Genetic Background May Contribute to PAM50 Gene Expression Breast Cancer Subtype Assignments

PLoS ONE

Volumn 8, Issue 8, 2013, Pages

  Hu, Ying ^a   Bai, Ling ^b   Geiger, Thomas ^b   Goldberger, Natalie ^b   Walker, Renard C ^b   Green, Jeffery E ^b   Wakefield, Lalage M ^b   Hunter, Kent W ^b  

^a Center for Biomedical Informatics and Information Technology   (United States)

^b NATIONAL CANCER INSTITUTE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ANIMAL EXPERIMENT; ANIMAL MODEL; ARTICLE; BREAST CANCER; BREAST CANCER BASAL SUBTYPE; BREAST CANCER HER2 SUBTYPE; BREAST CANCER LUMINAL A SUBTYPE; BREAST CANCER LUMINAL B SUBTYPE; BREAST CANCER NORMAL LIKE SUBTYPE; CANCER CLASSIFICATION; CANCER GENETICS; CANCER SUSCEPTIBILITY; CARCINOGENESIS; FEMALE; GENE EXPRESSION; GENE EXPRESSION PROFILING; GENETIC BACKGROUND; GENETICALLY ENGINEERED MOUSE STRAIN; LUNG METASTASIS; MALE; MOUSE; NONHUMAN; NUCLEOTIDE SEQUENCE; ONCOGENE; PAM50 GENE; PHENOTYPE;

ANIMALS; ANIMALS, OUTBRED STRAINS; FEMALE; GENETIC ASSOCIATION STUDIES; GENETIC LOCI; GENETIC PREDISPOSITION TO DISEASE; HAPLOTYPES; HUMANS; KERATINS; LUNG NEOPLASMS; MALE; MAMMARY NEOPLASMS, EXPERIMENTAL; MICE; MICE, TRANSGENIC; TRANSCRIPTOME;

EID: 84883160326     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0072287     Document Type: Article

References (29)

1. van't Veer LJ, Dai H, van de Vijver MJ, He YD, Hart AA, et al. (2002) Gene expression profiling predicts clinical outcome of breast cancer. Nature 415: 530-536.
2. Perou CM, Sorlie T, Eisen MB, van de Rijn M, Jeffrey SS, et al. (2000) Molecular portraits of human breast tumours. Nature 406: 747-752.
3. Herschkowitz JI, Simin K, Weigman VJ, Mikaelian I, Usary J, et al. (2007) Identification of conserved gene expression features between murine mammary carcinoma models and human breast tumors. Genome Biol 8: R76.
4. Cancer Genome Atlas Network, (2012) Comprehensive molecular portraits of human breast tumours. Nature 490: 61-70.
5. Schadt EE, Monks SA, Drake TA, Lusis AJ, Che N, et al. (2003) Genetics of gene expression surveyed in maize, mouse and man. Nature 422: 297-302.
6. Crawford NP, Walker RC, Lukes L, (2008) Officewala JS, Williams RW, et al (2008) The Diasporin Pathway: a tumor progression-related transcriptional network that predicts breast cancer survival. Clin Exp Metastasis 25: 357-369.
7. Le Voyer T, Lu Z, Babb J, Lifsted T, Williams M, et al. (2000) An epistatic interaction controls the latency of a transgene-induced mammary tumor. Mamm Genome 11: 883-889.
8. Le Voyer T, Rouse J, Lu Z, Lifsted T, Williams M, et al. (2001) Three loci modify growth of a transgene-induced mammary tumor: suppression of proliferation associated with decreased microvessel density. Genomics 74: 253-261.
9. Park YG, Zhao X, Lesueur F, Lowy DR, Lancaster M, et al. (2005) Sipa1 is a candidate for underlying the metastasis efficiency modifier locus Mtes1. Nat Genet 37: 1055-1062.
10. Crawford NP, Alsarraj J, Lukes L, Walker RC, Officewala JS, et al (2008) Bromodomain 4 activation predicts breast cancer survival. Proc Natl Acad Sci U S A 105: 6380-6385.
11. Crawford NP, Qian X, Ziogas A, Papageorge AG, Boersma BJ, et al. (2007) Rrp1b, a new candidate susceptibility gene for breast cancer progression and metastasis. PLoS Genet 3: e214.
12. Guy CT, Cardiff RD, Muller WJ, (1992) Induction of mammary tumors by expression of polyomavirus middle T oncogene: A transgenic mouse model for metastatic disease. MCB 12: 954-961.
13. Hsieh SM, Look MP, Sieuwerts AM, Foekens JA, Hunter KW, (2009) Distinct inherited metastasis susceptibility exists for different breast cancer subtypes: a prognosis study. Breast Cancer Res 11: R75.
14. Svenson KL, Gatti DM, Valdar W, Welsh CE, Cheng R, et al. (2012) High-resolution genetic mapping using the Mouse Diversity outbred population. Genetics 190: 437-447.
15. Parker JS, Mullins M, Cheang MC, Leung S, Voduc D, et al. (2009) Supervised risk predictor of breast cancer based on intrinsic subtypes. J Clin Oncol 27: 1160-1167.
16. Hunter KW, Broman KW, Voyer TL, Lukes L, Cozma D, et al. (2001) Predisposition to efficient mammary tumor metastatic progression is linked to the breast cancer metastasis suppressor gene Brms1. Cancer Res 61: 8866-8872.
17. Faraji F, Pang Y, Walker RC, Nieves Borges R, Yang L, et al. (2012) Cadm1 is a metastasis susceptibility gene that suppresses metastasis by modifying tumor interaction with the cell-mediated immunity. PLoS Genet 8: e1002926.
18. Walesiak M, Dudek A (2012) Searching for optimal clustering procedure for a data set.
19. Haibe-Kains B, Schroeder M, Bontempi G, Sotiriou C, Quakenbush J (2012) genefu: Relevant Functions for Gene Expression Analysis, Especially in Breast Cancer.
20. Simon R, Radmacher MD, Dobbin K, McShane LM, (2003) Pitfalls in the use of DNA microarray data for diagnostic and prognostic classification. J Natl Cancer Inst 95: 14-18.
21. Hu Y, Wu G, Rusch M, Lukes L, Buetow KH, et al. (2012) Integrated cross-species transcriptional network analysis of metastatic susceptibility. Proc Natl Acad Sci U S A 109: 3184-3189.
22. Wang Y, Klijn JG, Zhang Y, Sieuwerts AM, Look MP, et al. (2005) Gene-expression profiles to predict distant metastasis of lymph-node-negative primary breast cancer. Lancet 365: 671-679.
23. Churchill GA, Gatti DM, Munger SC, Svenson KL, (2012) The diversity outbred mouse population. Mamm Genome 23: 713-718.
24. Kunz G, (2011) Use of a genomic test (MammaPrint) in daily clinical practice to assist in risk stratification of young breast cancer patients. Arch Gynecol Obstet 283: 597-602.
25. Zbytek B, Cohen C, Wang J, Page A, Williams DJ, et al. (2013) Nottingham-defined mitotic score: comparison with visual and image cytometric phosphohistone H3 labeling indices and correlation with Oncotype DX recurrence score. Appl Immunohistochem Mol Morphol 21: 48-53.
26. Martin M, Prat A, Rodriguez-Lescure A, Caballero R, Ebbert MT, et al. (2013) PAM50 proliferation score as a predictor of weekly paclitaxel benefit in breast cancer. Breast Cancer Res Treat 138: 457-466.
27. Borowsky AD, Namba R, Young LJ, Hunter KW, Hodgson JG, et al. (2005) Syngeneic mouse mammary carcinoma cell lines: two closely related cell lines with divergent metastatic behavior. Clin Exp Metastasis 22: 47-59.
28. Montagna C, Lyu MS, Hunter K, Lukes L, Lowther W, et al. (2003) The Septin 9 (MSF) gene is amplified and overexpressed in mouse mammary gland adenocarcinomas and human breast cancer cell lines. Cancer Res 63: 2179-2187.
29. Stevens KN, Vachon CM, Couch FJ, (2013) Genetic susceptibility to triple-negative breast cancer. Cancer Res 73: 2025-2030.