Machine learning enables detection of early-stage colorectal cancer by whole-genome sequencing of plasma cell-free DNA.

Journal: BMC cancer
Published Date: Aug 23, 2019

Abstract

BACKGROUND: Blood-based methods using cell-free DNA (cfDNA) are under development as an alternative to existing screening tests. However, early-stage detection of cancer using tumor-derived cfDNA has proven challenging because of the small proportion of cfDNA derived from tumor tissue in early-stage disease. A machine learning approach to discover signatures in cfDNA, potentially reflective of both tumor and non-tumor contributions, may represent a promising direction for the early detection of cancer.

Authors

  • Nathan Wan
    Freenome, South San Francisco, CA, USA.
  • David Weinberg
    Freenome, South San Francisco, CA, USA.
  • Tzu-Yu Liu
    Freenome, South San Francisco, CA, USA.
  • Katherine Niehaus
    Freenome, South San Francisco, CA, USA.
  • Eric A Ariazi
    Freenome, South San Francisco, CA, USA.
  • Daniel Delubac
    Freenome, South San Francisco, CA, USA.
  • Ajay Kannan
    Freenome, South San Francisco, CA, USA.
  • Brandon White
    Freenome, South San Francisco, CA, USA.
  • Mitch Bailey
    Freenome, South San Francisco, CA, USA.
  • Marvin Bertin
    Freenome, South San Francisco, CA, USA.
  • Nathan Boley
    Freenome, South San Francisco, CA, USA.
  • Derek Bowen
    Freenome, South San Francisco, CA, USA.
  • James Cregg
    Freenome, South San Francisco, CA, USA.
  • Adam M Drake
    Freenome, South San Francisco, CA, USA.
  • Riley Ennis
    Freenome, South San Francisco, CA, USA.
  • Signe Fransen
    Freenome, South San Francisco, CA, USA.
  • Erik Gafni
    Freenome, South San Francisco, CA, USA.
  • Loren Hansen
    Freenome, South San Francisco, CA, USA.
  • Yaping Liu
    Freenome, South San Francisco, CA, USA.
  • Gabriel L Otte
    Freenome, South San Francisco, CA, USA.
  • Jennifer Pecson
    Freenome, South San Francisco, CA, USA.
  • Brandon Rice
    Freenome, South San Francisco, CA, USA.
  • Gabriel E Sanderson
    The Genome Institute, Washington University in St. Louis, St. Louis, Missouri, United States of America.
  • Aarushi Sharma
    Freenome, South San Francisco, CA, USA.
  • John St John
    Freenome, South San Francisco, CA, USA.
  • Catherina Tang
    Freenome, South San Francisco, CA, USA.
  • Abraham Tzou
    Freenome, South San Francisco, CA, USA.
  • Leilani Young
    Freenome, South San Francisco, CA, USA.
  • Girish Putcha
    Freenome, South San Francisco, CA, USA. authors@freenome.com.
  • Imran S Haque
    Freenome, South San Francisco, CA, USA.

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