Childhood Cancer Data Initiative Annual Symposium (Abstract Registration): Submission #43

Submission information
Submission Number: 43
Submission ID: 148488
Submission UUID: a07e4075-9365-4cfa-b90f-ef250f286557

Created: Fri, 08/08/2025 - 15:52
Completed: Fri, 08/08/2025 - 16:03
Changed: Fri, 08/08/2025 - 16:03

Remote IP address: 10.208.24.35
Submitted by: Anonymous
Language: English

Is draft: No
Abstract Title: Extrachromosomal DNA associates with poor survival across a broad spectrum of childhood solid tumors
Abstract: Circular extrachromosomal DNA (ecDNA) is a common form of oncogene amplification in aggressive cancers. The frequency and diversity of ecDNA has been catalogued in adult and some childhood cancers; however, its role in most pediatric cancers is not well-understood. To address this gap, we accessed large pediatric cancer genomics data repositories and identified ecDNA from whole genome sequencing data using cloud computing. This retrospective cohort comprises 3,631 solid tumor biopsies from 2,968 patients covering all major childhood solid tumor types. Aggressive tumor types had particularly high incidences of ecDNA. Pediatric patients whose tumors harbored extrachromosomal DNA had significantly poorer five-year overall survival than children whose tumors contained only chromosomal amplifications. We catalogue known and potentially novel oncogenes recurrently amplified on ecDNA and show that ecDNA often evolves during disease progression. These results highlight patient populations that could potentially benefit from future ecDNA-directed therapies. To facilitate discovery, we developed an interactive catalogue of ecDNA in childhood cancer at https://ccdi-ecdna.org/.
Abstract:
Authors:
  1. First Name: Owen
    Middle Initial: S
    Last Name: Chapman
    Degree(s): PhD
    Organization: Nagoya City University
  2. First Name: Sunita
    Last Name: Sridhar
    Degree(s): MD
    Organization: Rady Children's Hospital San Diego
  3. First Name: Eugene
    Last Name: Yui-Ching
    Degree(s): PhD
    Organization: SBP Medical Discovery Institute
  4. First Name: Rishaan
    Last Name: Kenkre
    Organization: SBP Medical Discovery Institute
  5. First Name: Jonathan
    Last Name: Kirkland
    Organization: UC San Diego
  6. First Name: Aditi
    Last Name: Dutta
    Organization: UC San Diego
  7. First Name: Shanqing
    Last Name: Wang
    Organization: UC San Diego
  8. First Name: Wenshu
    Last Name: Zhang
    Organization: UC San Diego
  9. First Name: Miguel
    Last Name: Brown
    Degree(s): PhD
    Organization: Children's Hospital of Philadelphia
  10. First Name: Jens
    Last Name: Luebeck
    Degree(s): PhD
    Organization: UC San Diego
  11. First Name: Yan
    Middle Initial: Yuen
    Last Name: Lo
    Organization: SBP Medical Discovery Institute
  12. First Name: Elias
    Last Name: Rodrigez-Fos
    Degree(s): PhD
    Organization: Experimental and Clinical Research Center of the Max Delbrück Center and Charite Berlin
  13. First Name: Anton
    Middle Initial: G
    Last Name: Henssen
    Degree(s): MD, PhD
    Organization: Experimental and Clinical Research Center of the Max Delbrück Center and Charite Berlin
  14. First Name: Konstantin
    Last Name: Okonechnikov
    Degree(s): PhD
    Organization: Hopp Children’s Cancer Center Heidelberg (KiTZ)
  15. First Name: David
    Middle Initial: R
    Last Name: Ghasemi
    Degree(s): MD, PhD
    Organization: Hopp Children’s Cancer Center Heidelberg (KiTZ)
  16. First Name: Kristian
    Middle Initial: W
    Last Name: Pajtler
    Degree(s): MD PhD
    Organization: Hopp Children’s Cancer Center Heidelberg (KiTZ)
  17. First Name: Daisuke
    Last Name: Kawauchi
    Degree(s): PhD
    Organization: Nagoya City University
  18. First Name: Vineet
    Last Name: Bafna
    Degree(s): PhD
    Organization: UC San Diego
  19. First Name: Megan
    Last Name: Pau;
    Degree(s): MD
    Organization: Rady Children's Hospital San Diego
  20. First Name: Kevin
    Last Name: Yip
    Degree(s): PhD
    Organization: SBP Medical Discovery Institute
  21. First Name: Jill
    Last Name: Mesirov
    Degree(s): PhD
    Organization: UC San Diego
  22. First Name: Lukas
    Last Name: Chavez
    Degree(s): PhD
    Organization: SBP Medical Discovery Institute
Presenting Author: Lukas Chavez
Institution: SBP Medical Discovery Institite
Email Address: lchavez@sbpdiscovery.org