Illumina next generation sequencing data and expression microarrays data from retinoblastoma and medulloblastoma tissues.

ABSTRACT: Retinoblastoma (Rb) is a pediatric intraocular malignancy and probably the most robust clinical model on which genetic predisposition to develop cancer has been demonstrated. Since deletions in chromosome 13 have been described in this tumor, we performed next generation sequencing to test whether recurrent losses could be detected in low coverage data. We used Illumina platform for 13 tumor tissue samples: two pools of 4 retinoblastoma cases each and one pool of 5 medulloblastoma cases (raw data can be found at http://www.ebi.ac.uk/ena/data/view/PRJEB6630). We first created an in silico reference profile generated from a human sequenced genome (GRCh37p5). From this data we calculated an integrity score to get an overview of gains and losses in all chromosomes; we next analyzed each chromo

SUBMITTER: Garcia-Chequer AJ 

PROVIDER: S-EPMC4753385 | biostudies-literature | 2016 Mar

REPOSITORIES: biostudies-literature