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Volumn 8, Issue 2, 2014, Pages 273-284

The 5p12 breast cancer susceptibility locus affects MRPS30 expression in estrogen-receptor positive tumors

(15)  Quigley, David A a,b,c   Fiorito, Elisa d   Nord, Silje a,b   Van Loo, Peter e,f   Alnæs, Grethe Grenaker a,b   Fleischer, Thomas a,b   Tost, Jorg g,h   Moen Vollan, Hans Kristian a,b   Tramm, Trine i   Overgaard, Jens i   Bukholm, Ida R j,k   Hurtado, Antoni a,b,d   Balmain, Allan c   Børresen Dale, Anne Lise a,b   Kristensen, Vessela a,b,j  

h DIF   (France)

Author keywords

Breast cancer; Chromatin; Estrogen; Expression Quantitative Trait Locus; Genetics

Indexed keywords

ESTROGEN; MESSENGER RNA;

EID: 84894341726     PISSN: 15747891     EISSN: 18780261     Source Type: Journal    
DOI: 10.1016/j.molonc.2013.11.008     Document Type: Article
Times cited : (27)

References (50)
  • 1
    • 75149131641 scopus 로고    scopus 로고
    • Novel breast cancer risk alleles and interaction with ionizing radiation among U.S. radiologic technologists
    • Bhatti P., Doody M.M., Rajaraman P., Alexander B.H., Yeager M., Hutchinson A., et al. Novel breast cancer risk alleles and interaction with ionizing radiation among U.S. radiologic technologists. Radiat. Res. 2010, 173:214-224.
    • (2010) Radiat. Res. , vol.173 , pp. 214-224
    • Bhatti, P.1    Doody, M.M.2    Rajaraman, P.3    Alexander, B.H.4    Yeager, M.5    Hutchinson, A.6
  • 2
    • 0037177625 scopus 로고    scopus 로고
    • Genetic dissection of transcriptional regulation in budding yeast
    • Brem R.B., Yvert G., Clinton R., Kruglyak L. Genetic dissection of transcriptional regulation in budding yeast. Science 2002, 296:752-755.
    • (2002) Science , vol.296 , pp. 752-755
    • Brem, R.B.1    Yvert, G.2    Clinton, R.3    Kruglyak, L.4
  • 3
    • 0028151261 scopus 로고
    • Empirical threshold values for quantitative trait mapping
    • Churchill G.A., Doerge R.W. Empirical threshold values for quantitative trait mapping. Genetics 1994, 138:963-971.
    • (1994) Genetics , vol.138 , pp. 963-971
    • Churchill, G.A.1    Doerge, R.W.2
  • 4
    • 84868198825 scopus 로고    scopus 로고
    • Breast cancer risk-associated SNPs modulate the affinity of chromatin for FOXA1 and alter gene expression
    • Cowper-Sal lari R., Zhang X., Wright J.B., Bailey S.D., Cole M.D., Eeckhoute J., et al. Breast cancer risk-associated SNPs modulate the affinity of chromatin for FOXA1 and alter gene expression. Nat. Genet. 2012, 44:1191-1198.
    • (2012) Nat. Genet. , vol.44 , pp. 1191-1198
    • Cowper-Sal lari, R.1    Zhang, X.2    Wright, J.B.3    Bailey, S.D.4    Cole, M.D.5    Eeckhoute, J.6
  • 5
    • 84861527388 scopus 로고    scopus 로고
    • The genomic and transcriptomic architecture of 2,000 breast tumours reveals novel subgroups
    • Curtis C., Shah S.P., Chin S.F., Turashvili G., Rueda O.M., Dunning M.J., et al. The genomic and transcriptomic architecture of 2,000 breast tumours reveals novel subgroups. Nature 2012, 486:346-352.
    • (2012) Nature , vol.486 , pp. 346-352
    • Curtis, C.1    Shah, S.P.2    Chin, S.F.3    Turashvili, G.4    Rueda, O.M.5    Dunning, M.J.6
  • 6
    • 69949176863 scopus 로고    scopus 로고
    • Common regulatory variation Impacts gene expression in a cell type-dependent manner
    • Dimas A., Deutsch S., Stranger B., Montgomery S., Borel C., Attar-Cohen H., et al. Common regulatory variation Impacts gene expression in a cell type-dependent manner. Science 2012, 325:1246-1250.
    • (2012) Science , vol.325 , pp. 1246-1250
    • Dimas, A.1    Deutsch, S.2    Stranger, B.3    Montgomery, S.4    Borel, C.5    Attar-Cohen, H.6
  • 9
    • 84875701351 scopus 로고    scopus 로고
    • Genome-wide association studies identify four ER negative-specific breast cancer risk loci
    • 398e391-392
    • Garcia-Closas M., Couch F.J., Lindstrom S., Michailidou K., Schmidt M.K., Brook M.N., et al. Genome-wide association studies identify four ER negative-specific breast cancer risk loci. Nat. Genet. 2013, 45:392-398. 398e391-392.
    • (2013) Nat. Genet. , vol.45 , pp. 392-398
    • Garcia-Closas, M.1    Couch, F.J.2    Lindstrom, S.3    Michailidou, K.4    Schmidt, M.K.5    Brook, M.N.6
  • 12
    • 67649524640 scopus 로고    scopus 로고
    • Isolation of active regulatory elements from eukaryotic chromatin using FAIRE (Formaldehyde Assisted Isolation of Regulatory Elements)
    • Giresi P.G., Lieb J.D. Isolation of active regulatory elements from eukaryotic chromatin using FAIRE (Formaldehyde Assisted Isolation of Regulatory Elements). Methods 2009, 48:233-239.
    • (2009) Methods , vol.48 , pp. 233-239
    • Giresi, P.G.1    Lieb, J.D.2
  • 13
    • 0023899769 scopus 로고
    • Nuclease hypersensitive sites in chromatin
    • Gross D.S., Garrard W.T. Nuclease hypersensitive sites in chromatin. Annu. Rev. Biochem. 1988, 57:159-197.
    • (1988) Annu. Rev. Biochem. , vol.57 , pp. 159-197
    • Gross, D.S.1    Garrard, W.T.2
  • 15
    • 67651222400 scopus 로고    scopus 로고
    • A flexible and accurate genotype imputation method for the next generation of genome-wide association studies
    • Howie B.N., Donnelly P., Marchini J. A flexible and accurate genotype imputation method for the next generation of genome-wide association studies. PLoS Genet. 2009, 5:e1000529.
    • (2009) PLoS Genet. , vol.5
    • Howie, B.N.1    Donnelly, P.2    Marchini, J.3
  • 16
    • 34250001297 scopus 로고    scopus 로고
    • A genome-wide association study identifies alleles in FGFR2 associated with risk of sporadic postmenopausal breast cancer
    • Hunter D.J., Kraft P., Jacobs K.B., Cox D.G., Yeager M., Hankinson S.E., et al. A genome-wide association study identifies alleles in FGFR2 associated with risk of sporadic postmenopausal breast cancer. Nat. Genet. 2007, 39:870-874.
    • (2007) Nat. Genet. , vol.39 , pp. 870-874
    • Hunter, D.J.1    Kraft, P.2    Jacobs, K.B.3    Cox, D.G.4    Yeager, M.5    Hankinson, S.E.6
  • 17
    • 85090878417 scopus 로고    scopus 로고
    • LDheatmap: an R function for graphical display of pairwise linkage disequilibria between single nucleotide polymorphisms
    • Ji-Hyung Shin S.B., McNeney Brad, Graham Jinko LDheatmap: an R function for graphical display of pairwise linkage disequilibria between single nucleotide polymorphisms. J.Stat. Softw. Code Snippets 2006, 16:1-9.
    • (2006) J.Stat. Softw. Code Snippets , vol.16 , pp. 1-9
    • Ji-Hyung Shin, S.B.1    McNeney, B.2    Graham, J.3
  • 18
    • 33845432928 scopus 로고    scopus 로고
    • Adjusting batch effects in microarray expression data using empirical Bayes methods
    • Johnson W.E., Li C., Rabinovic A. Adjusting batch effects in microarray expression data using empirical Bayes methods. Biostatistics 2007, 8:118-127.
    • (2007) Biostatistics , vol.8 , pp. 118-127
    • Johnson, W.E.1    Li, C.2    Rabinovic, A.3
  • 19
    • 0035702842 scopus 로고    scopus 로고
    • Brix from xenopus laevis and brx1p from yeast define a new family of proteins involved in the biogenesis of large ribosomal subunits
    • Kaser A., Bogengruber E., Hallegger M., Doppler E., Lepperdinger G., Jantsch M., et al. Brix from xenopus laevis and brx1p from yeast define a new family of proteins involved in the biogenesis of large ribosomal subunits. Biol. Chem. 2001, 382:1637-1647.
    • (2001) Biol. Chem. , vol.382 , pp. 1637-1647
    • Kaser, A.1    Bogengruber, E.2    Hallegger, M.3    Doppler, E.4    Lepperdinger, G.5    Jantsch, M.6
  • 20
    • 84862815517 scopus 로고    scopus 로고
    • A genome-wide association study identifies a breast cancer risk variant in ERBB4 at 2q34: results from the Seoul Breast Cancer Study
    • Kim H.C., Lee J.Y., Sung H., Choi J.Y., Park S.K., Lee K.M., et al. A genome-wide association study identifies a breast cancer risk variant in ERBB4 at 2q34: results from the Seoul Breast Cancer Study. Breast Cancer Res. 2012, 14:R56.
    • (2012) Breast Cancer Res. , vol.14
    • Kim, H.C.1    Lee, J.Y.2    Sung, H.3    Choi, J.Y.4    Park, S.K.5    Lee, K.M.6
  • 21
    • 33947201809 scopus 로고    scopus 로고
    • Analysis of the vertebrate insulator protein CTCF-binding sites in the human genome
    • Kim T.H., Abdullaev Z.K., Smith A.D., Ching K.A., Loukinov D.I., Green R.D., et al. Analysis of the vertebrate insulator protein CTCF-binding sites in the human genome. Cell 2007, 128:1231-1245.
    • (2007) Cell , vol.128 , pp. 1231-1245
    • Kim, T.H.1    Abdullaev, Z.K.2    Smith, A.D.3    Ching, K.A.4    Loukinov, D.I.5    Green, R.D.6
  • 22
    • 0037160082 scopus 로고    scopus 로고
    • Pescadillo is essential for nucleolar assembly, ribosome biogenesis, and mammalian cell proliferation
    • Lerch-Gaggl A., Haque J., Li J., Ning G., Traktman P., Duncan S.A. Pescadillo is essential for nucleolar assembly, ribosome biogenesis, and mammalian cell proliferation. J.Biol. Chem. 2002, 277:45347-45355.
    • (2002) J.Biol. Chem. , vol.277 , pp. 45347-45355
    • Lerch-Gaggl, A.1    Haque, J.2    Li, J.3    Ning, G.4    Traktman, P.5    Duncan, S.A.6
  • 24
    • 84873288058 scopus 로고    scopus 로고
    • Integrative eQTL-based analyses reveal the biology of breast cancer risk loci
    • Li Q., Seo J.H., Stranger B., McKenna A., Pe'er I., Laframboise, et al. Integrative eQTL-based analyses reveal the biology of breast cancer risk loci. Cell 2013, 152:633-641.
    • (2013) Cell , vol.152 , pp. 633-641
    • Li, Q.1    Seo, J.H.2    Stranger, B.3    McKenna, A.4    Pe'er, I.5    Laframboise6
  • 25
    • 24044440971 scopus 로고    scopus 로고
    • BiNGO: a Cytoscape plugin to assess overrepresentation of gene ontology categories in biological networks
    • Maere S., Heymans K., Kuiper M. BiNGO: a Cytoscape plugin to assess overrepresentation of gene ontology categories in biological networks. Bioinformatics 2005, 21:3448-3449.
    • (2005) Bioinformatics , vol.21 , pp. 3448-3449
    • Maere, S.1    Heymans, K.2    Kuiper, M.3
  • 26
    • 84865822182 scopus 로고    scopus 로고
    • Systematic localization of common disease-associated variation in regulatory DNA
    • Maurano M.T., Humbert R., Rynes E., Thurman R.E., Haugen E., Wang H., et al. Systematic localization of common disease-associated variation in regulatory DNA. Science 2012, 337:1190-1195.
    • (2012) Science , vol.337 , pp. 1190-1195
    • Maurano, M.T.1    Humbert, R.2    Rynes, E.3    Thurman, R.E.4    Haugen, E.5    Wang, H.6
  • 31
    • 79952256739 scopus 로고    scopus 로고
    • The architecture of gene regulatory variation across multiple human tissues: the MuTHER study
    • Nica A.C., Parts L., Glass D., Nisbet J., Barrett A., Sekowska M., et al. The architecture of gene regulatory variation across multiple human tissues: the MuTHER study. PLoS Genet. 2011, 7:e1002003.
    • (2011) PLoS Genet. , vol.7
    • Nica, A.C.1    Parts, L.2    Glass, D.3    Nisbet, J.4    Barrett, A.5    Sekowska, M.6
  • 32
    • 57749083496 scopus 로고    scopus 로고
    • Regulation of estrogen receptor-mediated long range transcription via evolutionarily conserved distal response elements
    • Pan Y.F., Wansa K.D., Liu M.H., Zhao B., Hong S.Z., Tan P.Y., et al. Regulation of estrogen receptor-mediated long range transcription via evolutionarily conserved distal response elements. J.Biol. Chem. 2008, 283:32977-32988.
    • (2008) J.Biol. Chem. , vol.283 , pp. 32977-32988
    • Pan, Y.F.1    Wansa, K.D.2    Liu, M.H.3    Zhao, B.4    Hong, S.Z.5    Tan, P.Y.6
  • 33
    • 67549119096 scopus 로고    scopus 로고
    • CTCF: master weaver of the genome
    • Phillips J.E., Corces V.G. CTCF: master weaver of the genome. Cell 2009, 137:1194-1211.
    • (2009) Cell , vol.137 , pp. 1194-1211
    • Phillips, J.E.1    Corces, V.G.2
  • 34
    • 77950460661 scopus 로고    scopus 로고
    • Understanding mechanisms underlying human gene expression variation with RNA sequencing
    • Pickrell J.K., Marioni J.C., Pai A.A., Degner J.F., Engelhardt B.E., Nkadori, et al. Understanding mechanisms underlying human gene expression variation with RNA sequencing. Nature 2010, 464:768-772.
    • (2010) Nature , vol.464 , pp. 768-772
    • Pickrell, J.K.1    Marioni, J.C.2    Pai, A.A.3    Degner, J.F.4    Engelhardt, B.E.5    Nkadori6
  • 35
    • 36048947234 scopus 로고    scopus 로고
    • Breast cancer: origins and evolution
    • Polyak K. Breast cancer: origins and evolution. J.Clin. Invest. 2007, 117:3155-3163.
    • (2007) J.Clin. Invest. , vol.117 , pp. 3155-3163
    • Polyak, K.1
  • 37
    • 68949216248 scopus 로고    scopus 로고
    • Systems genetics analysis of cancer susceptibility: from mouse models to humans
    • Quigley D., Balmain A. Systems genetics analysis of cancer susceptibility: from mouse models to humans. Nat. Rev. Genet. 2009, 10:651-657.
    • (2009) Nat. Rev. Genet. , vol.10 , pp. 651-657
    • Quigley, D.1    Balmain, A.2
  • 38
    • 63649143888 scopus 로고    scopus 로고
    • Genetic architecture of mouse skin inflammation and tumour susceptibility
    • Quigley D., To M., Pérez-Losada J., Pelorosso F., Mao J., Nagase H., et al. Genetic architecture of mouse skin inflammation and tumour susceptibility. Nature 2009, 458:505-508.
    • (2009) Nature , vol.458 , pp. 505-508
    • Quigley, D.1    To, M.2    Pérez-Losada, J.3    Pelorosso, F.4    Mao, J.5    Nagase, H.6
  • 39
    • 78651453837 scopus 로고    scopus 로고
    • Network analysis of skin tumor progression identifies a rewired genetic architecture affecting inflammation and tumor susceptibility
    • Quigley D.A., To M.D., Kim I.J., Lin K.K., Albertson D.G., Sjolund, et al. Network analysis of skin tumor progression identifies a rewired genetic architecture affecting inflammation and tumor susceptibility. Genome Biol. 2011, 12:R5.
    • (2011) Genome Biol. , vol.12
    • Quigley, D.A.1    To, M.D.2    Kim, I.J.3    Lin, K.K.4    Albertson, D.G.5    Sjolund6
  • 41
    • 84876555533 scopus 로고    scopus 로고
    • Resolving the polymorphism-in-probe problem is critical for correct interpretation of expression QTL studies
    • Ramasamy A., Trabzuni D., Gibbs J.R., Dillman A., Hernandez D.G., Arepalli S., et al. Resolving the polymorphism-in-probe problem is critical for correct interpretation of expression QTL studies. Nucleic Acids Res. 2013, 41:e88.
    • (2013) Nucleic Acids Res. , vol.41
    • Ramasamy, A.1    Trabzuni, D.2    Gibbs, J.R.3    Dillman, A.4    Hernandez, D.G.5    Arepalli, S.6
  • 42
    • 70349874808 scopus 로고    scopus 로고
    • R/bioconductor software for Illumina's Infinium whole-genome genotyping BeadChips
    • Ritchie M.E., Carvalho B.S., Hetrick K.N., Tavare S., Irizarry R.A. R/bioconductor software for Illumina's Infinium whole-genome genotyping BeadChips. Bioinformatics 2009, 25:2621-2623.
    • (2009) Bioinformatics , vol.25 , pp. 2621-2623
    • Ritchie, M.E.1    Carvalho, B.S.2    Hetrick, K.N.3    Tavare, S.4    Irizarry, R.A.5
  • 43
    • 82655189429 scopus 로고    scopus 로고
    • A co-ordinated interaction between CTCF and ER in breast cancer cells
    • Ross-Innes C.S., Brown G.D., Carroll J.S. A co-ordinated interaction between CTCF and ER in breast cancer cells. BMC Genom. 2011, 12:593.
    • (2011) BMC Genom. , vol.12 , pp. 593
    • Ross-Innes, C.S.1    Brown, G.D.2    Carroll, J.S.3
  • 44
    • 77956190895 scopus 로고    scopus 로고
    • Genetic variants on chromosome 5p12 are associated with risk of breast cancer in African American women: the Black Women's Health Study
    • Ruiz-Narvaez E.A., Rosenberg L., Rotimi C.N., Cupples L.A., Boggs D.A., Adeyemo A., et al. Genetic variants on chromosome 5p12 are associated with risk of breast cancer in African American women: the Black Women's Health Study. Breast Cancer Res. Treat 2010, 123:525-530.
    • (2010) Breast Cancer Res. Treat , vol.123 , pp. 525-530
    • Ruiz-Narvaez, E.A.1    Rosenberg, L.2    Rotimi, C.N.3    Cupples, L.A.4    Boggs, D.A.5    Adeyemo, A.6
  • 45
  • 46
    • 0035845511 scopus 로고    scopus 로고
    • Gene expression patterns of breast carcinomas distinguish tumor subclasses with clinical implications
    • Sorlie T., Perou C.M., Tibshirani R., Aas T., Geisler S., Johnsen H., et al. Gene expression patterns of breast carcinomas distinguish tumor subclasses with clinical implications. Proc. Natl. Acad. Sci. USA 2001, 98:10869-10874.
    • (2001) Proc. Natl. Acad. Sci. USA , vol.98 , pp. 10869-10874
    • Sorlie, T.1    Perou, C.M.2    Tibshirani, R.3    Aas, T.4    Geisler, S.5    Johnsen, H.6
  • 47
    • 33748259774 scopus 로고    scopus 로고
    • CTCF mediates long-range chromatin looping and local histone modification in the beta-globin locus
    • Splinter E., Heath H., Kooren J., Palstra R.J., Klous P., Grosveld F., et al. CTCF mediates long-range chromatin looping and local histone modification in the beta-globin locus. Genes Dev. 2006, 20:2349-2354.
    • (2006) Genes Dev. , vol.20 , pp. 2349-2354
    • Splinter, E.1    Heath, H.2    Kooren, J.3    Palstra, R.J.4    Klous, P.5    Grosveld, F.6
  • 48
    • 44349087530 scopus 로고    scopus 로고
    • Common variants on chromosome 5p12 confer susceptibility to estrogen receptor-positive breast cancer
    • Stacey S.N., Manolescu A., Sulem P., Thorlacius S., Gudjonsson S.A., Jonsson G.F., et al. Common variants on chromosome 5p12 confer susceptibility to estrogen receptor-positive breast cancer. Nat. Genet. 2008, 40:703-706.
    • (2008) Nat. Genet. , vol.40 , pp. 703-706
    • Stacey, S.N.1    Manolescu, A.2    Sulem, P.3    Thorlacius, S.4    Gudjonsson, S.A.5    Jonsson, G.F.6
  • 50
    • 0032570607 scopus 로고    scopus 로고
    • A novel 52 kDa protein induces apoptosis and concurrently activates c-Jun N-terminal kinase 1 (JNK1) in mouse C3H10T1/2 fibroblasts
    • Sun L., Liu Y., Fremont M., Schwarz S., Siegmann M., Matthies R., et al. A novel 52 kDa protein induces apoptosis and concurrently activates c-Jun N-terminal kinase 1 (JNK1) in mouse C3H10T1/2 fibroblasts. Gene 1998, 208:157-166.
    • (1998) Gene , vol.208 , pp. 157-166
    • Sun, L.1    Liu, Y.2    Fremont, M.3    Schwarz, S.4    Siegmann, M.5    Matthies, R.6


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