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St. Jude Cloud: A Pediatric Cancer Genomic Data-Sharing Ecosystem.
McLeod, Clay; Gout, Alexander M; Zhou, Xin; Thrasher, Andrew; Rahbarinia, Delaram; Brady, Samuel W; Macias, Michael; Birch, Kirby; Finkelstein, David; Sunny, Jobin; Mudunuri, Rahul; Orr, Brent A; Treadway, Madison; Davidson, Bob; Ard, Tracy K; Chiao, Arthur; Swistak, Andrew; Wiggins, Stephanie; Foy, Scott; Wang, Jian; Sioson, Edgar; Wang, Shuoguo; Michael, J Robert; Liu, Yu; Ma, Xiaotu; Patel, Aman; Edmonson, Michael N; Wilkinson, Mark R; Frantz, Andrew M; Chang, Ti-Cheng; Tian, Liqing; Lei, Shaohua; Islam, S M Ashiqul; Meyer, Christopher; Thangaraj, Naina; Tater, Pamella; Kandali, Vijay; Ma, Singer; Nguyen, Tuan; Serang, Omar; McGuire, Irina; Robison, Nedra; Gentry, Darrell; Tang, Xing; Palmer, Lance E; Wu, Gang; Suh, Ed; Tanner, Leigh; McMurry, James; Lear, Matthew.
Afiliación
  • McLeod C; Department of Computational Biology, St. Jude Children's Research Hospital, Memphis, Tennessee.
  • Gout AM; Department of Computational Biology, St. Jude Children's Research Hospital, Memphis, Tennessee.
  • Zhou X; Department of Computational Biology, St. Jude Children's Research Hospital, Memphis, Tennessee.
  • Thrasher A; Department of Computational Biology, St. Jude Children's Research Hospital, Memphis, Tennessee.
  • Rahbarinia D; Department of Computational Biology, St. Jude Children's Research Hospital, Memphis, Tennessee.
  • Brady SW; Department of Computational Biology, St. Jude Children's Research Hospital, Memphis, Tennessee.
  • Macias M; Department of Computational Biology, St. Jude Children's Research Hospital, Memphis, Tennessee.
  • Birch K; Department of Computational Biology, St. Jude Children's Research Hospital, Memphis, Tennessee.
  • Finkelstein D; Department of Computational Biology, St. Jude Children's Research Hospital, Memphis, Tennessee.
  • Sunny J; Department of Computational Biology, St. Jude Children's Research Hospital, Memphis, Tennessee.
  • Mudunuri R; Department of Computational Biology, St. Jude Children's Research Hospital, Memphis, Tennessee.
  • Orr BA; Department of Pathology, St. Jude Children's Research Hospital, Memphis, Tennessee.
  • Treadway M; Department of Computational Biology, St. Jude Children's Research Hospital, Memphis, Tennessee.
  • Davidson B; Microsoft Research, Redmond, Washington.
  • Ard TK; Microsoft Research, Redmond, Washington.
  • Chiao A; Department of Computational Biology, St. Jude Children's Research Hospital, Memphis, Tennessee.
  • Swistak A; Department of Computational Biology, St. Jude Children's Research Hospital, Memphis, Tennessee.
  • Wiggins S; Department of Computational Biology, St. Jude Children's Research Hospital, Memphis, Tennessee.
  • Foy S; Department of Computational Biology, St. Jude Children's Research Hospital, Memphis, Tennessee.
  • Wang J; Department of Computational Biology, St. Jude Children's Research Hospital, Memphis, Tennessee.
  • Sioson E; Department of Computational Biology, St. Jude Children's Research Hospital, Memphis, Tennessee.
  • Wang S; Department of Computational Biology, St. Jude Children's Research Hospital, Memphis, Tennessee.
  • Michael JR; Department of Computational Biology, St. Jude Children's Research Hospital, Memphis, Tennessee.
  • Liu Y; Department of Computational Biology, St. Jude Children's Research Hospital, Memphis, Tennessee.
  • Ma X; Department of Computational Biology, St. Jude Children's Research Hospital, Memphis, Tennessee.
  • Patel A; Department of Computational Biology, St. Jude Children's Research Hospital, Memphis, Tennessee.
  • Edmonson MN; Department of Computational Biology, St. Jude Children's Research Hospital, Memphis, Tennessee.
  • Wilkinson MR; Department of Computational Biology, St. Jude Children's Research Hospital, Memphis, Tennessee.
  • Frantz AM; Department of Computational Biology, St. Jude Children's Research Hospital, Memphis, Tennessee.
  • Chang TC; Department of Computational Biology, St. Jude Children's Research Hospital, Memphis, Tennessee.
  • Tian L; Department of Computational Biology, St. Jude Children's Research Hospital, Memphis, Tennessee.
  • Lei S; Department of Computational Biology, St. Jude Children's Research Hospital, Memphis, Tennessee.
  • Islam SMA; Department of Cellular and Molecular Medicine and Department of Bioengineering, Moores Cancer Center, University of California, San Diego, La Jolla, California.
  • Meyer C; DNAnexus, Mountain View, California.
  • Thangaraj N; DNAnexus, Mountain View, California.
  • Tater P; DNAnexus, Mountain View, California.
  • Kandali V; DNAnexus, Mountain View, California.
  • Ma S; DNAnexus, Mountain View, California.
  • Nguyen T; DNAnexus, Mountain View, California.
  • Serang O; DNAnexus, Mountain View, California.
  • McGuire I; Department of Information Services, St. Jude Children's Research Hospital, Memphis, Tennessee.
  • Robison N; Department of Information Services, St. Jude Children's Research Hospital, Memphis, Tennessee.
  • Gentry D; Department of Information Services, St. Jude Children's Research Hospital, Memphis, Tennessee.
  • Tang X; Department of Hematology, St. Jude Children's Research Hospital, Memphis, Tennessee.
  • Palmer LE; Department of Hematology, St. Jude Children's Research Hospital, Memphis, Tennessee.
  • Wu G; Department of Computational Biology, St. Jude Children's Research Hospital, Memphis, Tennessee.
  • Suh E; Department of Information Services, St. Jude Children's Research Hospital, Memphis, Tennessee.
  • Tanner L; Department of Information Services, St. Jude Children's Research Hospital, Memphis, Tennessee.
  • McMurry J; Department of Information Services, St. Jude Children's Research Hospital, Memphis, Tennessee.
  • Lear M; Department of Pathology, St. Jude Children's Research Hospital, Memphis, Tennessee.
Cancer Discov ; 11(5): 1082-1099, 2021 05.
Article en En | MEDLINE | ID: mdl-33408242
Effective data sharing is key to accelerating research to improve diagnostic precision, treatment efficacy, and long-term survival in pediatric cancer and other childhood catastrophic diseases. We present St. Jude Cloud (https://www.stjude.cloud), a cloud-based data-sharing ecosystem for accessing, analyzing, and visualizing genomic data from >10,000 pediatric patients with cancer and long-term survivors, and >800 pediatric sickle cell patients. Harmonized genomic data totaling 1.25 petabytes are freely available, including 12,104 whole genomes, 7,697 whole exomes, and 2,202 transcriptomes. The resource is expanding rapidly, with regular data uploads from St. Jude's prospective clinical genomics programs. Three interconnected apps within the ecosystem-Genomics Platform, Pediatric Cancer Knowledgebase, and Visualization Community-enable simultaneously performing advanced data analysis in the cloud and enhancing the Pediatric Cancer knowledgebase. We demonstrate the value of the ecosystem through use cases that classify 135 pediatric cancer subtypes by gene expression profiling and map mutational signatures across 35 pediatric cancer subtypes. SIGNIFICANCE: To advance research and treatment of pediatric cancer, we developed St. Jude Cloud, a data-sharing ecosystem for accessing >1.2 petabytes of raw genomic data from >10,000 pediatric patients and survivors, innovative analysis workflows, integrative multiomics visualizations, and a knowledgebase of published data contributed by the global pediatric cancer community.This article is highlighted in the In This Issue feature, p. 995.
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Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Genómica / Difusión de la Información / Nube Computacional / Anemia de Células Falciformes / Neoplasias Límite: Child / Humans Idioma: En Revista: Cancer Discov Año: 2021 Tipo del documento: Article Pais de publicación: Estados Unidos
Texto completo
Añadir a Mi BVS
Imprimir
XML
PubMed Links
Buscar en Google

Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Genómica / Difusión de la Información / Nube Computacional / Anemia de Células Falciformes / Neoplasias Límite: Child / Humans Idioma: En Revista: Cancer Discov Año: 2021 Tipo del documento: Article Pais de publicación: Estados Unidos