GAIT-GM

'GAIT-GM' introduces a set of Galaxy tools for integrative analysis of gene expression and metabolomics data, addressing a gap in multi-omics tools within the Galaxy platform. The Annotation Tool utilizes a text mining approach to map features to KEGG pathways, expanding the number of mapped metabolites. It maximizes gene ID mapping across species by leveraging interconnected databases. The Integration Tool models changes in metabolite levels as a function of gene expression, facilitating unbiased exploration of gene-metabolite relationships and enabling biologically informed models based on pathway data.

Topic

Metabolomics;Small molecules;Gene expression;Molecular interactions, pathways and networks;Workflows

Detail

  • Operation: Expression profile pathway mapping;Expression correlation analysis;Text mining

  • Software interface: Command-line user interface,Workflow,Web application

  • Language: Python,R

  • License: The MIT License

  • Cost: Free

  • Version name: 21.6.10

  • Credit: National Institutes of Health SECIM grant.

  • Input: -

  • Output: -

  • Contact: Lauren M. McIntyre aconesa@ufl.edu ,Ana Conesa mcintyre@ufl.edu

  • Collection: -

  • Maturity: Stable

Publications

  • GAIT-GM: Galaxy tools for modeling metabolite changes as a function of gene expression
  • McIntyre, L.; Huertas-Lopez, F. V.; Moskalenko, O.; Morse, A.; Conesa, A. GAIT-GM: Galaxy tools for modeling metabolite changes as a function of gene expression. bioRxiv 2020. doi: 10.1101/2020.12.25.424407
  • https://doi.org/10.1101/2020.12.25.424407
  • PMID: -
  • PMC: -

Download and documentation

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