Dataset Information

BiNChE: a web tool and library for chemical enrichment analysis based on the ChEBI ontology.

ABSTRACT: BACKGROUND:Ontology-based enrichment analysis aids in the interpretation and understanding of large-scale biological data. Ontologies are hierarchies of biologically relevant groupings. Using ontology annotations, which link ontology classes to biological entities, enrichment analysis methods assess whether there is a significant over or under representation of entities for ontology classes. While many tools exist that run enrichment analysis for protein sets annotated with the Gene Ontology, there are only a few that can be used for small molecules enrichment analysis. RESULTS:We describe BiNChE, an enrichment analysis tool for small molecules based on the ChEBI Ontology. BiNChE displays an interactive graph that can be exported as a high-resolution image or in network formats. The tool provides plain, weighted and fragment analysis based on either the ChEBI Role Ontology or the ChEBI Structural Ontology. CONCLUSIONS:BiNChE aids in the exploration of large sets of small molecules produced within Metabolomics or other Systems Biology research contexts. The open-source tool provides easy and highly interactive web access to enrichment analysis with the ChEBI ontology tool and is additionally available as a standalone library.

SUBMITTER: Moreno P

PROVIDER: S-EPMC4349482 | biostudies-literature | 2015 Feb

REPOSITORIES: biostudies-literature

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BiNChE: a web tool and library for chemical enrichment analysis based on the ChEBI ontology.

Moreno Pablo P Beisken Stephan S Harsha Bhavana B Muthukrishnan Venkatesh V Tudose Ilinca I Dekker Adriano A Dornfeldt Stefanie S Taruttis Franziska F Grosse Ivo I Hastings Janna J Neumann Steffen S Steinbeck Christoph C

BMC bioinformatics 20150221

<h4>Background</h4>Ontology-based enrichment analysis aids in the interpretation and understanding of large-scale biological data. Ontologies are hierarchies of biologically relevant groupings. Using ontology annotations, which link ontology classes to biological entities, enrichment analysis methods assess whether there is a significant over or under representation of entities for ontology classes. While many tools exist that run enrichment analysis for protein sets annotated with the Gene Onto ...[more]

PMID: 25879798

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Dataset Information

BiNChE: a web tool and library for chemical enrichment analysis based on the ChEBI ontology.

Publications

BiNChE: a web tool and library for chemical enrichment analysis based on the ChEBI ontology.

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