151
|
Moghadam MH, Movafagh A, Omrani M, Ghanati K, Hashemi M, Poursafavi F, Darvish H, Abdolahi DZ, Gholami M, Heidari Rostamy MR, Safari S, HaghNejad L, Darehgazani R, Naeini NS, Motlagh MG, Amani D. Identification of homogeneously staining regions in leukemia patients. JOURNAL OF RESEARCH IN MEDICAL SCIENCES : THE OFFICIAL JOURNAL OF ISFAHAN UNIVERSITY OF MEDICAL SCIENCES 2013; 18:363-5. [PMID: 24124438 PMCID: PMC3793386] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 01/25/2012] [Revised: 07/13/2012] [Accepted: 04/04/2013] [Indexed: 11/18/2022]
Abstract
Homogeneously staining regions (HSR) or double minute chromosomes (dmin) are autonomously replicating extra-chromosomal elements that are frequently associated with gene amplification in a variety of cancers. The diagnosis of leukemia patients was based on characterization of the leukemic cells obtained from bone marrow cytogenetics. This study report two cases, one with Acute Myeloblastic Leukemia without maturation (AML-M1), aged 23-year-old female, and the other with chronic myelogenous leukemia (CML)-blast crisis, a 28-year-old female associated with double minute chromosomes. Most cases of acute myeloid leukemia with dmin in the literature (including our cases) have been diagnosed as having acute myeloid leukemia.
Collapse
Affiliation(s)
| | - Abolfazl Movafagh
- Department of Medical Genetics, School of Medicine, Shahid Beheshti University of Medical Sciences, Tehran, Iran,Address for correspondence: Dr. Abolfazl Movafagh, Department of Medical Genetics, School of Medicine, Shahid Beheshti University of Medical Sciences, Tehran, Iran. E-mail:
| | - MirDavood Omrani
- Department of Medical Genetics, School of Medicine, Shahid Beheshti University of Medical Sciences, Tehran, Iran
| | - Kiandokht Ghanati
- Research Department of The International Branch of Shahid Beheshti University of Medical Sciences, Tehran, Iran
| | - Mehrdad Hashemi
- Department of Genetics, Islamic Azad University, Tehran Medical Branch, Tehran, Iran
| | - Farhikhteh Poursafavi
- Department of Medical Genetics, School of Medicine, Shahid Beheshti University of Medical Sciences, Tehran, Iran
| | - Hossein Darvish
- Department of Medical Genetics, School of Medicine, Shahid Beheshti University of Medical Sciences, Tehran, Iran
| | - Davood Zare Abdolahi
- Department of Medical Genetics, School of Medicine, Shahid Beheshti University of Medical Sciences, Tehran, Iran
| | - Milad Gholami
- Department of Medical Genetics, School of Medicine, Shahid Beheshti University of Medical Sciences, Tehran, Iran
| | | | - Shamsi Safari
- Department of Medical Genetics, School of Medicine, Shahid Beheshti University of Medical Sciences, Tehran, Iran
| | - Leyla HaghNejad
- Department of Medical Genetics, School of Medicine, Shahid Beheshti University of Medical Sciences, Tehran, Iran
| | - Reyhaneh Darehgazani
- Department of Medical Genetics, School of Medicine, Shahid Beheshti University of Medical Sciences, Tehran, Iran
| | - Niloofar Safavi Naeini
- Department of Medical Genetics, School of Medicine, Shahid Beheshti University of Medical Sciences, Tehran, Iran
| | | | - Davar Amani
- Department of Immunology, School of Medicine, Shahid Beheshti University of Medical Sciences, Tehran, Iran
| |
Collapse
|
153
|
Pugh TJ, Morozova O, Attiyeh EF, Asgharzadeh S, Wei JS, Auclair D, Carter SL, Cibulskis K, Hanna M, Kiezun A, Kim J, Lawrence MS, Lichenstein L, McKenna A, Pedamallu CS, Ramos AH, Shefler E, Sivachenko A, Sougnez C, Stewart C, Ally A, Birol I, Chiu R, Corbett RD, Hirst M, Jackman SD, Kamoh B, Khodabakshi AH, Krzywinski M, Lo A, Moore RA, Mungall KL, Qian J, Tam A, Thiessen N, Zhao Y, Cole KA, Diamond M, Diskin SJ, Mosse YP, Wood AC, Ji L, Sposto R, Badgett T, London WB, Moyer Y, Gastier-Foster JM, Smith MA, Auvil JMG, Gerhard DS, Hogarty MD, Jones SJM, Lander ES, Gabriel SB, Getz G, Seeger RC, Khan J, Marra MA, Meyerson M, Maris JM. The genetic landscape of high-risk neuroblastoma. Nat Genet 2013; 45:279-84. [PMID: 23334666 PMCID: PMC3682833 DOI: 10.1038/ng.2529] [Citation(s) in RCA: 827] [Impact Index Per Article: 75.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/27/2012] [Accepted: 12/20/2012] [Indexed: 12/11/2022]
Abstract
Neuroblastoma is a malignancy of the developing sympathetic nervous system that often presents with widespread metastatic disease, resulting in survival rates of less than 50%. To determine the spectrum of somatic mutation in high-risk neuroblastoma, we studied 240 affected individuals (cases) using a combination of whole-exome, genome and transcriptome sequencing as part of the Therapeutically Applicable Research to Generate Effective Treatments (TARGET) initiative. Here we report a low median exonic mutation frequency of 0.60 per Mb (0.48 nonsilent) and notably few recurrently mutated genes in these tumors. Genes with significant somatic mutation frequencies included ALK (9.2% of cases), PTPN11 (2.9%), ATRX (2.5%, and an additional 7.1% had focal deletions), MYCN (1.7%, causing a recurrent p.Pro44Leu alteration) and NRAS (0.83%). Rare, potentially pathogenic germline variants were significantly enriched in ALK, CHEK2, PINK1 and BARD1. The relative paucity of recurrent somatic mutations in neuroblastoma challenges current therapeutic strategies that rely on frequently altered oncogenic drivers.
Collapse
Affiliation(s)
- Trevor J. Pugh
- The Broad Institute of MIT and Harvard, Cambridge, MA, 02142, USA
- Harvard Medical School, Boston, MA, 02115, USA
- Department of Medical Oncology, Dana-Farber Cancer Institute, Boston, MA, 02115, USA
| | - Olena Morozova
- Genome Sciences Centre, British Columbia Cancer Agency, University of British Columbia, Vancouver, BC, V5Z 4S6, Canada
- University of British Columbia, Vancouver, BC, V6T 1Z4, Canada
| | - Edward F. Attiyeh
- Division of Oncology, The Children’s Hospital of Philadelphia, Philadelphia, PA, 19104, USA
- Center for Childhood Cancer Research, The Children’s Hospital of Philadelphia, Philadelphia, PA, 19104, USA
- Department of Pediatrics, Perelman School of Medicine at the University of Pennsylvania, Philadelphia, PA, 19104, USA
| | - Shahab Asgharzadeh
- Division of Hematology/Oncology, The Children’s Hospital Los Angeles, CA, 90027
- Saban Research Institute, The Children’s Hospital Los Angeles, CA, 90027
- Keck School of Medicine, University of Southern California; Los Angeles, CA, 90007, USA
| | - Jun S. Wei
- Pediatric Oncology Branch, Oncogenomics Section, Center for Cancer Research, National Institutes of Health, Gaithersburg, MD, 20877, USA
| | - Daniel Auclair
- The Broad Institute of MIT and Harvard, Cambridge, MA, 02142, USA
| | - Scott L. Carter
- The Broad Institute of MIT and Harvard, Cambridge, MA, 02142, USA
| | | | - Megan Hanna
- The Broad Institute of MIT and Harvard, Cambridge, MA, 02142, USA
- Department of Medical Oncology, Dana-Farber Cancer Institute, Boston, MA, 02115, USA
| | - Adam Kiezun
- The Broad Institute of MIT and Harvard, Cambridge, MA, 02142, USA
| | - Jaegil Kim
- The Broad Institute of MIT and Harvard, Cambridge, MA, 02142, USA
| | | | - Lee Lichenstein
- The Broad Institute of MIT and Harvard, Cambridge, MA, 02142, USA
| | - Aaron McKenna
- The Broad Institute of MIT and Harvard, Cambridge, MA, 02142, USA
| | - Chandra Sekhar Pedamallu
- The Broad Institute of MIT and Harvard, Cambridge, MA, 02142, USA
- Department of Medical Oncology, Dana-Farber Cancer Institute, Boston, MA, 02115, USA
| | - Alex H. Ramos
- The Broad Institute of MIT and Harvard, Cambridge, MA, 02142, USA
- Harvard Medical School, Boston, MA, 02115, USA
| | - Erica Shefler
- The Broad Institute of MIT and Harvard, Cambridge, MA, 02142, USA
| | | | - Carrie Sougnez
- The Broad Institute of MIT and Harvard, Cambridge, MA, 02142, USA
| | - Chip Stewart
- The Broad Institute of MIT and Harvard, Cambridge, MA, 02142, USA
| | - Adrian Ally
- Genome Sciences Centre, British Columbia Cancer Agency, University of British Columbia, Vancouver, BC, V5Z 4S6, Canada
| | - Inanc Birol
- Genome Sciences Centre, British Columbia Cancer Agency, University of British Columbia, Vancouver, BC, V5Z 4S6, Canada
| | - Readman Chiu
- Genome Sciences Centre, British Columbia Cancer Agency, University of British Columbia, Vancouver, BC, V5Z 4S6, Canada
| | - Richard D. Corbett
- Genome Sciences Centre, British Columbia Cancer Agency, University of British Columbia, Vancouver, BC, V5Z 4S6, Canada
| | - Martin Hirst
- Genome Sciences Centre, British Columbia Cancer Agency, University of British Columbia, Vancouver, BC, V5Z 4S6, Canada
| | - Shaun D. Jackman
- Genome Sciences Centre, British Columbia Cancer Agency, University of British Columbia, Vancouver, BC, V5Z 4S6, Canada
| | - Baljit Kamoh
- Genome Sciences Centre, British Columbia Cancer Agency, University of British Columbia, Vancouver, BC, V5Z 4S6, Canada
| | - Alireza Hadj Khodabakshi
- Genome Sciences Centre, British Columbia Cancer Agency, University of British Columbia, Vancouver, BC, V5Z 4S6, Canada
| | - Martin Krzywinski
- Genome Sciences Centre, British Columbia Cancer Agency, University of British Columbia, Vancouver, BC, V5Z 4S6, Canada
| | - Allan Lo
- Genome Sciences Centre, British Columbia Cancer Agency, University of British Columbia, Vancouver, BC, V5Z 4S6, Canada
| | - Richard A. Moore
- Genome Sciences Centre, British Columbia Cancer Agency, University of British Columbia, Vancouver, BC, V5Z 4S6, Canada
| | - Karen L. Mungall
- Genome Sciences Centre, British Columbia Cancer Agency, University of British Columbia, Vancouver, BC, V5Z 4S6, Canada
| | - Jenny Qian
- Genome Sciences Centre, British Columbia Cancer Agency, University of British Columbia, Vancouver, BC, V5Z 4S6, Canada
| | - Angela Tam
- Genome Sciences Centre, British Columbia Cancer Agency, University of British Columbia, Vancouver, BC, V5Z 4S6, Canada
| | - Nina Thiessen
- Genome Sciences Centre, British Columbia Cancer Agency, University of British Columbia, Vancouver, BC, V5Z 4S6, Canada
| | - Yongjun Zhao
- Genome Sciences Centre, British Columbia Cancer Agency, University of British Columbia, Vancouver, BC, V5Z 4S6, Canada
| | - Kristina A. Cole
- Division of Oncology, The Children’s Hospital of Philadelphia, Philadelphia, PA, 19104, USA
- Center for Childhood Cancer Research, The Children’s Hospital of Philadelphia, Philadelphia, PA, 19104, USA
- Department of Pediatrics, Perelman School of Medicine at the University of Pennsylvania, Philadelphia, PA, 19104, USA
| | - Maura Diamond
- Division of Oncology, The Children’s Hospital of Philadelphia, Philadelphia, PA, 19104, USA
- Center for Childhood Cancer Research, The Children’s Hospital of Philadelphia, Philadelphia, PA, 19104, USA
- Department of Pediatrics, Perelman School of Medicine at the University of Pennsylvania, Philadelphia, PA, 19104, USA
| | - Sharon J. Diskin
- Division of Oncology, The Children’s Hospital of Philadelphia, Philadelphia, PA, 19104, USA
- Center for Childhood Cancer Research, The Children’s Hospital of Philadelphia, Philadelphia, PA, 19104, USA
- Department of Pediatrics, Perelman School of Medicine at the University of Pennsylvania, Philadelphia, PA, 19104, USA
| | - Yael P. Mosse
- Division of Oncology, The Children’s Hospital of Philadelphia, Philadelphia, PA, 19104, USA
- Center for Childhood Cancer Research, The Children’s Hospital of Philadelphia, Philadelphia, PA, 19104, USA
- Department of Pediatrics, Perelman School of Medicine at the University of Pennsylvania, Philadelphia, PA, 19104, USA
| | - Andrew C. Wood
- Division of Oncology, The Children’s Hospital of Philadelphia, Philadelphia, PA, 19104, USA
- Center for Childhood Cancer Research, The Children’s Hospital of Philadelphia, Philadelphia, PA, 19104, USA
- Department of Pediatrics, Perelman School of Medicine at the University of Pennsylvania, Philadelphia, PA, 19104, USA
| | - Lingyun Ji
- Division of Hematology/Oncology, The Children’s Hospital Los Angeles, CA, 90027
- Saban Research Institute, The Children’s Hospital Los Angeles, CA, 90027
- Keck School of Medicine, University of Southern California; Los Angeles, CA, 90007, USA
| | - Richard Sposto
- Division of Hematology/Oncology, The Children’s Hospital Los Angeles, CA, 90027
- Saban Research Institute, The Children’s Hospital Los Angeles, CA, 90027
- Keck School of Medicine, University of Southern California; Los Angeles, CA, 90007, USA
| | - Thomas Badgett
- Pediatric Oncology Branch, Oncogenomics Section, Center for Cancer Research, National Institutes of Health, Gaithersburg, MD, 20877, USA
| | - Wendy B. London
- Harvard Medical School, Boston, MA, 02115, USA
- Children’s Hospital Boston / Dana-Farber Cancer Institute and Children’s Oncology Group, Boston, MA, 02215, USA
| | - Yvonne Moyer
- Nationwide Children’s Hospital, Columbus, OH, 43205, USA
- The Ohio State University College of Medicine, Columbus, OH, 43210, USA
| | - Julie M. Gastier-Foster
- Nationwide Children’s Hospital, Columbus, OH, 43205, USA
- The Ohio State University College of Medicine, Columbus, OH, 43210, USA
| | - Malcolm A. Smith
- Cancer Therapy Evaluation Program, National Cancer Institute, Bethesda, MD, 20892, USA
| | | | - Daniela S. Gerhard
- Office of Cancer Genomics, National Cancer Institute, Bethesda, MD, 20892, USA
| | - Michael D. Hogarty
- Division of Oncology, The Children’s Hospital of Philadelphia, Philadelphia, PA, 19104, USA
- Center for Childhood Cancer Research, The Children’s Hospital of Philadelphia, Philadelphia, PA, 19104, USA
- Department of Pediatrics, Perelman School of Medicine at the University of Pennsylvania, Philadelphia, PA, 19104, USA
| | - Steven J. M. Jones
- Genome Sciences Centre, British Columbia Cancer Agency, University of British Columbia, Vancouver, BC, V5Z 4S6, Canada
| | - Eric S. Lander
- The Broad Institute of MIT and Harvard, Cambridge, MA, 02142, USA
| | | | - Gad Getz
- The Broad Institute of MIT and Harvard, Cambridge, MA, 02142, USA
| | - Robert C. Seeger
- Division of Hematology/Oncology, The Children’s Hospital Los Angeles, CA, 90027
- Saban Research Institute, The Children’s Hospital Los Angeles, CA, 90027
- Keck School of Medicine, University of Southern California; Los Angeles, CA, 90007, USA
| | - Javed Khan
- Pediatric Oncology Branch, Oncogenomics Section, Center for Cancer Research, National Institutes of Health, Gaithersburg, MD, 20877, USA
| | - Marco A. Marra
- Genome Sciences Centre, British Columbia Cancer Agency, University of British Columbia, Vancouver, BC, V5Z 4S6, Canada
- University of British Columbia, Vancouver, BC, V6T 1Z4, Canada
| | - Matthew Meyerson
- The Broad Institute of MIT and Harvard, Cambridge, MA, 02142, USA
- Harvard Medical School, Boston, MA, 02115, USA
- Department of Medical Oncology, Dana-Farber Cancer Institute, Boston, MA, 02115, USA
| | - John M. Maris
- Division of Oncology, The Children’s Hospital of Philadelphia, Philadelphia, PA, 19104, USA
- Center for Childhood Cancer Research, The Children’s Hospital of Philadelphia, Philadelphia, PA, 19104, USA
- Department of Pediatrics, Perelman School of Medicine at the University of Pennsylvania, Philadelphia, PA, 19104, USA
- Abramson Family Cancer Research Institute, Philadelphia, PA, 19104, USA
| |
Collapse
|