Identification of four novel associations for B-cell acute lymphoblastic leukaemia risk
There is increasing evidence for a strong inherited genetic basis of susceptibility to acute lymphoblastic leukaemia (ALL) in children. To identify new risk variants for B-cell ALL (B-ALL) we conducted a meta-analysis with four GWAS (genome-wide association studies), totalling 5321 cases and 16,666...
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Published in | Nature communications Vol. 10; no. 1; pp. 5348 - 9 |
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Main Authors | , , , , , , , , , , , , , , , , , , , , , , , , , |
Format | Journal Article |
Language | English |
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London
Nature Publishing Group UK
25.11.2019
Nature Publishing Group Nature Portfolio |
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Abstract | There is increasing evidence for a strong inherited genetic basis of susceptibility to acute lymphoblastic leukaemia (ALL) in children. To identify new risk variants for B-cell ALL (B-ALL) we conducted a meta-analysis with four GWAS (genome-wide association studies), totalling 5321 cases and 16,666 controls of European descent. We herein describe novel risk loci for B-ALL at 9q21.31 (rs76925697,
P
= 2.11 × 10
−8
), for high-hyperdiploid ALL at 5q31.1 (rs886285,
P
= 1.56 × 10
−8
) and 6p21.31 (rs210143 in
BAK1
,
P
=
2.21 × 10
−8
), and
ETV6-RUNX1
ALL at 17q21.32 (rs10853104 in
IGF2BP1
,
P
= 1.82 × 10
−8
). Particularly notable are the pleiotropic effects of the
BAK1
variant on multiple haematological malignancies and specific effects of
IGF2BP1
on
ETV6-RUNX1
ALL evidenced by both germline and somatic genomic analyses. Integration of GWAS signals with transcriptomic/epigenomic profiling and 3D chromatin interaction data for these leukaemia risk loci suggests deregulation of B-cell development and the cell cycle as central mechanisms governing genetic susceptibility to ALL.
B-cell acute lymphoblastic leukaemia (B-ALL) is a common childhood cancer. Here, the authors conducted a meta-analysis with four genome-wide association studies, totalling 5,321 cases and 16,666 controls of European descent, identifying B-ALL risk loci, whose integration with epigenomic profiling indicates cell-cycle and B-cell development deregulation as central mechanisms in B-ALL susceptibility, often in a subtype-specific fashion. |
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AbstractList | There is increasing evidence for a strong inherited genetic basis of susceptibility to acute lymphoblastic leukaemia (ALL) in children. To identify new risk variants for B-cell ALL (B-ALL) we conducted a meta-analysis with four GWAS (genome-wide association studies), totalling 5321 cases and 16,666 controls of European descent. We herein describe novel risk loci for B-ALL at 9q21.31 (rs76925697, P = 2.11 × 10
), for high-hyperdiploid ALL at 5q31.1 (rs886285, P = 1.56 × 10
) and 6p21.31 (rs210143 in BAK1, P = 2.21 × 10
), and ETV6-RUNX1 ALL at 17q21.32 (rs10853104 in IGF2BP1, P = 1.82 × 10
). Particularly notable are the pleiotropic effects of the BAK1 variant on multiple haematological malignancies and specific effects of IGF2BP1 on ETV6-RUNX1 ALL evidenced by both germline and somatic genomic analyses. Integration of GWAS signals with transcriptomic/epigenomic profiling and 3D chromatin interaction data for these leukaemia risk loci suggests deregulation of B-cell development and the cell cycle as central mechanisms governing genetic susceptibility to ALL. There is increasing evidence for a strong inherited genetic basis of susceptibility to acute lymphoblastic leukaemia (ALL) in children. To identify new risk variants for B-cell ALL (B-ALL) we conducted a meta-analysis with four GWAS (genome-wide association studies), totalling 5321 cases and 16,666 controls of European descent. We herein describe novel risk loci for B-ALL at 9q21.31 (rs76925697, P = 2.11 × 10-8), for high-hyperdiploid ALL at 5q31.1 (rs886285, P = 1.56 × 10-8) and 6p21.31 (rs210143 in BAK1, P = 2.21 × 10-8), and ETV6-RUNX1 ALL at 17q21.32 (rs10853104 in IGF2BP1, P = 1.82 × 10-8). Particularly notable are the pleiotropic effects of the BAK1 variant on multiple haematological malignancies and specific effects of IGF2BP1 on ETV6-RUNX1 ALL evidenced by both germline and somatic genomic analyses. Integration of GWAS signals with transcriptomic/epigenomic profiling and 3D chromatin interaction data for these leukaemia risk loci suggests deregulation of B-cell development and the cell cycle as central mechanisms governing genetic susceptibility to ALL.There is increasing evidence for a strong inherited genetic basis of susceptibility to acute lymphoblastic leukaemia (ALL) in children. To identify new risk variants for B-cell ALL (B-ALL) we conducted a meta-analysis with four GWAS (genome-wide association studies), totalling 5321 cases and 16,666 controls of European descent. We herein describe novel risk loci for B-ALL at 9q21.31 (rs76925697, P = 2.11 × 10-8), for high-hyperdiploid ALL at 5q31.1 (rs886285, P = 1.56 × 10-8) and 6p21.31 (rs210143 in BAK1, P = 2.21 × 10-8), and ETV6-RUNX1 ALL at 17q21.32 (rs10853104 in IGF2BP1, P = 1.82 × 10-8). Particularly notable are the pleiotropic effects of the BAK1 variant on multiple haematological malignancies and specific effects of IGF2BP1 on ETV6-RUNX1 ALL evidenced by both germline and somatic genomic analyses. Integration of GWAS signals with transcriptomic/epigenomic profiling and 3D chromatin interaction data for these leukaemia risk loci suggests deregulation of B-cell development and the cell cycle as central mechanisms governing genetic susceptibility to ALL. There is increasing evidence for a strong inherited genetic basis of susceptibility to acute lymphoblastic leukaemia (ALL) in children. To identify new risk variants for B-cell ALL (B-ALL) we conducted a meta-analysis with four GWAS (genome-wide association studies), totalling 5321 cases and 16,666 controls of European descent. We herein describe novel risk loci for B-ALL at 9q21.31 (rs76925697, P = 2.11 × 10−8), for high-hyperdiploid ALL at 5q31.1 (rs886285, P = 1.56 × 10−8) and 6p21.31 (rs210143 in BAK1, P = 2.21 × 10−8), and ETV6-RUNX1 ALL at 17q21.32 (rs10853104 in IGF2BP1, P = 1.82 × 10−8). Particularly notable are the pleiotropic effects of the BAK1 variant on multiple haematological malignancies and specific effects of IGF2BP1 on ETV6-RUNX1 ALL evidenced by both germline and somatic genomic analyses. Integration of GWAS signals with transcriptomic/epigenomic profiling and 3D chromatin interaction data for these leukaemia risk loci suggests deregulation of B-cell development and the cell cycle as central mechanisms governing genetic susceptibility to ALL. There is increasing evidence for a strong inherited genetic basis of susceptibility to acute lymphoblastic leukaemia (ALL) in children. To identify new risk variants for B-cell ALL (B-ALL) we conducted a meta-analysis with four GWAS (genome-wide association studies), totalling 5321 cases and 16,666 controls of European descent. We herein describe novel risk loci for B-ALL at 9q21.31 (rs76925697, P = 2.11 × 10 −8 ), for high-hyperdiploid ALL at 5q31.1 (rs886285, P = 1.56 × 10 −8 ) and 6p21.31 (rs210143 in BAK1 , P = 2.21 × 10 −8 ), and ETV6-RUNX1 ALL at 17q21.32 (rs10853104 in IGF2BP1 , P = 1.82 × 10 −8 ). Particularly notable are the pleiotropic effects of the BAK1 variant on multiple haematological malignancies and specific effects of IGF2BP1 on ETV6-RUNX1 ALL evidenced by both germline and somatic genomic analyses. Integration of GWAS signals with transcriptomic/epigenomic profiling and 3D chromatin interaction data for these leukaemia risk loci suggests deregulation of B-cell development and the cell cycle as central mechanisms governing genetic susceptibility to ALL. B-cell acute lymphoblastic leukaemia (B-ALL) is a common childhood cancer. Here, the authors conducted a meta-analysis with four genome-wide association studies, totalling 5,321 cases and 16,666 controls of European descent, identifying B-ALL risk loci, whose integration with epigenomic profiling indicates cell-cycle and B-cell development deregulation as central mechanisms in B-ALL susceptibility, often in a subtype-specific fashion. B-cell acute lymphoblastic leukaemia (B-ALL) is a common childhood cancer. Here, the authors conducted a meta-analysis with four genome-wide association studies, totalling 5,321 cases and 16,666 controls of European descent, identifying B-ALL risk loci, whose integration with epigenomic profiling indicates cell-cycle and B-cell development deregulation as central mechanisms in B-ALL susceptibility, often in a subtype-specific fashion. There is increasing evidence for a strong inherited genetic basis of susceptibility to acute lymphoblastic leukaemia (ALL) in children. To identify new risk variants for B-cell ALL (B-ALL) we conducted a meta-analysis with four GWAS (genome-wide association studies), totalling 5321 cases and 16,666 controls of European descent. We herein describe novel risk loci for B-ALL at 9q21.31 (rs76925697, P = 2.11 × 10 −8 ), for high-hyperdiploid ALL at 5q31.1 (rs886285, P = 1.56 × 10 −8 ) and 6p21.31 (rs210143 in BAK1 , P = 2.21 × 10 −8 ), and ETV6-RUNX1 ALL at 17q21.32 (rs10853104 in IGF2BP1 , P = 1.82 × 10 −8 ). Particularly notable are the pleiotropic effects of the BAK1 variant on multiple haematological malignancies and specific effects of IGF2BP1 on ETV6-RUNX1 ALL evidenced by both germline and somatic genomic analyses. Integration of GWAS signals with transcriptomic/epigenomic profiling and 3D chromatin interaction data for these leukaemia risk loci suggests deregulation of B-cell development and the cell cycle as central mechanisms governing genetic susceptibility to ALL. |
ArticleNumber | 5348 |
Author | Bartram, Claus R. Yang, Wentao Evans, William E. Stanulla, Martin Yeoh, Allen Yang, Wenjian Li, Chunliang Qian, Maoxiang Mullighan, Charles G. Loh, Mignon L. Houlston, Richard S. Relling, Mary V. Kinnersley, Ben Vora, Ajay Allan, James Pui, Ching-Hon Schrappe, Martin Yang, Jun J. Zimmerman, Martin Vijayakrishnan, Jayaram Law, Philip J. Hunger, Stephen P. Studd, James B. Broderick, Peter Moorman, Anthony Raetz, Elizabeth A. |
Author_xml | – sequence: 1 givenname: Jayaram orcidid: 0000-0002-8284-2249 surname: Vijayakrishnan fullname: Vijayakrishnan, Jayaram organization: Division of Genetics and Epidemiology, The Institute of Cancer Research – sequence: 2 givenname: Maoxiang surname: Qian fullname: Qian, Maoxiang organization: Department of Pharmaceutical Sciences, St. Jude Children’s Research Hospital, Children’s Hospital and Institutes of Biomedical Sciences, Fudan University – sequence: 3 givenname: James B. orcidid: 0000-0002-7157-754X surname: Studd fullname: Studd, James B. organization: Division of Genetics and Epidemiology, The Institute of Cancer Research – sequence: 4 givenname: Wenjian surname: Yang fullname: Yang, Wenjian organization: Department of Pharmaceutical Sciences, St. Jude Children’s Research Hospital – sequence: 5 givenname: Ben orcidid: 0000-0003-1783-6296 surname: Kinnersley fullname: Kinnersley, Ben organization: Division of Genetics and Epidemiology, The Institute of Cancer Research – sequence: 6 givenname: Philip J. orcidid: 0000-0001-9663-4611 surname: Law fullname: Law, Philip J. organization: Division of Genetics and Epidemiology, The Institute of Cancer Research – sequence: 7 givenname: Peter orcidid: 0000-0002-8348-5829 surname: Broderick fullname: Broderick, Peter organization: Division of Genetics and Epidemiology, The Institute of Cancer Research – sequence: 8 givenname: Elizabeth A. surname: Raetz fullname: Raetz, Elizabeth A. organization: Division of Pediatric Hematology and Oncology, New York University Langone Health – sequence: 9 givenname: James surname: Allan fullname: Allan, James organization: Northern Institute for Cancer Research, Newcastle University – sequence: 10 givenname: Ching-Hon orcidid: 0000-0003-0303-5658 surname: Pui fullname: Pui, Ching-Hon organization: Department of Oncology, St. Jude Children’s Research Hospital, Hematological Malignancies Program, St. Jude Children’s Research Hospital – sequence: 11 givenname: Ajay surname: Vora fullname: Vora, Ajay organization: Great Ormond Hospital – sequence: 12 givenname: William E. orcidid: 0000-0002-9333-5322 surname: Evans fullname: Evans, William E. organization: Department of Pharmaceutical Sciences, St. Jude Children’s Research Hospital, Hematological Malignancies Program, St. Jude Children’s Research Hospital – sequence: 13 givenname: Anthony surname: Moorman fullname: Moorman, Anthony organization: Wolfson Childhood Cancer Research Centre, Northern Institute for Cancer Research, Newcastle University – sequence: 14 givenname: Allen surname: Yeoh fullname: Yeoh, Allen organization: Centre for Translational Research in Acute Leukaemia, Department of Paediatrics, Yong Loo Lin School of Medicine, National University of Singapore, VIVA–University Children’s Cancer Centre, Khoo Teck Puat–National University Children’s Medical Institute, National University Hospital, National University Health System – sequence: 15 givenname: Wentao surname: Yang fullname: Yang, Wentao organization: Department of Pharmaceutical Sciences, St. Jude Children’s Research Hospital – sequence: 16 givenname: Chunliang orcidid: 0000-0002-5938-5510 surname: Li fullname: Li, Chunliang organization: Department of Tumor Cell Biology, St. Jude Children’s Research Hospital – sequence: 17 givenname: Claus R. surname: Bartram fullname: Bartram, Claus R. organization: Institute of Human Genetics, University Hospital – sequence: 18 givenname: Charles G. orcidid: 0000-0002-1871-1850 surname: Mullighan fullname: Mullighan, Charles G. organization: Department of Oncology, St. Jude Children’s Research Hospital, Hematological Malignancies Program, St. Jude Children’s Research Hospital, Department of Pathology, St. Jude Children’s Research Hospital – sequence: 19 givenname: Martin surname: Zimmerman fullname: Zimmerman, Martin organization: Department of Paediatric Haematology and Oncology, Hannover Medical School – sequence: 20 givenname: Stephen P. surname: Hunger fullname: Hunger, Stephen P. organization: Department of Paediatrics and Centre for Childhood Cancer Research, Children’s Hospital of Philadelphia and the Perelman School of Medicine at The University of Pennsylvania – sequence: 21 givenname: Martin surname: Schrappe fullname: Schrappe, Martin organization: Department of Paediatrics, University Medical Centre Schleswig-Holstein – sequence: 22 givenname: Mary V. surname: Relling fullname: Relling, Mary V. organization: Department of Pharmaceutical Sciences, St. Jude Children’s Research Hospital, Hematological Malignancies Program, St. Jude Children’s Research Hospital – sequence: 23 givenname: Martin surname: Stanulla fullname: Stanulla, Martin organization: Department of Paediatric Haematology and Oncology, Hannover Medical School – sequence: 24 givenname: Mignon L. surname: Loh fullname: Loh, Mignon L. organization: Department of Pediatrics, Benioff Children’s Hospital and the Helen Diller Family Comprehensive Cancer Center, University of California San Francisco – sequence: 25 givenname: Richard S. orcidid: 0000-0002-5268-0242 surname: Houlston fullname: Houlston, Richard S. email: richard.houlston@icr.ac.uk organization: Division of Genetics and Epidemiology, The Institute of Cancer Research – sequence: 26 givenname: Jun J. orcidid: 0000-0002-0770-9659 surname: Yang fullname: Yang, Jun J. email: Jun.Yang@stjude.org organization: Department of Pharmaceutical Sciences, St. Jude Children’s Research Hospital, Department of Oncology, St. Jude Children’s Research Hospital, Hematological Malignancies Program, St. Jude Children’s Research Hospital |
BackLink | https://www.ncbi.nlm.nih.gov/pubmed/31767839$$D View this record in MEDLINE/PubMed |
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Snippet | There is increasing evidence for a strong inherited genetic basis of susceptibility to acute lymphoblastic leukaemia (ALL) in children. To identify new risk... B-cell acute lymphoblastic leukaemia (B-ALL) is a common childhood cancer. Here, the authors conducted a meta-analysis with four genome-wide association... |
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SubjectTerms | 45 45/43 631/208/205/2138 631/67/1990/283/2125 631/67/2332 692/4028/67/1990/283/2125 Acute lymphoblastic leukemia bcl-2 Homologous Antagonist-Killer Protein - genetics Blood cancer Cell cycle Child Chromatin Chromosome 9 Core Binding Factor Alpha 2 Subunit - genetics Deregulation Epigenomics Genetic Predisposition to Disease - genetics Genome-wide association studies Genome-Wide Association Study Genomes Genomic analysis Humanities and Social Sciences Humans Leukemia Loci Lymphocytes B multidisciplinary Oncogene Proteins, Fusion - genetics Polymorphism, Single Nucleotide Precursor B-Cell Lymphoblastic Leukemia-Lymphoma - genetics Precursor B-Cell Lymphoblastic Leukemia-Lymphoma - pathology Risk Risk Factors RNA-Binding Proteins - genetics Runx1 protein Science Science (multidisciplinary) Transcriptome |
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Title | Identification of four novel associations for B-cell acute lymphoblastic leukaemia risk |
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