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Related Experiment Video

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Biology of Microbial Communities - Interview
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BioSankey: Visualization of Microbial Communities Over Time.

Alexander Platzer1, Julia Polzin2, Klaus Rembart3

  • 1University Clinic for Internal Medicine III, Medical University of Vienna, Vienna, Austria.

Journal of Integrative Bioinformatics
|June 14, 2018
PubMed
Summary
This summary is machine-generated.

BioSankey visualizes microbial species dynamics over time using Sankey diagrams. This JavaScript-based tool offers interactive exploration of metagenomics data without needing a server, facilitating collaboration.

Keywords:
gene expressionhtmlmicrobiomesankeyvisualization

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Area of Science:

  • Microbiology
  • Bioinformatics
  • Data Visualization

Background:

  • Metagenomics generates quantitative microbial data over time.
  • Effective visualization is crucial for understanding complex microbiome datasets.
  • Existing tools may lack interactivity or require extensive infrastructure.

Purpose of the Study:

  • To develop an intuitive visualization tool for temporal microbiome data.
  • To enable interactive exploration of microbial species abundance changes.
  • To facilitate data sharing among researchers.

Main Methods:

  • Developed BioSankey, a tool generating Sankey diagrams for microbiome studies.
  • Implemented visualization using JavaScript and Google API for web embedding.
  • Designed for standalone use without web servers or database connections.
  • Adapted for single or dual RNA-sequencing datasets.

Main Results:

  • BioSankey effectively visualizes microbial species dynamics over time.
  • The tool allows interactive searching and exploration of species data.
  • Web-based deployment enables easy sharing and accessibility.
  • Demonstrated utility for analyzing single and dual RNA-seq data.

Conclusions:

  • BioSankey provides an accessible and interactive method for microbiome data visualization.
  • The tool enhances the exploration of temporal microbial community structures.
  • Facilitates collaboration and data exchange in microbiome research.