Open Access Research article

The risk allele of SNP rs3803662 and the mRNA level of its closest genes TOX3 and LOC643714 predict adverse outcome for breast cancer patients

Eydis Th Gudmundsdottir1, Rosa B Barkardottir12, Adalgeir Arason12, Haukur Gunnarsson13, Laufey Th Amundadottir4, Bjarni A Agnarsson12, Oskar Th Johannsson25 and Inga Reynisdottir1*

Author Affiliations

1 Department of Pathology, Landspitali-University Hospital, Hringbraut, 101, Reykjavik, Iceland

2 BMC, Faculty of Medicine, University of Iceland, Vatnsmyrarvegi 16, 101, Reykjavik, Iceland

3 Present address: Actavis, Hafnarfjordur, Iceland

4 Department of Health and Human Services, Laboratory of Translational Genomics, Division of Cancer Epidemiology and Genetics, National Cancer Institute, National Institutes of Health, Bethesda, MD, USA

5 Department of Oncology, 20A, Landspitali-University Hospital, Hringbraut, 101, Reykjavik, Iceland

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BMC Cancer 2012, 12:621  doi:10.1186/1471-2407-12-621

Published: 27 December 2012

Additional files

Additional file 1:

Figures S1 – S6. Supplementary Figure S1. Comparison between DMFS in patients with luminal A tumours carrying the minor vs. major rs3803662 allele. Supplementary Figure S2. Correlation of the rs3803662 genotype with expression levels of TOX3 and LOC643714. Supplementary Figure S3. Correlation of the rs3803662 genotype with expression levels of TOX3 and LOC643714 in luminal tumours. Supplementary Figure S4. Patients with luminal B tumours contribute the majority of the adverse effect correlated with high TOX3 in ER positive tumours. Supplementary Figure S5. A schematic of the correlation analyses of the rs3803662 genotype with clinical and tumour characteristics. Supplementary Figure S6. A schematic of the correlation analyses of the mRNAs of TOX3 and LOC64371 with clinical and tumour characteristics.

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Additional file 2:

Tables S1 – S3. Supplementary Table S1. Association between the SNP rs3803662 genotype and clinical and pathological parameters (n = 160). Supplementary Table S2. Correlation between TOX3 and LOC643714 mRNA levels in ER positive tumours with breast cancer clinical and pathological characteristics. Supplementary Table S3. TOX3 and LOC643714 mRNA expression in ER negative tumour samples compared with breast cancer clinical and pathological characteristics.

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