The genomic landscape of hypodiploid acute lymphoblastic leukemia (original) (raw)
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Acknowledgements
We thank J. Morris, E. Walker and A. Merriman for performing SNP and gene expression microarrays and G. Zambetti and P. Brindle for insightful discussions of TP53 and CREBBP mutational data, respectively. We also thank H. Mulder, R. Collins, M. Barbato, E. Stonerock, E. Pinto and M. Ellis for technical assistance, the Tissue Resources Core facility and the Flow Cytometry and Cell Sorting Core facility of the St. Jude Children's Research Hospital (SJCRH). This work was supported by The Henry Schueler 41&9 Foundation in conjunction with Partnership for Cures, the St. Baldrick's Foundation, US National Cancer Institute (NCI) grant RC4CA156329, US National Institutes of Health (NIH) grants CA21765 and U01 GM92666, the American Association for Cancer Research (AACR) Gertrude B. Elion Cancer Research Award and the American Lebanese and Syrian Associated Charities (ALSAC) of SJCRH. Support was also provided by NCI grants to the Children's Oncology Group, including CA98543, CA98413 and CA114766. L.H. was supported by the Swedish Research Council. S.P.H. is the Ergen Family Chair in Pediatric Cancer. M.L.L. is a Clinical Scholar in the Leukemia Lymphoma Society and supported by the Frank A. Campini Foundation. C.G.M. is a Pew Scholar in the Biomedical Sciences and a St. Baldrick's Scholar. M.L.L. and E.D.-F. were supported by the Team Connor Foundation, and S.N.P. was supported by 5R25CA023944 from NCI. This paper is dedicated to Henry 'Hank' Schueler who died from complications of hypodiploid ALL and whose Foundation is dedicated to finding a cure for hypodiploid ALL in his memory and to James B. Nachman who was instrumental in the genesis of this project and who recently passed away.
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Author notes
- Samir N Patel & Susan L Heatley
Present address: Present addresses: Weill Cornell Medical College, Cornell University, New York, New York, USA (S.N.P.) and Human Immunology, Centre for Cancer Biology, SA Pathology, Adelaide, South Australia, Australia (S.L.H.)., - Linda Holmfeldt and Lei Wei: These authors contributed equally to this work.
- Department of Pathology, Ohio State University, Columbus, Ohio, USA.
Authors and Affiliations
- Department of Pathology, St. Jude Children's Research Hospital, Memphis, Tennessee, USA
Linda Holmfeldt, Lei Wei, Debbie Payne-Turner, Michelle Churchman, Anna Andersson, Shann-Ching Chen, Kelly McCastlain, Jing Ma, Samir N Patel, Susan L Heatley, Letha A Phillips, Guangchun Song, David W Ellison, Sheila A Shurtleff, Susana C Raimondi, James R Downing & Charles G Mullighan - Department of Pediatrics, University of California School of Medicine, San Francisco, California, USA
Ernesto Diaz-Flores & Mignon L Loh - Department of Oncology, St. Jude Children's Research Hospital, Memphis, Tennessee, USA
Michael Walsh, Ching-Hon Pui & Raul C Ribeiro - Department of Computational Biology and Bioinformatics, St. Jude Children's Research Hospital, Memphis, Tennessee, USA
Jinghui Zhang, Jared Becksfort, Gang Wu, Matthew Parker, Xiang Chen, Michael Rusch, Erin Hedlund, Robert Huether, Elaine R Mardis & Richard K Wilson - The Genome Institute at Washington University, St. Louis, Missouri, USA
Li Ding, Charles Lu, Robert S Fulton, Lucinda L Fulton, Yashodhan Tabib, David J Dooling, Kerri Ochoa, Elaine R Mardis & Richard K Wilson - Department of Genetics, Washington University School of Medicine, St. Louis, Missouri, USA
Li Ding, Robert S Fulton, Lucinda L Fulton & David J Dooling - Department of Clinical Genetics, Lund University Hospital, Lund, Sweden
Anna Andersson - Pediatric Cancer Genome Project, St. Jude Children's Research Hospital, Memphis, Tennessee, USA
John Easton, Kristy Boggs & Bhavin Vadodaria - Department of Pharmaceutical Sciences, St. Jude Children's Research Hospital, Memphis, Tennessee, USA
Christina Drenberg & Sharyn Baker - Department of Biostatistics, St. Jude Children's Research Hospital, Memphis, Tennessee, USA
Deqing Pei & Cheng Cheng - Princess Margaret Hospital/University Health Network, University of Toronto, Ontario, Canada
Mark Minden - Division of Haematology, Institute of Medical and Veterinary Science, Adelaide, South Australia, Australia
Ian D Lewis & L Bik To - Oncology/Haematology Unit, Princess Alexandra Hospital, Woolloongabba, Queensland, Australia
Paula Marlton - Department of Clinical Haematology and Bone Marrow Transplant, Royal Melbourne Hospital, Melbourne, Victoria, Australia
Andrew W Roberts - Section of Hematology/Oncology, University of Chicago Medicine, Chicago, Illinois, USA
Gordana Raca & Wendy Stock - The Hartwell Center for Bioinformatics and Biotechnology, St. Jude Children's Research Hospital, Memphis, Tennessee, USA
Geoffrey Neale - Department of Human and Animal Cell Cultures, Deutsche Sammlung von Mikroorganismen und Zellkulturen, Braunschweig, Germany
Hans G Drexler - Molecular Medicine Division, Walter and Eliza Hall Institute of Medical Research, Parkville, Victoria, Australia
Ross A Dickins - Department of Biostatistics, College of Medicine, University of Florida, Gainesville, Florida, USA
Meenakshi Devidas - Department of Genetics, University of Alabama at Birmingham, Birmingham, Alabama, USA
Andrew J Carroll - Department of Pathology, College of Medicine, Ohio State University Comprehensive Cancer Center, Columbus, Ohio, USA
Nyla A Heerema - Department of Laboratory Medicine, Seattle Children's Hospital, Seattle, Washington, USA
Brent Wood - Division of Hematologic Pathology, Johns Hopkins Hospital, Baltimore, Maryland, USA
Michael J Borowitz - Department of Pathology and Laboratory Medicine, Nationwide Children's Hospital, Columbus, Ohio, USA
Julie M Gastier-Foster - Department of Pediatrics, Ohio State University, Columbus, Ohio, USA
Julie M Gastier-Foster - Siteman Cancer Center, Washington University, St. Louis, Missouri, USA
Elaine R Mardis & Richard K Wilson - Section of Pediatric Hematology/Oncology/Bone Marrow Transplantation and Center for Cancer and Blood Disorders, University of Colorado Denver School of Medicine, Children's Hospital Colorado, Aurora, Colorado, USA
Stephen P Hunger
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Contributions
L.H., C.G.M., M.L.L. and S.P.H. designed the experiments. L.H. and D.P.-T. prepared patient samples and generated xenografts. L.H., E.D.-F., M.C., K.M., S.N.P., L.A.P. and S.L.H. performed biochemical analyses. C.D. and S.B. performed ex vivo drug studies. L.H. and J.M. analyzed SNP array data. L.H. and J.E. performed transcriptome sequencing. K.B. performed exome sequencing. L.H., D.P.-T. and B.V. performed sequencing validation. L.W., J.Z., L.D., J.B., Y.T., X.C. and C.L. analyzed sequence data. S.-C.C., A.A., G.N. and L.H. analyzed expression microarray data. M.R., E.H., M.P., G.W., R.H. and G.S. provided bioinformatic support. D.P., C.C. and M.D. performed statistical analyses. R.S.F. and L.L.F. supervised whole-genome sequencing data generation. D.J.D. supervised the automated analysis pipeline. S.C.R., A.J.C. and N.A.H. performed cytogenetic analyses. M.W., C.-H.P., M.M., I.D.L., L.B.T., P.M., A.W.R., G.R., W.S., M.L.L., J.M.G.-F., R.C.R., B.W., M.J.B. and S.P.H. provided clinical samples and data. D.W.E. performed pathological analyses. R.A.D. and H.G.D. provided important reagents. L.H. and C.G.M. wrote the manuscript. L.H., L.W., J.Z., L.D., D.P.-T., M.C., A.A., S.-C.C., K.M., J.B., J.M., G.W., G.S., J.E., M.P., X.C., M.R., E.H., C.L., R.S.F., L.L.F., D.J.D., K.O., S.A.S., C.-H.P., E.R.M., R.K.W., J.R.D. and C.G.M. are part of the St. Jude Children's Research Hospital–Washington University Pediatric Cancer Genome Project.
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Correspondence toCharles G Mullighan.
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Holmfeldt, L., Wei, L., Diaz-Flores, E. et al. The genomic landscape of hypodiploid acute lymphoblastic leukemia.Nat Genet 45, 242–252 (2013). https://doi.org/10.1038/ng.2532
- Received: 16 October 2012
- Accepted: 21 December 2012
- Published: 20 January 2013
- Issue Date: March 2013
- DOI: https://doi.org/10.1038/ng.2532