Section 7.2 (lipid ontology enrichment analysis)

Back
capture_7.2 LipidSig 2.0 Skyline ChEBI LION/web Lipid Mini-On
Input style CSV, TSV, XLSX Reads Agilent, Bruker, Sciex, Shimadzu, Thermo, Waters, mzXML, mzML, mz5. Imports most search tool outputs. SDF Text, CSV CSV, TXT
Ontology terms Category, Class, Subclass — Classification (category – class – subclass, based on ChEBI ontology which is divided into 3 sub-ontologies), Molecular structure (entities classified according to their structure), Role (entities classified on the basis of their role within a biological context), Subatomic particle (entities classified as particles that are smaller than atoms), ontology (https://ftp.ebi.ac.uk/pub/databases/chebi/ontology/) Classification (category – class – subclass, based on LIPID MAPS classification), physical and chemical (chemical description, intrinsic curvature, head group charge, chain-melting transition temperature), predominant subcellular localization (organelle enrichment), function (lipid component, lipid-mediated signalling, lipid storage); http://bioportal.bioontology.org/ontologies/LION Classification (category – class – subclass, based on LIPID MAPS classification), fatty acid chain, fatty acid length, fatty acid saturation
Analysis Over-representation analysis, Lipid Set Enrichment Analysis — By a web-based enrichment analysis tool, BiNChE (https://www.ebi.ac.uk/chebi/tools/binche) which offers plain, weighted and fragment Enrichment analysis by target-list or ranking, heatmap (performs PCA and enrichment over PCA loadings followed by heatmap plotting; provided reduction from lipid species to ontology terms). Enrichment analysis
Input format CSV, TSV, XLSX Reads Agilent, Bruker, Sciex, Shimadzu, Thermo, Waters, mzXML, mzML, mz5. Imports most search tool outputs. SDF Text, CSV CSV, TXT