LION/web

Lipid Ontology enrichment analysis

Description

LION/web is a freely available online enrichment analysis tool specifically designed to assess lipidomics data. It's underlying ontology, LION (Lipid Ontology), links over 50,000 lipid species to the LIPIDMAPS classification system, as well as to chemical, biophysical, and cell biological properties. Enrichment of LION terms can be calculated by either comparing subsets of lipids to background lipidomes (e.g., to assess LION-term enrichment of significantly altered lipids) or by evaluating the distribution of LION-terms over a ranked list of lipids (e.g., to compare condition A to B). The tool supports various lipid nomenclature dialects to ease data input. Recently, a new module, LION-PCA heatmap, was added to the web-tool. This module generates a heatmap of the most fluctuating LION-terms for all the samples in a given dataset, thereby providing a comprehensive overview of the dataset in just a few mouse-clicks.

Technical Information

License:

GPL (Academic)

GUI:

Yes

CLI:

Desktop client:

Web platform:

Yes

Input formats:

CSV,

Text

Output formats:

SVG,

PNG,

CSV

Platforms:

MacOS,

Linux,

Windows

Programming languages:

Shiny(R),

Source code repository:

Yes

Download / Web-service link:

Yes

Documentation and user guide:

Yes

Training datasets:

Yes

Publications:

PMID:31141612

Tasks

7.2) Lipid ontology enrichment analysis

Input style:

LIPID MAPS common names

Ontology terms:

Predominant subcellular localization (organelle enrichment),

Physical and chemical (chemical description, intrinsic curvature, head group charge, chain-melting transition temperature),

Classification (category – class – subclass, based on LIPID MAPS classification),

Function (lipid component, lipid-mediated signalling, lipid storage); see,

http://bioportal.bioontology.org/ontologies/LION

Analysis:

Heatmap (performs PCA and enrichment over PCA loadings followed by heatmap plotting; provided reduction from lipid species to ontology terms).,

Enrichment analysis by target-list or ranking

Other features:

All data can be downloaded as open-source formats.,

Results are presented as graphs, network visualizations and tables,

Assessment of specific LION-terms can be selected before analysis