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Visualizing tumor evolution with the fishplot package for R.

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  • 1McDonnell Genome Institute, Washington University School of Medicine, St. Louis, MO, 63108, USA. c.a.miller@wustl.edu.

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Summary
This summary is machine-generated.

This study introduces an R package, fishplot, to visualize tumor evolution and clonal heterogeneity over time. This tool simplifies complex data, aiding in understanding therapeutic responses and resistance for research and clinical applications.

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Area of Science:

  • Genomics
  • Computational Biology
  • Cancer Research

Background:

  • Massively-parallel sequencing enables detailed characterization of tumor heterogeneity and evolution.
  • Tracking clonal architecture changes offers insights into therapeutic response and resistance.
  • Standard visualizations for complex, multi-timepoint data are often difficult to interpret and labor-intensive.

Purpose of the Study:

  • To develop an R package for accurate and intuitive visualization of clonal structure changes over time.
  • To provide a tool that simplifies the interpretation of complex tumor evolution data.
  • To facilitate diagnosis, presentation, and publication of tumor evolution findings.

Main Methods:

  • Development of an R package named 'fishplot'.
  • The package requires simple input data for analysis.
  • Generates illustrative and easy-to-interpret graphs.

Main Results:

  • The 'fishplot' R package accurately displays changes in clonal structure over time.
  • The generated graphs are intuitive and suitable for various scientific communication needs.
  • The tool simplifies the visualization of subclonal fractions and tumor evolution.

Conclusions:

  • The 'fishplot' package offers a simple, powerful, and flexible solution for visualizing tumor evolution.
  • It has potential utility in both research and clinical settings.
  • The package is publicly available for use and further development.