Additional file 13: Figure S1. of The molecular landscape of premenopausal breast cancer

Venn diagram representing datasets from The Cancer Genome Atlas (TCGA) and Molecular Taxonomy of Breast Cancer International Consortium (METABRIC). Figure S2. Principle component analysis (PCA) of (A) Agilent array and (B) methylation data. Figure S3. Differentially expressed (DE) genes between premenopausal (preM) and postmenopausal (postM) estrogen receptor-positive (ER+) tumors. Figure S4. Mutation spectra comparing somatic mutations identified in preM and postM ER+ tumors using MutSig. Figure S5. Differences in protein expression between preM and postM ER tumors (RPPA). Figure S6. Top canonical pathways enriched in preM ER+ tumors in TCGA RNA-Seq and TCGA Agilent. Figure S7. Top pathways identified in DAVID. Figure S8. Heatmap for top 50 entities in PARADIGM analysis when integrating Agilent array, copy number variation (CNV), somatic mutation and methylation data. Figure S9. Comparison of expression of laminin and integrin genes between preM and postM ER+ tumors. Figure S10. Hierarchical clustering of ER+ preM patients on the top 2,500 variable genes: (a) Agilent array; (b) RNA-Seq. Figure S11. LumA sub-cluster. (DOCX 3009 kb)