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For: Gendoo DM, Haibe-Kains B. MM2S: personalized diagnosis of medulloblastoma patients and model systems. Source Code Biol Med 2016;11:6. [PMID: 27069505 DOI: 10.1186/s13029-016-0053-y] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 09/24/2015] [Accepted: 03/31/2016] [Indexed: 12/04/2022]

For:	Gendoo DM, Haibe-Kains B. MM2S: personalized diagnosis of medulloblastoma patients and model systems. Source Code Biol Med 2016;11:6. [PMID: 27069505 DOI: 10.1186/s13029-016-0053-y] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 09/24/2015] [Accepted: 03/31/2016] [Indexed: 12/04/2022]

Number

Cited by Other Article(s)

Chapman OS, Luebeck J, Sridhar S, Wong ITL, Dixit D, Wang S, Prasad G, Rajkumar U, Pagadala MS, Larson JD, He BJ, Hung KL, Lange JT, Dehkordi SR, Chandran S, Adam M, Morgan L, Wani S, Tiwari A, Guccione C, Lin Y, Dutta A, Lo YY, Juarez E, Robinson JT, Korshunov A, Michaels JEA, Cho YJ, Malicki DM, Coufal NG, Levy ML, Hobbs C, Scheuermann RH, Crawford JR, Pomeroy SL, Rich JN, Zhang X, Chang HY, Dixon JR, Bagchi A, Deshpande AJ, Carter H, Fraenkel E, Mischel PS, Wechsler-Reya RJ, Bafna V, Mesirov JP, Chavez L. Circular extrachromosomal DNA promotes tumor heterogeneity in high-risk medulloblastoma. Nat Genet 2023;55:2189-2199. [PMID: 37945900 PMCID: PMC10703696 DOI: 10.1038/s41588-023-01551-3] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/01/2022] [Accepted: 09/22/2023] [Indexed: 11/12/2023]

Affiliation(s)

Owen S Chapman Bioinformatics and Systems Biology Graduate Program, University of California San Diego, San Diego, CA, USA Department of Medicine, University of California San Diego, San Diego, CA, USA Sanford Burnham Prebys Medical Discovery Institute, San Diego, CA, USA
Jens Luebeck Bioinformatics and Systems Biology Graduate Program, University of California San Diego, San Diego, CA, USA Department of Computer Science and Engineering, University of California San Diego, San Diego, CA, USA
Sunita Sridhar Department of Medicine, University of California San Diego, San Diego, CA, USA Department of Pediatrics, UC San Diego and Rady Children's Hospital, San Diego, CA, USA
Ivy Tsz-Lo Wong Department of Pathology, Stanford University School of Medicine, Stanford, CA, USA Sarafan ChEM-H, Stanford University, Stanford, CA, USA
Deobrat Dixit Sanford Burnham Prebys Medical Discovery Institute, San Diego, CA, USA Department of Neurology and Herbert Irving Comprehensive Cancer Center, Columbia University, New York, NY, USA
Shanqing Wang Department of Computer Science and Engineering, University of California San Diego, San Diego, CA, USA
Gino Prasad Department of Computer Science and Engineering, University of California San Diego, San Diego, CA, USA
Utkrisht Rajkumar Department of Computer Science and Engineering, University of California San Diego, San Diego, CA, USA
Meghana S Pagadala Medical Scientist Training Program, University of California San Diego, San Diego, CA, USA Biomedical Sciences Graduate Program, University of California San Diego, San Diego, CA, USA
Jon D Larson Sanford Burnham Prebys Medical Discovery Institute, San Diego, CA, USA
Britney Jiayu He Center for Personal Dynamic Regulomes, Stanford University, Stanford, CA, USA
King L Hung Center for Personal Dynamic Regulomes, Stanford University, Stanford, CA, USA
Joshua T Lange Department of Pathology, Stanford University School of Medicine, Stanford, CA, USA Sarafan ChEM-H, Stanford University, Stanford, CA, USA
Siavash R Dehkordi Department of Computer Science and Engineering, University of California San Diego, San Diego, CA, USA
Sahaana Chandran Salk Institute for Biological Studies, La Jolla, CA, USA
Miriam Adam Department of Biological Engineering, Massachusetts Institute of Technology, Cambridge, MA, USA
Ling Morgan Department of Medicine, University of California San Diego, San Diego, CA, USA
Sameena Wani Sanford Burnham Prebys Medical Discovery Institute, San Diego, CA, USA
Ashutosh Tiwari Sanford Burnham Prebys Medical Discovery Institute, San Diego, CA, USA
Caitlin Guccione Bioinformatics and Systems Biology Graduate Program, University of California San Diego, San Diego, CA, USA Department of Medicine, University of California San Diego, San Diego, CA, USA
Yingxi Lin Department of Computer Science and Engineering, University of California San Diego, San Diego, CA, USA
Aditi Dutta Department of Computer Science and Engineering, University of California San Diego, San Diego, CA, USA
Yan Yuen Lo Sanford Burnham Prebys Medical Discovery Institute, San Diego, CA, USA Rady Children's Institute for Genomic Medicine, Rady Children's Hospital and Healthcare Center, San Diego, CA, USA
Edwin Juarez Department of Medicine, University of California San Diego, San Diego, CA, USA
James T Robinson Department of Medicine, University of California San Diego, San Diego, CA, USA
Andrey Korshunov Clinical Cooperation Unit Neuropathology (B300), German Cancer Research Center (DKFZ), German Cancer Consortium (DKTK), and National Center for Tumor Diseases (NCT), Im Neuenheimer Feld 280, Heidelberg, Germany
John-Edward A Michaels Papé Pediatric Research Institute, Department of Pediatrics and Knight Cancer Insitute, Oregon Health and Sciences University, Portland, OR, USA
Yoon-Jae Cho Papé Pediatric Research Institute, Department of Pediatrics and Knight Cancer Insitute, Oregon Health and Sciences University, Portland, OR, USA
Denise M Malicki Division of Pathology, UC San Diego and Rady Children's Hospital, San Diego, CA, USA
Nicole G Coufal Department of Pediatrics, UC San Diego and Rady Children's Hospital, San Diego, CA, USA
Michael L Levy Division of Pathology, UC San Diego and Rady Children's Hospital, San Diego, CA, USA
Charlotte Hobbs Rady Children's Institute for Genomic Medicine, Rady Children's Hospital and Healthcare Center, San Diego, CA, USA
Richard H Scheuermann J. Craig Venter Institute, La Jolla, CA, USA Department of Pathology, University of California San Diego, San Diego, CA, USA
John R Crawford Department of Pediatrics, University of California Irvine and Children's Hospital Orange County, Irvine, CA, USA
Scott L Pomeroy Eli and Edythe Broad Institute of MIT and Harvard, Cambridge, MA, USA Department of Neurology, Boston Children's Hospital, Boston, MA, USA Harvard Medical School, Boston, MA, USA
Jeremy N Rich UPMC Hillman Cancer Center, Pittsburgh, PA, USA Department of Neurology, University of Pittsburgh, Pittsburgh, PA, USA
Xinlian Zhang Division of Biostatistics and Bioinformatics, Department of Family Medicine and Public Health, University of California San Diego, San Diego, CA, USA
Howard Y Chang Center for Personal Dynamic Regulomes, Stanford University, Stanford, CA, USA Department of Genetics, Stanford University, Stanford, CA, USA Howard Hughes Medical Institute, Stanford University School of Medicine, Stanford, CA, USA
Jesse R Dixon Salk Institute for Biological Studies, La Jolla, CA, USA
Anindya Bagchi Sanford Burnham Prebys Medical Discovery Institute, San Diego, CA, USA
Aniruddha J Deshpande Sanford Burnham Prebys Medical Discovery Institute, San Diego, CA, USA
Hannah Carter Department of Medicine, University of California San Diego, San Diego, CA, USA Moores Cancer Center, University of California San Diego, San Diego, CA, USA
Ernest Fraenkel Department of Biological Engineering, Massachusetts Institute of Technology, Cambridge, MA, USA Eli and Edythe Broad Institute of MIT and Harvard, Cambridge, MA, USA
Paul S Mischel Department of Pathology, Stanford University School of Medicine, Stanford, CA, USA Sarafan ChEM-H, Stanford University, Stanford, CA, USA
Robert J Wechsler-Reya Sanford Burnham Prebys Medical Discovery Institute, San Diego, CA, USA Department of Neurology and Herbert Irving Comprehensive Cancer Center, Columbia University, New York, NY, USA
Vineet Bafna Department of Computer Science and Engineering, University of California San Diego, San Diego, CA, USA Moores Cancer Center, University of California San Diego, San Diego, CA, USA
Jill P Mesirov Department of Medicine, University of California San Diego, San Diego, CA, USA Moores Cancer Center, University of California San Diego, San Diego, CA, USA
Lukas Chavez Department of Medicine, University of California San Diego, San Diego, CA, USA. Sanford Burnham Prebys Medical Discovery Institute, San Diego, CA, USA. Rady Children's Institute for Genomic Medicine, Rady Children's Hospital and Healthcare Center, San Diego, CA, USA. Moores Cancer Center, University of California San Diego, San Diego, CA, USA.

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Shapiro JA, Gaonkar KS, Spielman SJ, Savonen CL, Bethell CJ, Jin R, Rathi KS, Zhu Y, Egolf LE, Farrow BK, Miller DP, Yang Y, Koganti T, Noureen N, Koptyra MP, Duong N, Santi M, Kim J, Robins S, Storm PB, Mack SC, Lilly JV, Xie HM, Jain P, Raman P, Rood BR, Lulla RR, Nazarian J, Kraya AA, Vaksman Z, Heath AP, Kline C, Scolaro L, Viaene AN, Huang X, Way GP, Foltz SM, Zhang B, Poetsch AR, Mueller S, Ennis BM, Prados M, Diskin SJ, Zheng S, Guo Y, Kannan S, Waanders AJ, Margol AS, Kim MC, Hanson D, Van Kuren N, Wong J, Kaufman RS, Coleman N, Blackden C, Cole KA, Mason JL, Madsen PJ, Koschmann CJ, Stewart DR, Wafula E, Brown MA, Resnick AC, Greene CS, Rokita JL, Taroni JN. OpenPBTA: The Open Pediatric Brain Tumor Atlas. CELL GENOMICS 2023;3:100340. [PMID: 37492101 PMCID: PMC10363844 DOI: 10.1016/j.xgen.2023.100340] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 09/12/2022] [Revised: 02/28/2023] [Accepted: 05/04/2023] [Indexed: 07/27/2023]

Affiliation(s)

Joshua A. Shapiro Childhood Cancer Data Lab, Alex’s Lemonade Stand Foundation, Bala Cynwyd, PA 19004, USA
Krutika S. Gaonkar Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Department of Bioinformatics and Health Informatics, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Stephanie J. Spielman Childhood Cancer Data Lab, Alex’s Lemonade Stand Foundation, Bala Cynwyd, PA 19004, USA Rowan University, Glassboro, NJ 08028, USA
Candace L. Savonen Childhood Cancer Data Lab, Alex’s Lemonade Stand Foundation, Bala Cynwyd, PA 19004, USA
Chante J. Bethell Childhood Cancer Data Lab, Alex’s Lemonade Stand Foundation, Bala Cynwyd, PA 19004, USA
Run Jin Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Komal S. Rathi Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Department of Bioinformatics and Health Informatics, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Yuankun Zhu Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Laura E. Egolf Cell and Molecular Biology Graduate Group, Perelman School of Medicine at the University of Pennsylvania, Philadelphia, PA 19104, USA Division of Oncology, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Bailey K. Farrow Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Daniel P. Miller Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Yang Yang Ben May Department for Cancer Research, University of Chicago, Chicago, IL 60637, USA
Tejaswi Koganti Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Nighat Noureen Greehey Children’s Cancer Research Institute, UT Health San Antonio, San Antonio, TX 78229, USA
Mateusz P. Koptyra Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Nhat Duong Department of Bioinformatics and Health Informatics, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Mariarita Santi Department of Pathology and Laboratory Medicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Department of Pathology and Laboratory Medicine, University of Pennsylvania Perelman School of Medicine, Philadelphia, PA 19104, USA
Jung Kim Clinical Genetics Branch, Division of Cancer Epidemiology and Genetics, National Cancer Institute, Rockville, MD 20850, USA
Shannon Robins Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Phillip B. Storm Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Stephen C. Mack Department of Developmental Neurobiology, St. Jude Children’s Research Hospital, Memphis, TN 38105, USA
Jena V. Lilly Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Hongbo M. Xie Department of Bioinformatics and Health Informatics, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Payal Jain Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Pichai Raman Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Department of Bioinformatics and Health Informatics, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Brian R. Rood Children’s National Research Institute, Washington, DC 20012, USA George Washington University School of Medicine and Health Sciences, Washington, DC 20052, USA
Rishi R. Lulla Division of Hematology/Oncology, Hasbro Children’s Hospital, Providence, RI 02903, USA Department of Pediatrics, The Warren Alpert School of Brown University, Providence, RI 02912, USA
Javad Nazarian Children’s National Research Institute, Washington, DC 20012, USA George Washington University School of Medicine and Health Sciences, Washington, DC 20052, USA Department of Pediatrics, University of Zurich, Zurich, Switzerland
Adam A. Kraya Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Zalman Vaksman Division of Oncology, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Allison P. Heath Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Cassie Kline Division of Oncology, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Laura Scolaro Division of Oncology, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Angela N. Viaene Department of Pathology and Laboratory Medicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Department of Pathology and Laboratory Medicine, University of Pennsylvania Perelman School of Medicine, Philadelphia, PA 19104, USA
Xiaoyan Huang Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Gregory P. Way Department of Biomedical Informatics, University of Colorado School of Medicine, Aurora, CO 80045, USA
Steven M. Foltz Childhood Cancer Data Lab, Alex’s Lemonade Stand Foundation, Bala Cynwyd, PA 19004, USA Department of Systems Pharmacology and Translational Therapeutics, University of Pennsylvania, Philadelphia, PA 19104, USA
Bo Zhang Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Anna R. Poetsch Biotechnology Center, Technical University Dresden, Dresden, Germany National Center for Tumor Diseases, Dresden, Germany
Sabine Mueller Department of Neurology, Neurosurgery and Pediatrics, University of California, San Francisco, San Francisco, CA 94115, USA
Brian M. Ennis Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Michael Prados University of California, San Francisco, San Francisco, CA 94115, USA
Sharon J. Diskin Division of Oncology, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Department of Pediatrics, University of Pennsylvania, Philadelphia, PA 19104, USA
Siyuan Zheng Greehey Children’s Cancer Research Institute, UT Health San Antonio, San Antonio, TX 78229, USA
Yiran Guo Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Shrivats Kannan Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Angela J. Waanders Division of Hematology, Oncology, Neuro-Oncology, and Stem Cell Transplant, Ann & Robert H Lurie Children’s Hospital of Chicago, Chicago, IL 60611, USA Department of Pediatrics, Northwestern University Feinberg School of Medicine, Chicago, IL 60611, USA
Ashley S. Margol Division of Hematology and Oncology, Children’s Hospital of Los Angeles, Los Angeles, CA 90027, USA Department of Pediatrics, Keck School of Medicine of University of Southern California, Los Angeles, CA 90033, USA
Meen Chul Kim Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Derek Hanson Hackensack Meridian School of Medicine, Nutley, NJ 07110, USA Hackensack University Medical Center, Hackensack, NJ 07601, USA
Nicholas Van Kuren Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Jessica Wong Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Rebecca S. Kaufman Department of Bioinformatics and Health Informatics, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Division of Oncology, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Noel Coleman Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Christopher Blackden Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Kristina A. Cole Division of Oncology, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Department of Pediatrics, University of Pennsylvania, Philadelphia, PA 19104, USA Abramson Family Cancer Research Institute, Perelman School of Medicine at the University of Pennsylvania, Philadelphia, PA 19104, USA
Jennifer L. Mason Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Peter J. Madsen Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Carl J. Koschmann Department of Pediatrics, University of Michigan Health, Ann Arbor, MI 48105, USA Pediatric Hematology Oncology, Mott Children’s Hospital, Ann Arbor, MI 48109, USA
Douglas R. Stewart Clinical Genetics Branch, Division of Cancer Epidemiology and Genetics, National Cancer Institute, Rockville, MD 20850, USA
Eric Wafula Department of Bioinformatics and Health Informatics, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Miguel A. Brown Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Adam C. Resnick Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Casey S. Greene Childhood Cancer Data Lab, Alex’s Lemonade Stand Foundation, Bala Cynwyd, PA 19004, USA Department of Biomedical Informatics, University of Colorado School of Medicine, Aurora, CO 80045, USA Department of Systems Pharmacology and Translational Therapeutics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA
Jo Lynne Rokita Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Department of Bioinformatics and Health Informatics, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Jaclyn N. Taroni Childhood Cancer Data Lab, Alex’s Lemonade Stand Foundation, Bala Cynwyd, PA 19004, USA
Children’s Brain Tumor Network Childhood Cancer Data Lab, Alex’s Lemonade Stand Foundation, Bala Cynwyd, PA 19004, USA Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Department of Bioinformatics and Health Informatics, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Rowan University, Glassboro, NJ 08028, USA Cell and Molecular Biology Graduate Group, Perelman School of Medicine at the University of Pennsylvania, Philadelphia, PA 19104, USA Division of Oncology, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Ben May Department for Cancer Research, University of Chicago, Chicago, IL 60637, USA Greehey Children’s Cancer Research Institute, UT Health San Antonio, San Antonio, TX 78229, USA Department of Pathology and Laboratory Medicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Department of Pathology and Laboratory Medicine, University of Pennsylvania Perelman School of Medicine, Philadelphia, PA 19104, USA Clinical Genetics Branch, Division of Cancer Epidemiology and Genetics, National Cancer Institute, Rockville, MD 20850, USA Department of Developmental Neurobiology, St. Jude Children’s Research Hospital, Memphis, TN 38105, USA Children’s National Research Institute, Washington, DC 20012, USA George Washington University School of Medicine and Health Sciences, Washington, DC 20052, USA Division of Hematology/Oncology, Hasbro Children’s Hospital, Providence, RI 02903, USA Department of Pediatrics, The Warren Alpert School of Brown University, Providence, RI 02912, USA Department of Pediatrics, University of Zurich, Zurich, Switzerland Department of Biomedical Informatics, University of Colorado School of Medicine, Aurora, CO 80045, USA Department of Systems Pharmacology and Translational Therapeutics, University of Pennsylvania, Philadelphia, PA 19104, USA Biotechnology Center, Technical University Dresden, Dresden, Germany National Center for Tumor Diseases, Dresden, Germany Department of Neurology, Neurosurgery and Pediatrics, University of California, San Francisco, San Francisco, CA 94115, USA University of California, San Francisco, San Francisco, CA 94115, USA Department of Pediatrics, University of Pennsylvania, Philadelphia, PA 19104, USA Division of Hematology, Oncology, Neuro-Oncology, and Stem Cell Transplant, Ann & Robert H Lurie Children’s Hospital of Chicago, Chicago, IL 60611, USA Department of Pediatrics, Northwestern University Feinberg School of Medicine, Chicago, IL 60611, USA Division of Hematology and Oncology, Children’s Hospital of Los Angeles, Los Angeles, CA 90027, USA Department of Pediatrics, Keck School of Medicine of University of Southern California, Los Angeles, CA 90033, USA Hackensack Meridian School of Medicine, Nutley, NJ 07110, USA Hackensack University Medical Center, Hackensack, NJ 07601, USA Abramson Family Cancer Research Institute, Perelman School of Medicine at the University of Pennsylvania, Philadelphia, PA 19104, USA Department of Pediatrics, University of Michigan Health, Ann Arbor, MI 48105, USA Pediatric Hematology Oncology, Mott Children’s Hospital, Ann Arbor, MI 48109, USA Department of Systems Pharmacology and Translational Therapeutics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA
Pacific Pediatric Neuro-Oncology Consortium Childhood Cancer Data Lab, Alex’s Lemonade Stand Foundation, Bala Cynwyd, PA 19004, USA Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Department of Bioinformatics and Health Informatics, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Rowan University, Glassboro, NJ 08028, USA Cell and Molecular Biology Graduate Group, Perelman School of Medicine at the University of Pennsylvania, Philadelphia, PA 19104, USA Division of Oncology, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Ben May Department for Cancer Research, University of Chicago, Chicago, IL 60637, USA Greehey Children’s Cancer Research Institute, UT Health San Antonio, San Antonio, TX 78229, USA Department of Pathology and Laboratory Medicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Department of Pathology and Laboratory Medicine, University of Pennsylvania Perelman School of Medicine, Philadelphia, PA 19104, USA Clinical Genetics Branch, Division of Cancer Epidemiology and Genetics, National Cancer Institute, Rockville, MD 20850, USA Department of Developmental Neurobiology, St. Jude Children’s Research Hospital, Memphis, TN 38105, USA Children’s National Research Institute, Washington, DC 20012, USA George Washington University School of Medicine and Health Sciences, Washington, DC 20052, USA Division of Hematology/Oncology, Hasbro Children’s Hospital, Providence, RI 02903, USA Department of Pediatrics, The Warren Alpert School of Brown University, Providence, RI 02912, USA Department of Pediatrics, University of Zurich, Zurich, Switzerland Department of Biomedical Informatics, University of Colorado School of Medicine, Aurora, CO 80045, USA Department of Systems Pharmacology and Translational Therapeutics, University of Pennsylvania, Philadelphia, PA 19104, USA Biotechnology Center, Technical University Dresden, Dresden, Germany National Center for Tumor Diseases, Dresden, Germany Department of Neurology, Neurosurgery and Pediatrics, University of California, San Francisco, San Francisco, CA 94115, USA University of California, San Francisco, San Francisco, CA 94115, USA Department of Pediatrics, University of Pennsylvania, Philadelphia, PA 19104, USA Division of Hematology, Oncology, Neuro-Oncology, and Stem Cell Transplant, Ann & Robert H Lurie Children’s Hospital of Chicago, Chicago, IL 60611, USA Department of Pediatrics, Northwestern University Feinberg School of Medicine, Chicago, IL 60611, USA Division of Hematology and Oncology, Children’s Hospital of Los Angeles, Los Angeles, CA 90027, USA Department of Pediatrics, Keck School of Medicine of University of Southern California, Los Angeles, CA 90033, USA Hackensack Meridian School of Medicine, Nutley, NJ 07110, USA Hackensack University Medical Center, Hackensack, NJ 07601, USA Abramson Family Cancer Research Institute, Perelman School of Medicine at the University of Pennsylvania, Philadelphia, PA 19104, USA Department of Pediatrics, University of Michigan Health, Ann Arbor, MI 48105, USA Pediatric Hematology Oncology, Mott Children’s Hospital, Ann Arbor, MI 48109, USA Department of Systems Pharmacology and Translational Therapeutics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA

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Liu C, Zou X, Song G, Fan X, Peng S, Zhang S, Geng X, zhou X, Wang T, Cheng W, Zhu W. Comprehensive analysis of negatively correlated miRNA-mRNA regulatory pairs associated with microsatellite instability in colorectal cancer. Cancer Biomark 2022;34:471-483. [PMID: 35253734 DOI: 10.3233/cbm-210408] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]

Rathi KS, Arif S, Koptyra M, Naqvi AS, Taylor DM, Storm PB, Resnick AC, Rokita JL, Raman P. A transcriptome-based classifier to determine molecular subtypes in medulloblastoma. PLoS Comput Biol 2020;16:e1008263. [PMID: 33119584 PMCID: PMC7654754 DOI: 10.1371/journal.pcbi.1008263] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/11/2020] [Revised: 11/10/2020] [Accepted: 08/16/2020] [Indexed: 11/21/2022] Open

Affiliation(s)

Komal S. Rathi Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, Pennsylvania, United States of America Department of Biomedical and Health Informatics, Children’s Hospital of Philadelphia, Philadelphia, Pennsylvania, United States of America Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, Pennsylvania, United States of America
Sherjeel Arif Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, Pennsylvania, United States of America Department of Biomedical and Health Informatics, Children’s Hospital of Philadelphia, Philadelphia, Pennsylvania, United States of America Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, Pennsylvania, United States of America
Mateusz Koptyra Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, Pennsylvania, United States of America Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, Pennsylvania, United States of America
Ammar S. Naqvi Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, Pennsylvania, United States of America Department of Biomedical and Health Informatics, Children’s Hospital of Philadelphia, Philadelphia, Pennsylvania, United States of America Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, Pennsylvania, United States of America
Deanne M. Taylor Department of Biomedical and Health Informatics, Children’s Hospital of Philadelphia, Philadelphia, Pennsylvania, United States of America Department of Pediatrics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, Pennsylvania, United States of America
Phillip B. Storm Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, Pennsylvania, United States of America Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, Pennsylvania, United States of America
Adam C. Resnick Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, Pennsylvania, United States of America Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, Pennsylvania, United States of America
Jo Lynne Rokita Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, Pennsylvania, United States of America Department of Biomedical and Health Informatics, Children’s Hospital of Philadelphia, Philadelphia, Pennsylvania, United States of America Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, Pennsylvania, United States of America * E-mail: (JLR); (PR)
Pichai Raman Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, Pennsylvania, United States of America Department of Biomedical and Health Informatics, Children’s Hospital of Philadelphia, Philadelphia, Pennsylvania, United States of America Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, Pennsylvania, United States of America * E-mail: (JLR); (PR)

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