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Genomic and signalling pathway characterization of the NZM panel of melanoma cell lines: A valuable model for studying the impact of genetic diversity in melanoma
Authors:Khanh B. Tran  Gregory Gimenez  Peter Tsai  Sharada Kolekar  Euan J. Rodger  Aniruddha Chatterjee  Anower Jabed  Jen‐Hsing Shih  Wayne R. Joseph  Elaine S. Marshall  Qian Wang  Cristin G. Print  Michael R. Eccles  Bruce C. Baguley  Peter R. Shepherd
Abstract:Melanoma is a disease associated with a very high mutation burden and thus the possibility of a diverse range of oncogenic mechanisms that allow it to evade therapeutic interventions and the immune system. Here, we describe the characterization of a panel of 102 cell lines from metastatic melanomas (the NZM lines), including using whole‐exome and RNA sequencing to analyse genetic variants and gene expression changes in a subset of this panel. Lines possessing all major melanoma genotypes were identified, and hierarchical clustering of gene expression profiles revealed four broad subgroups of cell lines. Immunogenotyping identified a range of HLA haplotypes as well as expression of neoantigens and cancer–testis antigens in the lines. Together, these characteristics make the NZM panel a valuable resource for cell‐based, immunological and xenograft studies to better understand the diversity of melanoma biology and the responses of melanoma to therapeutic interventions.
Keywords:BRAF  cancer  CTTNB1  immunotherapy  KRAS  melanoma  molecular subtypes  neoantigen  NF1  NRAS  PDGFRA  PIK3CA  testis antigen
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