Genome-wide association study identifies multiple susceptibility loci for diffuse large B cell lymphoma
Jazyk angličtina Země Spojené státy americké Médium print-electronic
Typ dokumentu časopisecké články, metaanalýza, Research Support, N.I.H., Intramural
Grantová podpora
UL1 TR000430
NCATS NIH HHS - United States
P30 CA016672
NCI NIH HHS - United States
P01 CA087969
NCI NIH HHS - United States
K07 CA115687
NCI NIH HHS - United States
P42 ES004705
NIEHS NIH HHS - United States
P30 CA086862
NCI NIH HHS - United States
R01 CA154643
NCI NIH HHS - United States
UL1 TR000135
NCATS NIH HHS - United States
Intramural NIH HHS - United States
UM1 CA167552
NCI NIH HHS - United States
R01 CA149445
NCI NIH HHS - United States
001
World Health Organization - International
R01 CA098122
NCI NIH HHS - United States
U01 HG007033
NHGRI NIH HHS - United States
P30 CA008748
NCI NIH HHS - United States
R01 CA129539
NCI NIH HHS - United States
R25 CA098566
NCI NIH HHS - United States
R01 CA098661
NCI NIH HHS - United States
UM1 CA186107
NCI NIH HHS - United States
P30 CA015083
NCI NIH HHS - United States
R01 CA092153
NCI NIH HHS - United States
P30 CA033572
NCI NIH HHS - United States
P50 CA097274
NCI NIH HHS - United States
PubMed
25261932
PubMed Central
PMC4213349
DOI
10.1038/ng.3105
PII: ng.3105
Knihovny.cz E-zdroje
- MeSH
- běloši genetika MeSH
- celogenomová asociační studie MeSH
- difúzní velkobuněčný B-lymfom genetika MeSH
- genetická predispozice k nemoci genetika MeSH
- genetické lokusy genetika MeSH
- genotyp MeSH
- jednonukleotidový polymorfismus genetika MeSH
- lidé MeSH
- lokus kvantitativního znaku genetika MeSH
- mapování chromozomů MeSH
- pravděpodobnostní funkce MeSH
- výpočetní biologie MeSH
- Check Tag
- lidé MeSH
- Publikační typ
- časopisecké články MeSH
- metaanalýza MeSH
- Research Support, N.I.H., Intramural MeSH
Diffuse large B cell lymphoma (DLBCL) is the most common lymphoma subtype and is clinically aggressive. To identify genetic susceptibility loci for DLBCL, we conducted a meta-analysis of 3 new genome-wide association studies (GWAS) and 1 previous scan, totaling 3,857 cases and 7,666 controls of European ancestry, with additional genotyping of 9 promising SNPs in 1,359 cases and 4,557 controls. In our multi-stage analysis, five independent SNPs in four loci achieved genome-wide significance marked by rs116446171 at 6p25.3 (EXOC2; P = 2.33 × 10(-21)), rs2523607 at 6p21.33 (HLA-B; P = 2.40 × 10(-10)), rs79480871 at 2p23.3 (NCOA1; P = 4.23 × 10(-8)) and two independent SNPs, rs13255292 and rs4733601, at 8q24.21 (PVT1; P = 9.98 × 10(-13) and 3.63 × 10(-11), respectively). These data provide substantial new evidence for genetic susceptibility to this B cell malignancy and point to pathways involved in immune recognition and immune function in the pathogenesis of DLBCL.
] Unit of Infections and Cancer Barcelona Spain
Center for Chronic Immunodeficiency University Medical Center Freiburg Freiburg Germany
Centre Heni Becquerel Rouen France
Centre National de Génotypage Evry France
Danish Cancer Society Research Center Copenhagen Denmark
Department of Biomedical Science University of Cagliari Monserrato Italy
Department of Biostatistics University of Alabama at Birmingham Birmingham Alabama USA
Department of Biostatistics Yale School of Public Health New Haven Connecticut USA
Department of Cancer Etiology City of Hope Beckman Research Institute Duarte California USA
Department of Chronic Disease Prevention National Institute for Health and Welfare Helsinki Finland
Department of Environmental Health Sciences Yale School of Public Health New Haven Connecticut USA
Department of Epidemiology German Institute for Human Nutrition Potsdam Germany
Department of Epidemiology Harvard School of Public Health Boston Massachusetts USA
Department of Epidemiology MD Anderson Cancer Center Houston Texas USA
Department of Family Medicine and Public Health Sciences Wayne State University Detroit Michigan USA
Department of Health Sciences Research Mayo Clinic Rochester Minnesota USA
Department of Health Sciences University of York York UK
Department of Health Studies University of Chicago Chicago Illinois USA
Department of Hematology Centre Hospitalier Universitaire Henri Mondor Creteil France
Department of Internal Medicine Carver College of Medicine The University of Iowa Iowa City Iowa USA
Department of Medicine Mayo Clinic Rochester Minnesota USA
Department of Medicine Memorial Sloan Kettering Cancer Center New York New York USA
Department of Medicine Solna Karolinska Institutet Stockholm Sweden
Department of Pathology City of Hope National Medical Center Duarte California USA
Department of Pathology University of Melbourne Parkville Victoria Australia
Department of Public Health Clinical and Molecular Medicine University of Cagliari Monserrato Italy
Division of Biomedical Statistics and Informatics Mayo Clinic Jacksonville Florida USA
Division of Cancer Epidemiology and Genetics National Cancer Institute Bethesda Maryland USA
Division of Cancer Epidemiology German Cancer Research Center Heidelberg Germany
Division of Endocrinology Diabetes and Metabolism Ohio State University Columbus Ohio USA
Division of Public Health Sciences Fred Hutchinson Cancer Research Center Seattle Washington USA
Dongguk University Seoul Seoul South Korea
Epidemiology Research Program American Cancer Society Atlanta Georgia USA
Health Studies Sector Westat Rockville Maryland USA
Hematology Unit Ospedale Oncologico di Riferimento Regionale A Businco Cagliari Italy
Prince of Wales Clinical School University of New South Wales Sydney New South Wales Australia
School of Nursing and Human Sciences Dublin City University Dublin Ireland
School of Public Health Imperial College London London UK
Sydney School of Public Health University of Sydney Sydney New South Wales Australia
Tisch Cancer Institute Icahn School of Medicine at Mount Sinai New York New York USA
Winship Cancer Institute Emory University School of Medicine Atlanta Georgia USA
Zobrazit více v PubMed
Siegel R, Naishadham D, Jemal A. Cancer statistics, 2013. CA Cancer J Clin. 2013;63:11–30. PubMed
Flowers CR, Sinha R, Vose JM. Improving outcomes for patients with diffuse large B-cell lymphoma. CA Cancer J Clin. 2010;60:393–408. PubMed
Wang SS, et al. Family history of hematopoietic malignancies and risk of non-Hodgkin lymphoma (NHL): a pooled analysis of 10,211 cases and 11,905 controls from the International Lymphoma Epidemiology Consortium (InterLymph) Blood. 2007;109:3479–88. PubMed PMC
Goldin LR, Bjorkholm M, Kristinsson SY, Turesson I, Landgren O. Highly increased familial risks for specific lymphoma subtypes. Br J Haematol. 2009;146:91–4. PubMed PMC
Skibola CF, et al. Tumor necrosis factor (TNF) and lymphotoxin-alpha (LTA) polymorphisms and risk of non-Hodgkin lymphoma in the InterLymph Consortium. Am J Epidemiol. 2010;171:267–76. PubMed PMC
Skibola CF, et al. Genetic variants at 6p21.33 are associated with susceptibility to follicular lymphoma. Nat Genet. 2009;41:873–5. PubMed PMC
Conde L, et al. Genome-wide association study of follicular lymphoma identifies a risk locus at 6p21.32. Nat Genet. 2010;42:661–4. PubMed PMC
Smedby KE, et al. GWAS of follicular lymphoma reveals allelic heterogeneity at 6p21.32 and suggests shared genetic susceptibility with diffuse large B-cell lymphoma. PLoS Genet. 2011;7:e1001378. PubMed PMC
Vijai J, et al. Susceptibility Loci associated with specific and shared subtypes of lymphoid malignancies. PLoS genetics. 2013;9:e1003220. PubMed PMC
Tan DE, et al. Genome-wide association study of B cell non-Hodgkin lymphoma identifies 3q27 as a susceptibility locus in the Chinese population. Nat Genet. 2013;45:804–7. PubMed
Wang Z, et al. Improved imputation of common and uncommon SNPs with a new reference set. Nat Genet. 2012;44:6–7. PubMed PMC
Abecasis GR, et al. A map of human genome variation from population-scale sequencing. Nature. 2010;467:1061–73. PubMed PMC
Howie BN, Donnelly P, Marchini J. A flexible and accurate genotype imputation method for the next generation of genome-wide association studies. PLoS Genet. 2009;5:e1000529. PubMed PMC
Wang SS, et al. Human leukocyte antigen class I and II alleles in non-Hodgkin lymphoma etiology. Blood. 2010;115:4820–3. PubMed PMC
Ward LD, Kellis M. HaploReg: a resource for exploring chromatin states, conservation, and regulatory motif alterations within sets of genetically linked variants. Nucleic Acids Res. 2012;40:D930–4. PubMed PMC
Barenboim M, Manke T. ChroMoS: an integrated web tool for SNP classification, prioritization and functional interpretation. Bioinformatics. 2013;29:2197–8. PubMed PMC
Ernst J, et al. Mapping and analysis of chromatin state dynamics in nine human cell types. Nature. 2011;473:43–9. PubMed PMC
Mukerji J, Olivieri KC, Misra V, Agopian KA, Gabuzda D. Proteomic analysis of HIV-1 Nef cellular binding partners reveals a role for exocyst complex proteins in mediating enhancement of intercellular nanotube formation. Retrovirology. 2012;9:33. PubMed PMC
Mantovani A, Balkwill F. RalB signaling: a bridge between inflammation and cancer. Cell. 2006;127:42–4. PubMed
Bodemann BO, White MA. Ral GTPases and cancer: linchpin support of the tumorigenic platform. Nat Rev Cancer. 2008;8:133–40. PubMed
Issaq SH, Lim KH, Counter CM. Sec5 and Exo84 foster oncogenic ras-mediated tumorigenesis. Mol Cancer Res. 2010;8:223–31. PubMed PMC
Kashatus DF. Ral GTPases in tumorigenesis: emerging from the shadows. Exp Cell Res. 2013;319:2337–42. PubMed PMC
Di Bernardo MC, et al. A genome-wide association study identifies six susceptibility loci for chronic lymphocytic leukemia. Nat Genet. 2008;40:1204–10. PubMed
Berndt SI, et al. Genome-wide association study identifies multiple risk loci for chronic lymphocytic leukemia. Nat Genet. 2013;45:868–76. PubMed PMC
Wang SS, et al. Common gene variants in the tumor necrosis factor (TNF) and TNF receptor superfamilies and NF-kB transcription factors and non-Hodgkin lymphoma risk. PLoS One. 2009;4:e5360. PubMed PMC
Wacholder S, Yeager M, Liao LM. Invited commentary: more surprises from a gene desert. Am J Epidemiol. 2012;175:488–91. PubMed PMC
Crowther-Swanepoel D, et al. Common variants at 2q37.3, 8q24.21, 15q21.3 and 16q24.1 influence chronic lymphocytic leukemia risk. Nat Genet. 2010;42:132–6. PubMed PMC
Enciso-Mora V, et al. A genome-wide association study of Hodgkin’s lymphoma identifies new susceptibility loci at 2p16.1 (REL), 8q24.21 and 10p14 (GATA3) Nat Genet. 2010;42:1126–30. PubMed PMC
Graham M, Adams JM. Chromosome 8 breakpoint far 3′ of the c-myc oncogene in a Burkitt’s lymphoma 2;8 variant translocation is equivalent to the murine pvt-1 locus. Embo J. 1986;5:2845–51. PubMed PMC
Love C, et al. The genetic landscape of mutations in Burkitt lymphoma. Nat Genet. 2012;44:1321–5. PubMed PMC
Savage KJ, et al. MYC gene rearrangements are associated with a poor prognosis in diffuse large B-cell lymphoma patients treated with R-CHOP chemotherapy. Blood. 2009;114:3533–7. PubMed
Pasqualucci L, et al. Analysis of the coding genome of diffuse large B-cell lymphoma. Nat Genet. 2011;43:830–7. PubMed PMC
Onate SA, Tsai SY, Tsai MJ, O’Malley BW. Sequence and characterization of a coactivator for the steroid hormone receptor superfamily. Science. 1995;270:1354–7. PubMed
Novokhatska O, et al. Adaptor proteins intersectin 1 and 2 bind similar proline-rich ligands but are differentially recognized by SH2 domain-containing proteins. PloS One. 2013;8:e70546. PubMed PMC
McGavin MK, et al. The intersectin 2 adaptor links Wiskott Aldrich Syndrome protein (WASp)-mediated actin polymerization to T cell antigen receptor endocytosis. J Exp Med. 2001;194:1777–87. PubMed PMC
Jia X, et al. Imputing amino acid polymorphisms in human leukocyte antigens. PLoS One. 2013;8:e64683. PubMed PMC
Howell WM. HLA and disease: guilt by association. Int J Immunogenet. 2014;41:1–12. PubMed
Klitz W, Aldrich CL, Fildes N, Horning SJ, Begovich AB. Localization of predisposition to Hodgkin disease in the HLA class II region. Am J Hum Genet. 1994;54:497–505. PubMed PMC
Price P, et al. The genetic basis for the association of the 8.1 ancestral haplotype (A1, B8, DR3) with multiple immunopathological diseases. Immunol Rev. 1999;167:257–74. PubMed
Kumar V, et al. Common variants on 14q32 and 13q12 are associated with DLBCL susceptibility. J Hum Genet. 2011;56:436–9. PubMed
Yang J, et al. Common SNPs explain a large proportion of the heritability for human height. Nat Genet. 2010;42:565–9. PubMed PMC
Morton LM, et al. Proposed classification of lymphoid neoplasms for epidemiologic research from the Pathology Working Group of the International Lymphoma Epidemiology Consortium (InterLymph) Blood. 2007;110:695–708. PubMed PMC
Turner JJ, et al. InterLymph hierarchical classification of lymphoid neoplasms for epidemiologic research based on the WHO classification (2008): update and future directions. Blood. 2010;116:e90–8. PubMed PMC
Swerdlow S, Campo E, Harris N. World Health Organization Classification of Tumours of Haematopoietic and Lymphoid Tissues. IARC Press; Lyon, France: 2008.
Pritchard JK, Stephens M, Donnelly P. Inference of population structure using multilocus genotype data. Genetics. 2000;155:945–59. PubMed PMC
Price AL, et al. Principal components analysis corrects for stratification in genome-wide association studies. Nat Genet. 2006;38:904–9. PubMed
Schumacher FR, et al. Genome-wide association study identifies new prostate cancer susceptibility loci. Hum Mol Genet. 2011;20:3867–75. PubMed PMC
Siddiq A, et al. A meta-analysis of genome-wide association studies of breast cancer identifies two novel susceptibility loci at 6q14 and 20q11. Hum Mol Genet. 2012;21:5373–84. PubMed PMC
Purcell S, et al. PLINK: a tool set for whole-genome association and population-based linkage analyses. Am J Hum Genet. 2007;81:559–75. PubMed PMC
Dixon AL, et al. A genome-wide association study of global gene expression. Nat Genet. 2007;39:1202–7. PubMed
Cheung VG, et al. Polymorphic cis- and trans-regulation of human gene expression. PLoS Biol. 2010;8 PubMed PMC
Lee SH, Wray NR, Goddard ME, Visscher PM. Estimating missing heritability for disease from genome-wide association studies. Am J Hum Genet. 2011;88:294–305. PubMed PMC
Yang J, Lee SH, Goddard ME, Visscher PM. GCTA: a tool for genome-wide complex trait analysis. Am J Hum Genet. 2011;88:76–82. PubMed PMC
Howlader N, et al. SEER Cancer Statistics Review, 1975–2010. National Cancer Institute; Bethesda, MD: Apr, 2013. http://seer.cancer.gov/csr/1975_2010/, based on November 2012 SEER data submission, posted to the SEER web site.
Fearnhead P. SequenceLDhot: detecting recombination hotspots. Bioinformatics. 2006;22:3061–6. PubMed
Fearnhead P, Harding RM, Schneider JA, Myers S, Donnelly P. Application of coalescent methods to reveal fine-scale rate variation and recombination hotspots. Genetics. 2004;167:2067–81. PubMed PMC
Li N, Stephens M. Modeling linkage disequilibrium and identifying recombination hotspots using single-nucleotide polymorphism data. Genetics. 2003;165:2213–33. PubMed PMC
Crawford DC, et al. Evidence for substantial fine-scale variation in recombination rates across the human genome. Nat Genet. 2004;36:700–6. PubMed
Luna A, Nicodemus KK. snp.plotter: an R-based SNP/haplotype association and linkage disequilibrium plotting package. Bioinformatics. 2007;23:774–6. PubMed
The EHA Research Roadmap: Malignant Lymphoid Diseases
B-Cell NHL Subtype Risk Associated with Autoimmune Conditions and PRS
Genome-wide homozygosity and risk of four non-Hodgkin lymphoma subtypes
Genetic overlap between autoimmune diseases and non-Hodgkin lymphoma subtypes
Genetically Determined Height and Risk of Non-hodgkin Lymphoma
Two high-risk susceptibility loci at 6p25.3 and 14q32.13 for Waldenström macroglobulinemia
A genome-wide association study of marginal zone lymphoma shows association to the HLA region