OpenPBTA: The Open Pediatric Brain Tumor Atlas

被引：23

作者：

Shapiro, Joshua A. ^{[1
]}

Gaonkar, Krutika S. ^{[2
,3
,4
]}

Spielman, Stephanie J. ^{[1
,5
,36
]}

Savonen, Candace L. ^{[1
,37
]}

Bethell, Chante J. ^{[1
]}

Jin, Run ^{[2
,3
]}

Rathi, Komal S. ^{[2
,4
]}

Zhu, Yuankun ^{[2
,3
]}

Egolf, Laura E. ^{[6
,7
]}

Farrow, Bailey K. ^{[2
,3
]}

Miller, Daniel P. ^{[2
,3
]}

Yang, Yang ^{[8
]}

Koganti, Tejaswi ^{[2
,3
]}

Noureen, Nighat ^{[9
]}

Koptyra, Mateusz P. ^{[2
,3
]}

Duong, Nhat ^{[4
]}

Santi, Mariarita ^{[10
,11
]}

Kim, Jung ^{[12
]}

Robins, Shannon ^{[2
,3
]}

Storm, Phillip B. ^{[2
,3
]}

Mack, Stephen C. ^{[13
]}

Lilly, Jena, V ^{[2
,3
]}

Xie, Hongbo M. ^{[4
]}

Jain, Payal ^{[2
,3
]}

Raman, Pichai ^{[2
,4
]}

Rood, Brian R. ^{[14
,15
]}

Lulla, Rishi R. ^{[16
,17
]}

Nazarian, Javad ^{[14
,15
,18
]}

Kraya, Adam A. ^{[2
,3
]}

Vaksman, Zalman ^{[7
]}

Heath, Allison P. ^{[2
,3
]}

Kline, Cassie ^{[7
]}

Scolaro, Laura ^{[7
]}

Viaene, Angela N. ^{[10
,11
]}

Huang, Xiaoyan ^{[2
,3
]}

Way, Gregory P. ^{[19
]}

Foltz, Steven M. ^{[1
,20
]}

Zhang, Bo ^{[2
,3
]}

Poetsch, Anna R. ^{[21
,22
]}

Mueller, Sabine ^{[23
]}

Ennis, Brian M. ^{[2
,3
]}

Prados, Michael ^{[24
]}

Diskin, Sharon J. ^{[7
,25
]}

Zheng, Siyuan ^{[9
]}

Guo, Yiran ^{[2
]}

Kannan, Shrivats ^{[2
,3
]}

Waanders, Angela J. ^{[26
,27
]}

Margol, Ashley S. ^{[28
,29
]}

Kim, Meen Chul ^{[2
,3
]}

Hanson, Derek ^{[30
,31
]}

机构：

[1] Alexs Lemonade Stand Fdn, Childhood Canc Data Lab, Bala Cynwyd, CA 19004 USA

[2] Childrens Hosp Philadelphia, Ctr Data Driven Discovery Biomed, Philadelphia, PA 19104 USA

[3] Childrens Hosp Philadelphia, Div Neurosurg, Philadelphia, PA 19104 USA

[4] Childrens Hosp Philadelphia, Dept Bioinformat & Hlth Informat, Philadelphia, PA 19104 USA

[5] Rowan Univ, Glassboro, NJ 08028 USA

[6] Univ Penn, Perelman Sch Med, Cell & Mol Biol Grad Grp, Philadelphia, PA 19104 USA

[7] Childrens Hosp Philadelphia, Div Oncol, Philadelphia, PA 19104 USA

[8] Univ Chicago, Ben May Dept Canc Res, Chicago, IL 60637 USA

[9] UT Hlth San Antonio, Greehey Childrens Canc Res Inst, San Antonio, TX 78229 USA

[10] Childrens Hosp Philadelphia, Dept Pathol & Lab Med, Philadelphia, PA 19104 USA

[11] Univ Penn, Dept Pathol & Lab Med, Perelman Sch Med, Philadelphia, PA 19104 USA

[12] NCI, Clin Genet Branch, Div Canc Epidemiol & Genet, Rockville, MD 20850 USA

[13] St Jude Childrens Res Hosp, Dept Dev Neurobiol, Memphis, TN 38105 USA

[14] Childrens Natl Res Inst, Washington, DC 20012 USA

[15] George Washington Univ, Sch Med & Hlth Sci, Washington, DC 20052 USA

[16] Hasbro Childrens Hosp, Div Hematol Oncol, Providence, RI 02903 USA

[17] Brown Univ, Dept Pediat, Warren Alpert Sch, Providence, RI 02912 USA

[18] Univ Zurich, Dept Pediat, Zurich, Switzerland

[19] Univ Colorado, Dept Biomed Informat, Sch Med, Aurora, CO 80045 USA

[20] Univ Penn, Dept Syst Pharmacol & Translat Therapeut, Philadelphia, PA 19104 USA

[21] Tech Univ Dresden, Biotechnol Ctr, Dresden, Germany

[22] Natl Ctr Tumor Dis, Dresden, Germany

[23] Univ Calif San Francisco, Dept Neurol Neurosurg & Pediat, San Francisco, CA 94115 USA

[24] Univ Calif San Francisco, San Francisco, CA 94115 USA

[25] Univ Penn, Dept Pediat, Philadelphia, PA 19104 USA

[26] Ann & Robert H Lurie Childrens Hosp Chicago, Div Hematol Oncol Neurooncol & Stem Cell Transpla, Chicago, IL 60611 USA

[27] Northwestern Univ, Feinberg Sch Med, Dept Pediat, Chicago, IL 60611 USA

[28] Childrens Hosp Los Angeles, Div Hematol & Oncol, Los Angeles, CA 90027 USA

[29] Univ Southern Calif, Dept Pediat, Keck Sch Med, Los Angeles, CA 90033 USA

[30] Hackensack Meridian Sch Med, Nutley, NJ 07110 USA

[31] Hackensack Univ Med Ctr, Hackensack, NJ 07601 USA

[32] Univ Penn, Abramson Family Canc Res Inst, Perelman Sch Med, Philadelphia, PA 19104 USA

[33] Univ Michigan Hlth, Dept Pediat, Ann Arbor, MI 48105 USA

[34] Mott Childrens Hosp, Pediat Hematol Oncol, Ann Arbor, MI 48109 USA

[35] Univ Penn, Perelman Sch Med, Dept Syst Pharmacol & Translat Therapeut, Philadelphia, PA 19104 USA

[36] Alexs Lemonade Stand Fdn, Childhood Canc Data Lab, Bala Cynwyd, PA 19004 USA

[37] Fred Hutchinson Canc Ctr, Seattle, WA 98109 USA

[38] Univ Colorado, Sch Med, Ctr Hlth AI, Aurora, CO 80045 USA

[39] Univ Colorado, Sch Med, Dept Biomed Informat, Aurora, CO 80045 USA

来源：

CELL GENOMICS | 2023年 / 3卷 / 07期

基金：

美国国家卫生研究院;

关键词：

CENTRAL-NERVOUS-SYSTEM; TELOMERASE REVERSE-TRANSCRIPTASE; INTRINSIC PONTINE GLIOMA; WHOLE-GENOME; COPY-NUMBER; MOLECULAR CLASSIFICATION; UNITED-STATES; CANCER; LANDSCAPE; CHILDREN;

D O I：

10.1016/j.xgen.2023.100340

中图分类号：

Q2 [细胞生物学];

学科分类号：

071009 ; 090102 ;

摘要：

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 Chil-dren's Brain Tumor Network (CBTN) and Pacific Pediatric Neuro-Oncology Consortium (PNOC) created a sys-tematic process for tumor biobanking, model generation, and sequencing with immediate access to harmo-nized 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 classi-fication 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.

引用

页数：35

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