METABRIC data

METABRIC provides a well-annotated dataset of over 2,000 breast cancer cases with long-term clinical follow-up data, transcriptomic and genomic data [12]. Luminal cases have an average follow-up time of 130.5 months (10.9 years) months and a maximum follow-up time of 337 months (28.1 years). All CNA profiles, clinical patient and sample annotations for luminal patients (n = 1175) were obtained from cBioPortal [24]. The METABRIC consortium [12] utilised both the circular binary segmentation algorithm [25] and an adapted Hidden Markov model [26] for segmentation, followed by CNA calling. The patient-specific somatic CNA profile calls for each gene have values indicating homozygous deletion (-2), hemizygous deletion (-1), diploidy (0), single copy gain (+1) and high level amplification (+2). Quantile classification based on relative gene expression for luminal METABRIC cases was obtained from Tishchenko et al [13].