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Aug 02, 2024;14 (8): 1403-1417.

St. Jude Survivorship Portal: Sharing and Analyzing Large Clinical and Genomic Datasets from Pediatric Cancer Survivors.

Gavriel Y Matt, Edgar Sioson, Kyla Shelton, Jian Wang, Congyu Lu, Airen Zaldivar Peraza, Karishma Gangwani, Robin Paul, Colleen Reilly, Aleksandar Acić, Qi Liu, Stephanie R Sandor, Clay McLeod, Jaimin Patel, Fan Wang, Cindy Im, Zhaoming Wang, Yadav Sapkota, Carmen L Wilson, Nickhill Bhakta, Kirsten K Ness, Gregory T Armstrong, Melissa M Hudson, Leslie L Robison, Jinghui Zhang, Yutaka Yasui, Xin Zhou
Author Information
  1. Gavriel Y Matt: Department of Computational Biology, St. Jude Children's Research Hospital, Memphis, Tennessee. ORCID
  2. Edgar Sioson: Department of Computational Biology, St. Jude Children's Research Hospital, Memphis, Tennessee. ORCID
  3. Kyla Shelton: Department of Epidemiology and Cancer Control, St. Jude Children's Research Hospital, Memphis, Tennessee. ORCID
  4. Jian Wang: Department of Computational Biology, St. Jude Children's Research Hospital, Memphis, Tennessee. ORCID
  5. Congyu Lu: Department of Computational Biology, St. Jude Children's Research Hospital, Memphis, Tennessee. ORCID
  6. Airen Zaldivar Peraza: Department of Computational Biology, St. Jude Children's Research Hospital, Memphis, Tennessee. ORCID
  7. Karishma Gangwani: Department of Computational Biology, St. Jude Children's Research Hospital, Memphis, Tennessee. ORCID
  8. Robin Paul: Department of Computational Biology, St. Jude Children's Research Hospital, Memphis, Tennessee. ORCID
  9. Colleen Reilly: Department of Computational Biology, St. Jude Children's Research Hospital, Memphis, Tennessee. ORCID
  10. Aleksandar Acić: Department of Computational Biology, St. Jude Children's Research Hospital, Memphis, Tennessee. ORCID
  11. Qi Liu: School of Public Health, University of Alberta, Edmonton, Canada. ORCID
  12. Stephanie R Sandor: Department of Computational Biology, St. Jude Children's Research Hospital, Memphis, Tennessee. ORCID
  13. Clay McLeod: Department of Computational Biology, St. Jude Children's Research Hospital, Memphis, Tennessee. ORCID
  14. Jaimin Patel: Department of Computational Biology, St. Jude Children's Research Hospital, Memphis, Tennessee. ORCID
  15. Fan Wang: Department of Epidemiology and Cancer Control, St. Jude Children's Research Hospital, Memphis, Tennessee. ORCID
  16. Cindy Im: Department of Pediatrics, University of Minnesota Medical School, Minneapolis, Minnesota. ORCID
  17. Zhaoming Wang: Department of Computational Biology, St. Jude Children's Research Hospital, Memphis, Tennessee. ORCID
  18. Yadav Sapkota: Department of Epidemiology and Cancer Control, St. Jude Children's Research Hospital, Memphis, Tennessee. ORCID
  19. Carmen L Wilson: Department of Epidemiology and Cancer Control, St. Jude Children's Research Hospital, Memphis, Tennessee. ORCID
  20. Nickhill Bhakta: Department of Global Pediatric Medicine, St. Jude Children's Research Hospital, Memphis, Tennessee. ORCID
  21. Kirsten K Ness: Department of Epidemiology and Cancer Control, St. Jude Children's Research Hospital, Memphis, Tennessee. ORCID
  22. Gregory T Armstrong: Department of Epidemiology and Cancer Control, St. Jude Children's Research Hospital, Memphis, Tennessee. ORCID
  23. Melissa M Hudson: Department of Epidemiology and Cancer Control, St. Jude Children's Research Hospital, Memphis, Tennessee. ORCID
  24. Leslie L Robison: Department of Epidemiology and Cancer Control, St. Jude Children's Research Hospital, Memphis, Tennessee. ORCID
  25. Jinghui Zhang: Department of Computational Biology, St. Jude Children's Research Hospital, Memphis, Tennessee. ORCID
  26. Yutaka Yasui: Department of Epidemiology and Cancer Control, St. Jude Children's Research Hospital, Memphis, Tennessee. ORCID
  27. Xin Zhou: Department of Computational Biology, St. Jude Children's Research Hospital, Memphis, Tennessee. ORCID
PMID: 38593228 DOI: 10.1158/2159-8290.CD-23-1441

Abstract

Childhood cancer survivorship studies generate comprehensive datasets comprising demographic, diagnosis, treatment, outcome, and genomic data from survivors. To broadly share this data, we created the St. Jude Survivorship Portal (https://survivorship.stjude.cloud), the first data portal for sharing, analyzing, and visualizing pediatric cancer survivorship data. More than 1,600 phenotypic variables and 400 million genetic variants from more than 7,700 childhood cancer survivors can be explored on this free, open-access portal. Summary statistics of variables are computed on-the-fly and visualized through interactive and customizable charts. Survivor cohorts can be customized and/or divided into groups for comparative analysis. Users can also seamlessly perform cumulative incidence and regression analyses on the stored survivorship data. Using the portal, we explored the ototoxic effects of platinum-based chemotherapy, uncovered a novel association between mental health, age, and limb amputation, and discovered a novel haplotype in MAGI3 strongly associated with cardiomyopathy specifically in survivors of African ancestry. Significance: The St. Jude Survivorship Portal is the first data portal designed to share and explore clinical and genetic data from childhood cancer survivors. The portal provides both open- and controlled-access features and will fulfill a wide range of data sharing needs of the survivorship research community and beyond. See co-corresponding author Xin Zhou discuss this research article, published simultaneously at the AACR Annual Meeting 2024: https://vimeo.com/932617204/7d99fa4958.

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Grants

  1. U24 CA055727/NCI NIH HHS
  2. R01 CA261898/NCI NIH HHS
  3. P30 CA021765/NCI NIH HHS
  4. U01 CA195547/NCI NIH HHS
  5. R01 CA270157/NCI NIH HHS
  6. R01 CA216354/NCI NIH HHS
  7. /American Lebanese Syrian Associated Charities (ALSAC)
  8. CA195547/National Institutes of Health (NIH)
  9. CA216354/National Institutes of Health (NIH)
  10. CA270157/National Institutes of Health (NIH)
  11. CA55727/National Institutes of Health (NIH)
  12. CA261898/National Institutes of Health (NIH)

MeSH Term

Humans
Cancer Survivors
Child
Genomics
Neoplasms
Information Dissemination
Male
Female
Adolescent
Survivorship
Journal Article
Article has an altmetric score of 46

Word Cloud

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