Abstract
Metabolic pathways are an important part of systems biology research since they illustrate complex interactions between metabolites, enzymes, and regulators. Pathway maps are drawn to elucidate metabolism or to set data in a metabolic context. We present MetaboMAPS, a web-based platform to visualize numerical data on individual metabolic pathway maps. Metabolic maps can be stored, distributed and downloaded in SVG-format. MetaboMAPS was designed for users without computational background and supports pathway sharing without strict conventions. In addition to existing applications that established standards for well-studied pathways, MetaboMAPS offers a niche for individual, customized pathways beyond common knowledge, supporting ongoing research by creating publication-ready visualizations of experimental data.
Highlights
Metabolic pathways are an important part of systems biology research since they illustrate complex interactions between metabolites, enzymes, and regulators
Any further responses from the reviewers can be found at the end of the article Introduction The field of systems biology is based on the integration of data from different biological fields, e.g. transcriptomics, proteomics, metabolomics, modelling, to gain a detailed understanding of an organism
The overall display of pathway maps, as provided by e.g. KEGG and BRENDA, have their limitations: while pathways are widely available and immense useful for model organisms, the maps cannot provide organism- or group-specific modifications for pathways that are exclusive for small groups of organisms or are currently incompletely understood
Summary
Metabolic pathways are an important part of systems biology research since they illustrate complex interactions between metabolites, enzymes, and regulators. We present MetaboMAPS, a web-based platform to visualize numerical data on individual metabolic pathway maps. Any further responses from the reviewers can be found at the end of the article Introduction The field of systems biology is based on the integration of data from different biological fields, e.g. transcriptomics, proteomics, metabolomics, modelling, to gain a detailed understanding of an organism. For visualization of multi-omics data, a specific map is required both, regarding the organism and the underlying scientific question. We present MetaboMAPS (Koblitz, 2020), a novel web-based tool that on one hand, serves as a platform to share metabolic pathway maps in an organism-dependent manner. MetaboMAPS assists during interpretation of metabolism-associated data by visualizing experimental data sets on pathway maps
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