An integrated genomic and expression analysis of 7q deletion in splenic marginal zone lymphoma

Splenic marginal zone lymphoma (SMZL) is an indolent B-cell lymphoproliferative disorder characterised by 7q32 deletion, but the target genes of this deletion remain unknown. In order to elucidate the genetic target of this deletion, we performed an integrative analysis of the genetic, epigenetic, t...

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Veröffentlicht in:	PloS one 2012-09, Vol.7 (9), p.e44997
Hauptverfasser:	Watkins, A James, Hamoudi, Rifat A, Zeng, Naiyan, Yan, Qingguo, Huang, Yuanxue, Liu, Hongxiang, Zhang, Jianzhong, Braggio, Esteban, Fonseca, Rafael, de Leval, Laurence, Isaacson, Peter G, Wotherspoon, Andrew, McPhail, Ellen D, Dogan, Ahmet, Du, Ming-Qing
Format:	Artikel
Sprache:	eng
Schlagworte:	Artificial chromosomes Biology Cancer Chromosome Deletion Chromosomes, Human, Pair 7 - genetics Clonal deletion Comparative analysis Comparative Genomic Hybridization Cytogenetics Deoxyribonucleic acid DNA DNA methylation Epigenesis, Genetic Epigenetic inheritance Gene deletion Gene expression Gene Expression Profiling Gene Expression Regulation, Neoplastic Gene sequencing Genes Genes, Neoplasm - genetics Genetic analysis Genetic aspects Genome, Human - genetics Genomics Heterozygote Histopathology Humans Hybridization Interferon Regulatory Factors - genetics Laboratories Lymphocytes Lymphocytes B Lymphoma Lymphoma, B-Cell, Marginal Zone - genetics Medicine MicroRNA MicroRNAs MicroRNAs - genetics MicroRNAs - metabolism miRNA Mutation Mutation - genetics Non-Hodgkin's lymphomas Oligonucleotide Array Sequence Analysis Open Reading Frames - genetics Pathology Polymorphism, Genetic Prostate Reverse Transcriptase Polymerase Chain Reaction Sequence Analysis, DNA Sequence Analysis, RNA Skin cancer Spleen Splenic Neoplasms - genetics Studies
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Zusammenfassung:	Splenic marginal zone lymphoma (SMZL) is an indolent B-cell lymphoproliferative disorder characterised by 7q32 deletion, but the target genes of this deletion remain unknown. In order to elucidate the genetic target of this deletion, we performed an integrative analysis of the genetic, epigenetic, transcriptomic and miRNomic data. High resolution array comparative genomic hybridization of 56 cases of SMZL delineated a minimally deleted region (2.8 Mb) at 7q32, but showed no evidence of any cryptic homozygous deletion or recurrent breakpoint in this region. Integrated transcriptomic analysis confirmed significant under-expression of a number of genes in this region in cases of SMZL with deletion, several of which showed hypermethylation. In addition, a cluster of 8 miRNA in this region showed under-expression in cases with the deletion, and three (miR-182/96/183) were also significantly under-expressed (P
ISSN:	1932-6203 1932-6203
DOI:	10.1371/journal.pone.0044997