Leveraging AI to automate detection and quantification of extrachromosomal DNA to decode drug responses.

Journal: Frontiers in pharmacology
Published Date: Feb 3, 2025

Abstract

INTRODUCTION: Traditional drug discovery efforts primarily target rapid, reversible protein-mediated adaptations to counteract cancer cell resistance. However, cancer cells also utilize DNA-based strategies, often perceived as slow, irreversible changes like point mutations or drug-resistant clone selection. Extrachromosomal DNA (ecDNA), in contrast, represents a rapid, reversible, and predictable DNA alteration critical for cancer's adaptive response.

Authors

  • Kohen Goble
    Department of Chemistry, University of North Carolina at Chapel Hill, Chapel Hill, NC, United States.
  • Aarav Mehta
    Department of Computer Science, University of North Carolina at Chapel Hill, Chapel Hill, NC, United States.
  • Damien Guilbaud
    Integrative Program for Biological and Genome Sciences (IBGS), University of North Carolina at Chapel Hill, Chapel Hill, NC, United States.
  • Jacob Fessler
    Department of Computer Science, University of North Carolina at Chapel Hill, Chapel Hill, NC, United States.
  • Jingting Chen
    Department of Biochemistry and Biophysics, University of North Carolina at Chapel Hill, Chapel Hill, NC, United States.
  • William Nenad
    Computational Medicine Program, University of North Carolina at Chapel Hill, Chapel Hill, NC, United States.
  • Christina G Ford
    Integrative Program for Biological and Genome Sciences (IBGS), University of North Carolina at Chapel Hill, Chapel Hill, NC, United States.
  • Oliver Cope
    Integrative Program for Biological and Genome Sciences (IBGS), University of North Carolina at Chapel Hill, Chapel Hill, NC, United States.
  • Darby Cheng
    Department of Chemistry, University of North Carolina at Chapel Hill, Chapel Hill, NC, United States.
  • William Dennis
    Integrative Program for Biological and Genome Sciences (IBGS), University of North Carolina at Chapel Hill, Chapel Hill, NC, United States.
  • Nithya Gurumurthy
    Integrative Program for Biological and Genome Sciences (IBGS), University of North Carolina at Chapel Hill, Chapel Hill, NC, United States.
  • Yue Wang
    Department of Pharmacology, University of North Carolina at Chapel Hill, Chapel Hill, NC, United States.
  • Kriti Shukla
    Department of Chemistry, University of North Carolina at Chapel Hill, Chapel Hill, NC, United States.
  • Elizabeth Brunk
    Department of Chemistry, University of North Carolina at Chapel Hill, Chapel Hill, NC, United States.

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