Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Concept Videos

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

A multi-institutional report of children with atypical teratoid rhabdoid tumor treated with intensive multimodal therapy.

Neuro-oncology practice·2026
Same author

Use of organ transplant solution to preserve skeletal muscle for cellular and spatial transcriptomic analyses.

Scientific reports·2026
Same author

Integrated transcriptomic and TCR profiling reveals local immune dysregulation of T cells in Gl aGvHD.

Bone marrow transplantation·2026
Same author

Understanding DMG: current treatment options and prospective solutions using nanoparticles.

Drug delivery and translational research·2026
Same author

Perinatal White Matter Injury: Connecting Histology, Pathophysiology and Neurodevelopmental Outcomes.

Neuropathology and applied neurobiology·2026
Same author

Metabolic and Molecular Correlates of Medulloblastoma: Identification of Molecular Groups Using In Vivo  1H-MR Spectroscopy.

Neuro-oncology·2026

Related Experiment Video

Updated: Jul 21, 2025

A Brain Tumor/Organotypic Slice Co-culture System for Studying Tumor Microenvironment and Targeted Drug Therapies
10:13

A Brain Tumor/Organotypic Slice Co-culture System for Studying Tumor Microenvironment and Targeted Drug Therapies

Published on: November 7, 2015

11.2K

OpenPBTA: The Open Pediatric Brain Tumor Atlas.

Joshua A Shapiro1, Krutika S Gaonkar2,3,4, Stephanie J Spielman1,5

  • 1Childhood Cancer Data Lab, Alex's Lemonade Stand Foundation, Bala Cynwyd, PA 19004, USA.

Cell Genomics
|July 26, 2023
PubMed
Summary

Pediatric brain tumors are a leading cause of childhood cancer deaths. OpenPBTA

Keywords:
brain tumorsclassificationopen sciencepediatric cancerreproducibilitysomatic variationtumor atlas

More Related Videos

Creating Anatomically Accurate and Reproducible Intracranial Xenografts of Human Brain Tumors
11:14

Creating Anatomically Accurate and Reproducible Intracranial Xenografts of Human Brain Tumors

Published on: September 24, 2014

15.8K
Patient-Specific Polyvinyl Alcohol Phantom Fabrication with Ultrasound and X-Ray Contrast for Brain Tumor Surgery Planning
08:41

Patient-Specific Polyvinyl Alcohol Phantom Fabrication with Ultrasound and X-Ray Contrast for Brain Tumor Surgery Planning

Published on: July 14, 2020

8.5K

Related Experiment Videos

Last Updated: Jul 21, 2025

A Brain Tumor/Organotypic Slice Co-culture System for Studying Tumor Microenvironment and Targeted Drug Therapies
10:13

A Brain Tumor/Organotypic Slice Co-culture System for Studying Tumor Microenvironment and Targeted Drug Therapies

Published on: November 7, 2015

11.2K
Creating Anatomically Accurate and Reproducible Intracranial Xenografts of Human Brain Tumors
11:14

Creating Anatomically Accurate and Reproducible Intracranial Xenografts of Human Brain Tumors

Published on: September 24, 2014

15.8K
Patient-Specific Polyvinyl Alcohol Phantom Fabrication with Ultrasound and X-Ray Contrast for Brain Tumor Surgery Planning
08:41

Patient-Specific Polyvinyl Alcohol Phantom Fabrication with Ultrasound and X-Ray Contrast for Brain Tumor Surgery Planning

Published on: July 14, 2020

8.5K

Area of Science:

  • Oncology
  • Genomics
  • Bioinformatics

Background:

  • Pediatric brain and spinal cancers represent the primary disease-related cause of mortality in children.
  • The urgent need for effective therapeutic strategies necessitates accelerated discovery processes.
  • Collaborative initiatives are crucial for advancing pediatric oncology research.

Purpose of the Study:

  • To establish a comprehensive genomic characterization of pediatric brain tumors.
  • To create an open, collaborative platform for data sharing and analysis.
  • To identify key genomic alterations associated with specific pediatric brain tumor subtypes and patient outcomes.

Main Methods:

  • Systematic tumor biobanking, model generation, and sequencing by the Children's Brain Tumor Network (CBTN) and Pacific Pediatric Neuro-Oncology Consortium (PNOC).
  • Development of OpenPBTA, an open collaborative project utilizing over 40 scalable analysis modules.
  • Genomic characterization of 1,074 pediatric brain tumors.

Main Results:

  • Transcriptomic classification identified universal TP53 dysregulation in mismatch repair-deficient hypermutant high-grade gliomas.
  • TP53 loss was identified as a significant negative prognostic marker for overall survival in ependymomas and H3 K28-mutant diffuse midline gliomas.
  • The OpenPBTA platform provides harmonized genomic data for over 1,000 pediatric brain tumors.

Conclusions:

  • OpenPBTA serves as a valuable resource for the pediatric oncology community, accelerating research and discovery.
  • The identified genomic alterations provide insights into tumor biology and potential therapeutic targets.
  • The platform is actively being applied to other pediatric cancers and informs molecular tumor board decision-making.