Additional file 1: of Intratumoral heterogeneity as a source of discordance in breast cancer biomarker classification

ER and PR expression levels among cases with discordant biomarker status between cores, restricting to cases with negative (<1 %) ER and PR expression. Cases are ordered on the X-axis by case-level positivity status. Individual cores are represented by black crosses, and case-level positivity status is represented by red crosses. (TIF 452 kb

Selected characteristics of Cases and Controls in WCHS with POLG-CAG repeat polymorphism.

1<p>Chi-square test.</p>2<p>t-test.</p

Odd ratios of POLG-CAG repeat polymorphism in WCHS.

1<p>Adjusted for age, age at menarche, age at first full term pregnancy, menopausal status, first degree family history of breast cancer, and BMI.</p

Representative electopherogram of normal CAG (10∶10), contraction (6∶10) and expansion (10∶13) of POLG.

<p>Representative electopherogram of normal CAG (10∶10), contraction (6∶10) and expansion (10∶13) of POLG.</p

Additional file 3: Figure S2. of Alcohol consumption and breast tumor gene expression

Differentially expressed probes (N = 25,979) by alcohol consumption in the NHS and the NHSII. The top four figures show recent alcohol intake > 0 - < 10 vs. 0 g/day and the bottom four figures show recent alcohol intake 10+ vs. 0 g/day. (PDF 1418 kb

Additional file 2: Table S1. of Alcohol consumption and breast tumor gene expression

Comparison of study population characteristics in the NHS/NHSII and TCGA. Table S2. Characteristics of invasive breast cancer cases by recent alcohol consumption in the TCGA. Table S3. Top 10 ranked differentially expressed probes by recent alcohol consumption in the NHS and the NHSII. Table S4. Enriched gene sets (FDR 0.05–0.1) by recent alcohol consumption in ER+ tumors in the NHS and the NHSII. Table S5. Enriched gene sets (FDR 0.05–0.1) by recent alcohol consumption in ER- tumors in the NHS and the NHSII. Table S6. Enriched gene sets by alcohol consumption in stage II/III ER+ tumors in the NHS and the NHSII. (DOCX 56 kb

Additional file 3: Figure S2. of Alcohol consumption and breast tumor gene expression

Differentially expressed probes (N = 25,979) by alcohol consumption in the NHS and the NHSII. The top four figures show recent alcohol intake > 0 - < 10 vs. 0 g/day and the bottom four figures show recent alcohol intake 10+ vs. 0 g/day. (PDF 1418 kb

Additional file 1: Figure S1. of Alcohol consumption and breast tumor gene expression

ESR1, PGR, ERBB2 mRNA expression by IHC ER, PR, and HER2, respectively, in the NHS and the NHSII. (PDF 273 kb

Additional file 1: of A survey of microRNA single nucleotide polymorphisms identifies novel breast cancer susceptibility loci in a case-control, population-based study of African-American women

Table S1. Association of the top seven miRNA SNPs from the full analyses with p < 5 × 10−6 in case versus control and case-only subtype analyses. (XLSX 72 kb

Additional file 2: of A survey of microRNA single nucleotide polymorphisms identifies novel breast cancer susceptibility loci in a case-control, population-based study of African-American women

Figure S1. BAIAP2 gene expression (from Gene-Tissue Expression project, GTEx) in human tissues [46]. (DOCX 193 kb