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EMPress Enables Tree-Guided, Interactive, and Exploratory Analyses of Multi-omic Data Sets.

Kalen Cantrell^1,2, Marcus W Fedarko^1,2, Gibraan Rahman^3,4

¹Department of Computer Science, Jacobs School of Engineering, University of California, San Diego, California, USA.

|March 17, 2021

Summary

EMPress is a new web tool for visualizing large phylogenetic trees alongside microbiome and metabolome data. It simplifies complex data exploration with features like ordination integration and animations.

Keywords:

bioinformatics microbial ecology

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Area of Science:

Bioinformatics
Computational Biology
Microbiome Research

Background:

Phylogenetic trees are crucial for microbiome analysis.
Visualizing large-scale microbiome and multi-omic data presents challenges.
Existing tools struggle with the scale of modern microbiome surveys.

Purpose of the Study:

To introduce EMPress, an interactive web tool for visualizing large phylogenetic trees.
To facilitate the integration of microbiome, metabolome, and other community data with phylogenetic trees.
To address the need for scalable and versatile exploratory analysis tools in multi-omic research.

Main Methods:

Development of EMPress, a web-based interactive visualization tool.
Implementation of novel features such as ordination integration and animations.
Testing EMPress with five diverse datasets, including trees with over 500,000 nodes.

Main Results:

EMPress successfully visualizes large phylogenetic trees (over 500,000 nodes).
The tool integrates phylogenetic data with microbiome, metabolome, and other omic datasets.
EMPress demonstrates versatility and scalability across diverse biological datasets.

Conclusions:

EMPress simplifies exploratory analysis of complex, large-scale omic data.
The tool enhances the visualization and interpretation of microbiome and related community data.
EMPress provides a scalable solution for modern multi-omic data visualization challenges.