https://github.com/wanchanglin/ionflow . It is designed as a pipeline that can process raw data to enable exploration and interpretation using multivariate statistical techniques and network-based algorithms, including principal components analysis, hierarchical clustering, relevance network extraction and analysis, and gene set enrichment analysis. RESULTS AND CONCLUSION: The pipeline is described and tested on two benchmark data sets of the haploid S. Cerevisiae ionome and of the human HeLa cell ionome.

Description

Keywords

Galaxy platform, Ionomics, Network biology, Cluster Analysis, HeLa Cells, Humans, Principal Component Analysis, Saccharomyces cerevisiae

Journal Title

Metabolomics

Conference Name

Journal ISSN

1573-3882
1573-3890

Volume Title

17

Publisher

Springer Science and Business Media LLC
Sponsorship
Medical Research Council (MR/P011705/1)
Wellcome Trust (202952/D/16/Z)