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Cytogenetics And Molecular Genetics

High-resolution analysis of chromosome copy number alterations in angioimmunoblastic T-cell lymphoma and peripheral T-cell lymphoma, unspecified, with single nucleotide polymorphism-typing microarrays

Leukemia volume 22, pages 1891–1898 (2008)Cite this article

Abstract

Angioimmunoblastic T-cell lymphoma (AILT) and peripheral T-cell lymphoma, unspecified (PTCL-u) are relatively frequent subtypes of T- or natural killer cell lymphoma. To characterize the structural anomalies of chromosomes associated with these disorders, we here determined chromosome copy number alterations (CNAs) and loss of heterozygosity (LOH) at >55 000 single nucleotide polymorphism loci for clinical specimens of AILT (n=40) or PTCL-u (n=33). Recurrent copy number gain common to both conditions was detected on chromosomes 8, 9 and 19, whereas common LOH was most frequent for a region of chromosome 2. AILT- or PTCL-u-specific CNAs or LOH were also identified at 21 regions, some spanning only a few hundred base pairs. We also identified prognosis-related CNAs or LOH by several approaches, including Cox's proportional hazard analysis. Among the genes that mapped to such loci, a poor prognosis was linked to overexpression of CARMA1 at 7p22 and of MYCBP2 at 13q22, with both genes being localized within regions of frequent copy number gain. For a frequent LOH region at 2q34, we also identified IKAROS family zinc-finger 2 cDNAs encoding truncated proteins. Our data indicate that AILT and PTCL-u consist of heterogeneous subgroups with distinct transforming genetic alterations.

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Acknowledgements

This study was supported in part by a grant for Third-Term Comprehensive Control Research for Cancer from the Ministry of Health, Labor, and Welfare of Japan as well as by a grant for Scientific Research on Priority Areas ‘Applied Genomics’ from the Ministry of Education, Culture, Sports, Science, and Technology of Japan.

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Authors and Affiliations

  1. Division of Functional Genomics, Jichi Medical University, Tochigi, Japan

    S-i Fujiwara, Y Yamashita, Y L Choi, T Ueno, H Watanabe, K Kurashina, M Soda, M Enomoto, H Hatanaka, S Takada & H Mano

  2. Division of Hematology, Jichi Medical University, Tochigi, Japan

    S-i Fujiwara & K Ozawa

  3. Department of Pathology, Tokai University School of Medicine, Kanagawa, Japan

    N Nakamura

  4. Department of Pathology, Fukushima Medical University, Fukushima, Japan

    M Abe

  5. CREST, Japan Science and Technology Agency, Saitama, Japan

    H Mano

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  1. S-i Fujiwara
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  2. Y Yamashita
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Correspondence to H Mano.

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Supplementary Information accompanies the paper on the Leukemia website (http://www.nature.com/leu)

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Fujiwara, Si., Yamashita, Y., Nakamura, N. et al. High-resolution analysis of chromosome copy number alterations in angioimmunoblastic T-cell lymphoma and peripheral T-cell lymphoma, unspecified, with single nucleotide polymorphism-typing microarrays. Leukemia 22, 1891–1898 (2008). https://doi.org/10.1038/leu.2008.191

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