SaaS Clouds Supporting Biology and Medicine - Cloud Computing with e-Science Applications - page 260

FIGURE 11.9
EXP-PAC publication process.
FIGURE 11.10
EXP-PAC data upload interface.
genes and a file containing mutation scores for each gene. These data sets were
normalized and uploaded into EXP-PAC using web interfaces (see Figure 11.10).
Using the work of the Cancer Genome Atlas Network (2012), a list of genes
was defined for each subtype of cancer: luminal A, luminal B, basal-like,
and human epidermal growth factor receptor 2 enriched (HER2E) (see
Table 11.2). The luminal A and B signatures overlap, both involving the muta-
tions of tumor protein 53 (TP53), Phosphatidylinositol 3-kinase (PIK3CA),
and mitogen-activated protein kinase kinase kinase 1 (MAP3K1). However,
luminal A can be identified through the mutation of GATA binding factor 3
(GATA3) and Forkhead Box protein (FOXA1), which are unique to this cancer
subtype. Basal-like tumors have high levels of mutation in the TP53, retino-
blastoma 1 (RB1), and breast cancer 1 early onset (BRACA1) genes. HER2E