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OpenPBTA: The Open Pediatric Brain Tumor Atlas
Pediatric brain and spinal cancers are collectively the leading disease-related cause of death in children; thus, we urgently need curative therapeutic strategies for these tumors. To accelerate such discoveries, the Children’s Brain Tumor Network (CBTN) and Pacific Pediatric Neuro-Oncology Consorti...
Autores principales: | , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Elsevier
2023
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10363844/ https://www.ncbi.nlm.nih.gov/pubmed/37492101 http://dx.doi.org/10.1016/j.xgen.2023.100340 |
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author | Shapiro, Joshua A. Gaonkar, Krutika S. Spielman, Stephanie J. Savonen, Candace L. Bethell, Chante J. Jin, Run Rathi, Komal S. Zhu, Yuankun Egolf, Laura E. Farrow, Bailey K. Miller, Daniel P. Yang, Yang Koganti, Tejaswi Noureen, Nighat Koptyra, Mateusz P. Duong, Nhat Santi, Mariarita Kim, Jung Robins, Shannon Storm, Phillip B. Mack, Stephen C. Lilly, Jena V. Xie, Hongbo M. Jain, Payal Raman, Pichai Rood, Brian R. Lulla, Rishi R. Nazarian, Javad Kraya, Adam A. Vaksman, Zalman Heath, Allison P. Kline, Cassie Scolaro, Laura Viaene, Angela N. Huang, Xiaoyan Way, Gregory P. Foltz, Steven M. Zhang, Bo Poetsch, Anna R. Mueller, Sabine Ennis, Brian M. Prados, Michael Diskin, Sharon J. Zheng, Siyuan Guo, Yiran Kannan, Shrivats Waanders, Angela J. Margol, Ashley S. Kim, Meen Chul Hanson, Derek Van Kuren, Nicholas Wong, Jessica Kaufman, Rebecca S. Coleman, Noel Blackden, Christopher Cole, Kristina A. Mason, Jennifer L. Madsen, Peter J. Koschmann, Carl J. Stewart, Douglas R. Wafula, Eric Brown, Miguel A. Resnick, Adam C. Greene, Casey S. Rokita, Jo Lynne Taroni, Jaclyn N. |
author_facet | Shapiro, Joshua A. Gaonkar, Krutika S. Spielman, Stephanie J. Savonen, Candace L. Bethell, Chante J. Jin, Run Rathi, Komal S. Zhu, Yuankun Egolf, Laura E. Farrow, Bailey K. Miller, Daniel P. Yang, Yang Koganti, Tejaswi Noureen, Nighat Koptyra, Mateusz P. Duong, Nhat Santi, Mariarita Kim, Jung Robins, Shannon Storm, Phillip B. Mack, Stephen C. Lilly, Jena V. Xie, Hongbo M. Jain, Payal Raman, Pichai Rood, Brian R. Lulla, Rishi R. Nazarian, Javad Kraya, Adam A. Vaksman, Zalman Heath, Allison P. Kline, Cassie Scolaro, Laura Viaene, Angela N. Huang, Xiaoyan Way, Gregory P. Foltz, Steven M. Zhang, Bo Poetsch, Anna R. Mueller, Sabine Ennis, Brian M. Prados, Michael Diskin, Sharon J. Zheng, Siyuan Guo, Yiran Kannan, Shrivats Waanders, Angela J. Margol, Ashley S. Kim, Meen Chul Hanson, Derek Van Kuren, Nicholas Wong, Jessica Kaufman, Rebecca S. Coleman, Noel Blackden, Christopher Cole, Kristina A. Mason, Jennifer L. Madsen, Peter J. Koschmann, Carl J. Stewart, Douglas R. Wafula, Eric Brown, Miguel A. Resnick, Adam C. Greene, Casey S. Rokita, Jo Lynne Taroni, Jaclyn N. |
author_sort | Shapiro, Joshua A. |
collection | PubMed |
description | Pediatric brain and spinal cancers are collectively the leading disease-related cause of death in children; thus, we urgently need curative therapeutic strategies for these tumors. To accelerate such discoveries, the Children’s Brain Tumor Network (CBTN) and Pacific Pediatric Neuro-Oncology Consortium (PNOC) created a systematic process for tumor biobanking, model generation, and sequencing with immediate access to harmonized data. We leverage these data to establish OpenPBTA, an open collaborative project with over 40 scalable analysis modules that genomically characterize 1,074 pediatric brain tumors. Transcriptomic classification reveals universal TP53 dysregulation in mismatch repair-deficient hypermutant high-grade gliomas and TP53 loss as a significant marker for poor overall survival in ependymomas and H3 K28-mutant diffuse midline gliomas. Already being actively applied to other pediatric cancers and PNOC molecular tumor board decision-making, OpenPBTA is an invaluable resource to the pediatric oncology community. |
format | Online Article Text |
id | pubmed-10363844 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2023 |
publisher | Elsevier |
record_format | MEDLINE/PubMed |
spelling | pubmed-103638442023-07-25 OpenPBTA: The Open Pediatric Brain Tumor Atlas Shapiro, Joshua A. Gaonkar, Krutika S. Spielman, Stephanie J. Savonen, Candace L. Bethell, Chante J. Jin, Run Rathi, Komal S. Zhu, Yuankun Egolf, Laura E. Farrow, Bailey K. Miller, Daniel P. Yang, Yang Koganti, Tejaswi Noureen, Nighat Koptyra, Mateusz P. Duong, Nhat Santi, Mariarita Kim, Jung Robins, Shannon Storm, Phillip B. Mack, Stephen C. Lilly, Jena V. Xie, Hongbo M. Jain, Payal Raman, Pichai Rood, Brian R. Lulla, Rishi R. Nazarian, Javad Kraya, Adam A. Vaksman, Zalman Heath, Allison P. Kline, Cassie Scolaro, Laura Viaene, Angela N. Huang, Xiaoyan Way, Gregory P. Foltz, Steven M. Zhang, Bo Poetsch, Anna R. Mueller, Sabine Ennis, Brian M. Prados, Michael Diskin, Sharon J. Zheng, Siyuan Guo, Yiran Kannan, Shrivats Waanders, Angela J. Margol, Ashley S. Kim, Meen Chul Hanson, Derek Van Kuren, Nicholas Wong, Jessica Kaufman, Rebecca S. Coleman, Noel Blackden, Christopher Cole, Kristina A. Mason, Jennifer L. Madsen, Peter J. Koschmann, Carl J. Stewart, Douglas R. Wafula, Eric Brown, Miguel A. Resnick, Adam C. Greene, Casey S. Rokita, Jo Lynne Taroni, Jaclyn N. Cell Genom Resource Pediatric brain and spinal cancers are collectively the leading disease-related cause of death in children; thus, we urgently need curative therapeutic strategies for these tumors. To accelerate such discoveries, the Children’s Brain Tumor Network (CBTN) and Pacific Pediatric Neuro-Oncology Consortium (PNOC) created a systematic process for tumor biobanking, model generation, and sequencing with immediate access to harmonized data. We leverage these data to establish OpenPBTA, an open collaborative project with over 40 scalable analysis modules that genomically characterize 1,074 pediatric brain tumors. Transcriptomic classification reveals universal TP53 dysregulation in mismatch repair-deficient hypermutant high-grade gliomas and TP53 loss as a significant marker for poor overall survival in ependymomas and H3 K28-mutant diffuse midline gliomas. Already being actively applied to other pediatric cancers and PNOC molecular tumor board decision-making, OpenPBTA is an invaluable resource to the pediatric oncology community. Elsevier 2023-05-31 /pmc/articles/PMC10363844/ /pubmed/37492101 http://dx.doi.org/10.1016/j.xgen.2023.100340 Text en © 2023 The Author(s) https://creativecommons.org/licenses/by/4.0/This is an open access article under the CC BY license (http://creativecommons.org/licenses/by/4.0/). |
spellingShingle | Resource Shapiro, Joshua A. Gaonkar, Krutika S. Spielman, Stephanie J. Savonen, Candace L. Bethell, Chante J. Jin, Run Rathi, Komal S. Zhu, Yuankun Egolf, Laura E. Farrow, Bailey K. Miller, Daniel P. Yang, Yang Koganti, Tejaswi Noureen, Nighat Koptyra, Mateusz P. Duong, Nhat Santi, Mariarita Kim, Jung Robins, Shannon Storm, Phillip B. Mack, Stephen C. Lilly, Jena V. Xie, Hongbo M. Jain, Payal Raman, Pichai Rood, Brian R. Lulla, Rishi R. Nazarian, Javad Kraya, Adam A. Vaksman, Zalman Heath, Allison P. Kline, Cassie Scolaro, Laura Viaene, Angela N. Huang, Xiaoyan Way, Gregory P. Foltz, Steven M. Zhang, Bo Poetsch, Anna R. Mueller, Sabine Ennis, Brian M. Prados, Michael Diskin, Sharon J. Zheng, Siyuan Guo, Yiran Kannan, Shrivats Waanders, Angela J. Margol, Ashley S. Kim, Meen Chul Hanson, Derek Van Kuren, Nicholas Wong, Jessica Kaufman, Rebecca S. Coleman, Noel Blackden, Christopher Cole, Kristina A. Mason, Jennifer L. Madsen, Peter J. Koschmann, Carl J. Stewart, Douglas R. Wafula, Eric Brown, Miguel A. Resnick, Adam C. Greene, Casey S. Rokita, Jo Lynne Taroni, Jaclyn N. OpenPBTA: The Open Pediatric Brain Tumor Atlas |
title | OpenPBTA: The Open Pediatric Brain Tumor Atlas |
title_full | OpenPBTA: The Open Pediatric Brain Tumor Atlas |
title_fullStr | OpenPBTA: The Open Pediatric Brain Tumor Atlas |
title_full_unstemmed | OpenPBTA: The Open Pediatric Brain Tumor Atlas |
title_short | OpenPBTA: The Open Pediatric Brain Tumor Atlas |
title_sort | openpbta: the open pediatric brain tumor atlas |
topic | Resource |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10363844/ https://www.ncbi.nlm.nih.gov/pubmed/37492101 http://dx.doi.org/10.1016/j.xgen.2023.100340 |
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