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Supplementary Materials
Supplementary Table 1: Summary of antibodies, clones, dilutions, antigen retrieval methods
and scoring systems.
Supplementary Figure 1: Representative genome plots of grade III invasive ductal
carcinomas of no special type harbouring PPM1D gene amplification (17q23.2) obtained with
a 32K tiling path bacterial artificial chromosome (BAC) microarray comparative genomic
hybridisation platform and previously reported by Natrajan et al. .
Please note that all cases displayed clustered regions of amplification mapping to a given
chromosomal arm and multiple regions of amplification throughout the genome (A-H),
consistent with the definition of a ‘firestorm’ profile as defined by Hicks et al. . In A to H, Log2
ratios are plotted on the Y axis against each BAC clone according to genomic location on the
X axis. BACs categorised as displaying genomic low level gains as defined by circular binary
segmentation-smoothed (cbs) ratios > 0.12 are highlighted in dark green, those categorised
as amplification as defined by cbs-smoothed ratios > 0.45 are highlighted in bright green, and
those categorised as genomic losses as defined by cbs-smoothed ratios < -0.12 are
highlighted in red. Details of the microarray hybridisations, image capturing and data analysis
are described elsewhere .