Transcriptomics

Dataset Information

5

Affymetrix SNP array data for low-grade astrocytoma samples


ABSTRACT: Copy number analysis of 21 paediatric low-grade astrocytomas identified a discrete copy number gain of 1.9Mb in chromosome band 7q34. The gain was present in 12/14 cerebellar pilocytic astrocytomas. Subsequent analysis of tumour cDNA indentified a novel gene fusion between KIAA1549 and BRAF in these tumours. Copy number analysis of 21 paediatric low-grade astrocytomas using the Affymetrix GeneChip Human Mapping 250K Nsp Array. This study comprised 14 pilocytic astrocytomas, 4 diffuse astrocytomas, one pilomyxoid astrocytoma, one pilomyxoid glioma and one pleomorphic xanthoastrocytoma. Tumours were compared to the mean of two normal male DNA controls.

ORGANISM(S): Homo sapiens  

SUBMITTER: David W Ellison   Tim Forshew  Ruth G Tatevossian  Bryan D Young  Tracy Chaplin  Andrew R Lawson  Denise Sheer 

PROVIDER: E-GEOD-14960 | ArrayExpress | 2010-04-09

SECONDARY ACCESSION(S): GSE14960PRJNA111833

REPOSITORIES: GEO, ArrayExpress

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Publications


We report genetic aberrations that activate the ERK/MAP kinase pathway in 100% of posterior fossa pilocytic astrocytomas, with a high frequency of gene fusions between KIAA1549 and BRAF among these tumours. These fusions were identified from analysis of focal copy number gains at 7q34, detected using Affymetrix 250K and 6.0 SNP arrays. PCR and sequencing confirmed the presence of five KIAA1549-BRAF fusion variants, along with a single fusion between SRGAP3 and RAF1. The resulting fusion genes la  ...[more]

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