-
1
-
-
84893346471
-
Large-scale genotyping identifies 41 novel breast cancer susceptibility loci
-
Michailidou, K. et al. Large-scale genotyping identifies 41 novel breast cancer susceptibility loci. Nat. Genet. 45, 392-398 (2013).
-
(2013)
Nat. Genet.
, vol.45
, pp. 392-398
-
-
Michailidou, K.1
-
2
-
-
34250006413
-
Genome-wide association study identifies novel breast cancer susceptibility loci
-
Easton, D. F. et al. Genome-wide association study identifies novel breast cancer susceptibility loci. Nature 447, 1087-1093 (2007).
-
(2007)
Nature
, vol.447
, pp. 1087-1093
-
-
Easton, D.F.1
-
3
-
-
34250001297
-
A genome-wide association study identifies alleles in FGFR2 associated with risk of sporadic postmenopausal breast cancer
-
Hunter, D. J. et al. A genome-wide association study identifies alleles in FGFR2 associated with risk of sporadic postmenopausal breast cancer. Nat. Genet. 39, 870-874 (2007).
-
(2007)
Nat. Genet.
, vol.39
, pp. 870-874
-
-
Hunter, D.J.1
-
4
-
-
64549113646
-
FGFR2 variants and breast cancer risk: Fine-scale mapping using African American studies and analysis of chromatin conformation
-
Udler, M. S. et al. FGFR2 variants and breast cancer risk: fine-scale mapping using African American studies and analysis of chromatin conformation. Hum. Mol. Genet. 18, 1692-1703 (2009).
-
(2009)
Hum. Mol. Genet.
, vol.18
, pp. 1692-1703
-
-
Udler, M.S.1
-
5
-
-
43249123378
-
Heterogeneity of breast cancer associations with five susceptibility loci by clinical and pathological characteristics
-
Garcia-Closas, M. et al. Heterogeneity of breast cancer associations with five susceptibility loci by clinical and pathological characteristics. PLoS. Genet. 4, e1000054 (2008).
-
(2008)
PLoS. Genet.
, vol.4
-
-
Garcia-Closas, M.1
-
6
-
-
45149099137
-
Allele-specific up-regulation of FGFR2 increases susceptibility to breast cancer
-
Meyer, K. B. et al. Allele-specific up-regulation of FGFR2 increases susceptibility to breast cancer. PLoS Biol. 6, e108 (2008).
-
(2008)
PLoS Biol.
, vol.6
-
-
Meyer, K.B.1
-
7
-
-
84863725615
-
Correlation of breast cancer susceptibility loci with patient characteristics, metastasis-free survival, and mRNA expression of the nearest genes
-
Riaz, M. et al. Correlation of breast cancer susceptibility loci with patient characteristics, metastasis-free survival, and mRNA expression of the nearest genes. Breast Cancer Res. Treat. 133, 843-851 (2012).
-
(2012)
Breast Cancer Res. Treat.
, vol.133
, pp. 843-851
-
-
Riaz, M.1
-
8
-
-
84873288058
-
Integrative eQTL-based analyses reveal the biology of breast cancer risk loci
-
Li, Q. et al. Integrative eQTL-based analyses reveal the biology of breast cancer risk loci. Cell 152, 633-641 (2013).
-
(2013)
Cell
, vol.152
, pp. 633-641
-
-
Li, Q.1
-
9
-
-
49049096654
-
Genetic mosaic analysis reveals FGF receptor 2 function in terminal end buds during mammary gland branching morphogenesis
-
Lu, P., Ewald, A. J., Martin, G. R. & Werb, Z. Genetic mosaic analysis reveals FGF receptor 2 function in terminal end buds during mammary gland branching morphogenesis. Dev. Biol. 321, 77-87 (2008).
-
(2008)
Dev. Biol.
, vol.321
, pp. 77-87
-
-
Lu, P.1
Ewald, A.J.2
Martin, G.R.3
Werb, Z.4
-
10
-
-
84871803181
-
FGFR2 promotes breast tumorigenicity through maintenance of breast tumor-initiating cells
-
Kim, S. et al. FGFR2 promotes breast tumorigenicity through maintenance of breast tumor-initiating cells. PLoS One 8, e51671 (2013).
-
(2013)
PLoS One
, vol.8
-
-
Kim, S.1
-
11
-
-
75149170979
-
Fibroblast growth factor receptor signalling: From development to cancer
-
Turner, N. & Grose, R. Fibroblast growth factor receptor signalling: from development to cancer. Nat. Rev. Cancer 10, 118-129 (2010).
-
(2010)
Nat. Rev. Cancer
, vol.10
, pp. 118-129
-
-
Turner, N.1
Grose, R.2
-
12
-
-
52149097555
-
Regulatory networks define phenotypic classes of human stem cell lines
-
Muller, F. J. et al. Regulatory networks define phenotypic classes of human stem cell lines. Nature 455, 401-405 (2008).
-
(2008)
Nature
, vol.455
, pp. 401-405
-
-
Muller, F.J.1
-
13
-
-
75149195336
-
The transcriptional network for mesenchymal transformation of brain tumours
-
Carro, M. S. et al. The transcriptional network for mesenchymal transformation of brain tumours. Nature 463, 318-325 (2010).
-
(2010)
Nature
, vol.463
, pp. 318-325
-
-
Carro, M.S.1
-
14
-
-
16844376909
-
Reverse engineering of regulatory networks in human B cells
-
Basso, K. et al. Reverse engineering of regulatory networks in human B cells. Nat. Genet. 37, 382-390 (2005).
-
(2005)
Nat. Genet.
, vol.37
, pp. 382-390
-
-
Basso, K.1
-
15
-
-
33750353888
-
Reverse engineering cellular networks
-
Margolin, A. A. et al. Reverse engineering cellular networks. Nat. Protoc. 1, 662-671 (2006).
-
(2006)
Nat. Protoc.
, vol.1
, pp. 662-671
-
-
Margolin, A.A.1
-
16
-
-
33744937606
-
Receptor specificity of the fibroblast growth factor family. The complete mammalian FGF family
-
Zhang, X. et al. Receptor specificity of the fibroblast growth factor family. The complete mammalian FGF family. J. Biol. Chem. 281, 15694-15700 (2006).
-
(2006)
J. Biol. Chem.
, vol.281
, pp. 15694-15700
-
-
Zhang, X.1
-
17
-
-
34247871298
-
Distinct roles of fibroblast growth factor receptor 1 and 2 in regulating cell survival and epithelial-mesenchymal transition
-
Xian, W., Schwertfeger, K. L. & Rosen, J. M. Distinct roles of fibroblast growth factor receptor 1 and 2 in regulating cell survival and epithelial-mesenchymal transition. Mol. Endocrinol. 21, 987-1000 (2007).
-
(2007)
Mol. Endocrinol.
, vol.21
, pp. 987-1000
-
-
Xian, W.1
Schwertfeger, K.L.2
Rosen, J.M.3
-
18
-
-
84868198825
-
Breast cancer risk-associated SNPs modulate the affinity of chromatin for FOXA1 and alter gene expression
-
Cowper-Sal lari, R. et al. Breast cancer risk-associated SNPs modulate the affinity of chromatin for FOXA1 and alter gene expression. Nat. Genet. 44, 1191-1198 (2012).
-
(2012)
Nat. Genet.
, vol.44
, pp. 1191-1198
-
-
Cowper-Sal Lari, R.1
-
19
-
-
84861527388
-
The genomic and transcriptomic architecture of 2,000 breast tumours reveals novel subgroups
-
Curtis, C. et al. The genomic and transcriptomic architecture of 2,000 breast tumours reveals novel subgroups. Nature 486, 346-352 (2012).
-
(2012)
Nature
, vol.486
, pp. 346-352
-
-
Curtis, C.1
-
20
-
-
84877028141
-
Comprehensive molecular portraits of human breast tumours
-
TCGA
-
TCGA. Comprehensive molecular portraits of human breast tumours. Nature 490, 61-70 (2012).
-
(2012)
Nature
, vol.490
, pp. 61-70
-
-
-
21
-
-
7444264020
-
The origins of estrogen receptor alpha-positive and estrogen receptor alpha-negative human breast cancer
-
Allred, D. C., Brown, P. & Medina, D. The origins of estrogen receptor alpha-positive and estrogen receptor alpha-negative human breast cancer. Breast Cancer Res. 6, 240-245 (2004).
-
(2004)
Breast Cancer Res.
, vol.6
, pp. 240-245
-
-
Allred, D.C.1
Brown, P.2
Medina, D.3
-
22
-
-
41549107036
-
GATA-3 and the regulation of the mammary luminal cell fate
-
Kouros-Mehr, H., Kim, J. W., Bechis, S. K. & Werb, Z. GATA-3 and the regulation of the mammary luminal cell fate. Curr. Opin. Cell. Biol. 20, 164-170 (2008).
-
(2008)
Curr. Opin. Cell. Biol.
, vol.20
, pp. 164-170
-
-
Kouros-Mehr, H.1
Kim, J.W.2
Bechis, S.K.3
Werb, Z.4
-
23
-
-
77953080874
-
FOXA1 is an essential determinant of ERα expression and mammary ductal morphogenesis
-
Bernardo, G. M. et al. FOXA1 is an essential determinant of ERα expression and mammary ductal morphogenesis. Development 137, 2045-2054 (2010).
-
(2010)
Development
, vol.137
, pp. 2045-2054
-
-
Bernardo, G.M.1
-
24
-
-
84855508998
-
ETV6 mutations in early immature human T cell leukemias
-
Van Vlierberghe, P. et al. ETV6 mutations in early immature human T cell leukemias. J. Exp. Med. 208, 2571-2579 (2011).
-
(2011)
J. Exp. Med.
, vol.208
, pp. 2571-2579
-
-
Van Vlierberghe, P.1
-
25
-
-
80055090025
-
Most random gene expression signatures are significantly associated with breast cancer outcome
-
Venet, D., Dumont, J. E. & Detours, V. Most random gene expression signatures are significantly associated with breast cancer outcome. PLoS. Comput. Biol. 7, e1002240 (2011).
-
(2011)
PLoS. Comput. Biol.
, vol.7
-
-
Venet, D.1
Dumont, J.E.2
Detours, V.3
-
26
-
-
33750442923
-
Genome-wide analysis of estrogen receptor binding sites
-
Carroll, J. S. et al. Genome-wide analysis of estrogen receptor binding sites. Nat. Genet. 38, 1289-1297 (2006).
-
(2006)
Nat. Genet.
, vol.38
, pp. 1289-1297
-
-
Carroll, J.S.1
-
27
-
-
78651250284
-
FOXA1 is a key determinant of estrogen receptor function and endocrine response
-
Hurtado, A., Holmes, K. A., Ross-Innes, C. S., Schmidt, D. & Carroll, J. S. FOXA1 is a key determinant of estrogen receptor function and endocrine response. Nat. Genet. 43, 27-33 (2010).
-
(2010)
Nat. Genet.
, vol.43
, pp. 27-33
-
-
Hurtado, A.1
Holmes, K.A.2
Ross-Innes, C.S.3
Schmidt, D.4
Carroll, J.S.5
-
28
-
-
84871995408
-
GATA3 acts upstream of FOXA1 in mediating ER binding by shaping enhancer accessibility
-
Theodorou, V., Stark, R., Menon, S. & Carroll, J. GATA3 acts upstream of FOXA1 in mediating ER binding by shaping enhancer accessibility. Genome Res. 23, 12-22 (2013).
-
(2013)
Genome Res.
, vol.23
, pp. 12-22
-
-
Theodorou, V.1
Stark, R.2
Menon, S.3
Carroll, J.4
-
29
-
-
77954954652
-
Genome-wide analysis of ETS-family DNA-binding in vitro and in vivo
-
Wei, G. H. et al. Genome-wide analysis of ETS-family DNA-binding in vitro and in vivo. EMBO J. 29, 2147-2160 (2010).
-
(2010)
EMBO J.
, vol.29
, pp. 2147-2160
-
-
Wei, G.H.1
-
30
-
-
84859935998
-
R/Bioconductor package for representing modular structures, nested networks and multiple levels of hierarchical associations
-
Castro, M. A. A., Wang, X., Fletcher, M. N. C., Meyer, K. B. & Markowetz, F. RedeR: R/Bioconductor package for representing modular structures, nested networks and multiple levels of hierarchical associations. Genome Biol. 13, R29 (2012).
-
(2012)
Genome Biol.
, vol.13
-
-
Castro, M.A.A.1
Wang, X.2
Fletcher, M.N.C.3
Meyer, K.B.4
Markowetz, F.5
Rede, R.6
-
31
-
-
0035936113
-
The E2F1-3 transcription factors are essential for cellular proliferation
-
Wu, L. et al. The E2F1-3 transcription factors are essential for cellular proliferation. Nature 414, 457-462 (2001).
-
(2001)
Nature
, vol.414
, pp. 457-462
-
-
Wu, L.1
-
32
-
-
13944274222
-
FoxM1 is required for execution of the mitotic programme and chromosome stability
-
Laoukili, J. et al. FoxM1 is required for execution of the mitotic programme and chromosome stability. Nat. Cell Biol. 7, 126-136 (2005).
-
(2005)
Nat. Cell Biol.
, vol.7
, pp. 126-136
-
-
Laoukili, J.1
-
33
-
-
77953255983
-
A human B-cell interactome identifies MYB and FOXM1 as master regulators of proliferation in germinal centers
-
Lefebvre, C. et al. A human B-cell interactome identifies MYB and FOXM1 as master regulators of proliferation in germinal centers. Mol. Syst. Biol. 6, 377 (2010).
-
(2010)
Mol. Syst. Biol.
, vol.6
, pp. 377
-
-
Lefebvre, C.1
-
34
-
-
70249134919
-
Molecular networks as sensors and drivers of common human diseases
-
Schadt, E. E. Molecular networks as sensors and drivers of common human diseases. Nature 461, 218-223 (2009).
-
(2009)
Nature
, vol.461
, pp. 218-223
-
-
Schadt, E.E.1
-
35
-
-
0036788641
-
Human securin interacts with p53 and modulates p53-mediated transcriptional activity and apoptosis
-
Bernal, J. A. et al. Human securin interacts with p53 and modulates p53-mediated transcriptional activity and apoptosis. Nat. Genet. 32, 306-311 (2002).
-
(2002)
Nat. Genet.
, vol.32
, pp. 306-311
-
-
Bernal, J.A.1
-
36
-
-
0345306331
-
Ligand-independent activation of estrogen receptor alpha by XBP-1
-
Ding, L. et al. Ligand-independent activation of estrogen receptor alpha by XBP-1. Nucleic Acids Res. 31, 5266-5274 (2003).
-
(2003)
Nucleic Acids Res.
, vol.31
, pp. 5266-5274
-
-
Ding, L.1
-
37
-
-
80052398200
-
Cellular reprogramming by the conjoint action of ERα, FOXA1, and GATA3 to a ligand-inducible growth state
-
Kong, S. L., Li, G., Loh, S. L., Sung, W. K. & Liu, E. T. Cellular reprogramming by the conjoint action of ERα, FOXA1, and GATA3 to a ligand-inducible growth state. Mol. Syst. Biol. 7, 526 (2011).
-
(2011)
Mol. Syst. Biol.
, vol.7
, pp. 526
-
-
Kong, S.L.1
Li, G.2
Loh, S.L.3
Sung, W.K.4
Liu, E.T.5
-
38
-
-
84893367956
-
Fine scale mapping and functional analysis of the breast cancer 11q13 (CCND1) locus
-
French, J. et al. Fine scale mapping and functional analysis of the breast cancer 11q13 (CCND1) locus. Am. J. Hum. Genet. 92, 1-15 (2013).
-
(2013)
Am. J. Hum. Genet.
, vol.92
, pp. 1-15
-
-
French, J.1
-
39
-
-
79961127256
-
Prostate derived ETS factor (PDEF): A putative tumor metastasis suppressor
-
Steffan, J. J. & Koul, H. K. Prostate derived ETS factor (PDEF): a putative tumor metastasis suppressor. Cancer Lett. 310, 109-117 (2011).
-
(2011)
Cancer Lett.
, vol.310
, pp. 109-117
-
-
Steffan, J.J.1
Koul, H.K.2
-
40
-
-
35448931036
-
Prostate-derived Ets transcription factor overexpression is associated with nodal metastasis and hormone receptor positivity in invasive breast cancer
-
Turcotte, S., Forget, M. A., Beauseigle, D., Nassif, E. & Lapointe, R. Prostate-derived Ets transcription factor overexpression is associated with nodal metastasis and hormone receptor positivity in invasive breast cancer. Neoplasia 9, 788-796 (2007).
-
(2007)
Neoplasia
, vol.9
, pp. 788-796
-
-
Turcotte, S.1
Forget, M.A.2
Beauseigle, D.3
Nassif, E.4
Lapointe, R.5
-
41
-
-
35348902518
-
Expression characteristics of prostate-derived Ets factor support a role in breast and prostate cancer progression
-
Sood, A. K. et al. Expression characteristics of prostate-derived Ets factor support a role in breast and prostate cancer progression. Hum. Pathol. 38, 1628-1638 (2007).
-
(2007)
Hum. Pathol.
, vol.38
, pp. 1628-1638
-
-
Sood, A.K.1
-
42
-
-
0042635811
-
Pdef expression in human breast cancer is correlated with invasive potential and altered gene expression
-
Feldman, R. J., Sementchenko, V. I., Gayed, M., Fraig, M. M. & Watson, D. K. Pdef expression in human breast cancer is correlated with invasive potential and altered gene expression. Cancer Res. 63, 4626-4631 (2003).
-
(2003)
Cancer Res.
, vol.63
, pp. 4626-4631
-
-
Feldman, R.J.1
Sementchenko, V.I.2
Gayed, M.3
Fraig, M.M.4
Watson, D.K.5
-
43
-
-
0033957171
-
PDEF, a novel prostate epithelium-specific ets transcription factor, interacts with the androgen receptor and activates prostate-specific antigen gene expression
-
Oettgen, P. et al. PDEF, a novel prostate epithelium-specific ets transcription factor, interacts with the androgen receptor and activates prostate-specific antigen gene expression. J. Biol. Chem. 275, 1216-1225 (2000).
-
(2000)
J. Biol. Chem.
, vol.275
, pp. 1216-1225
-
-
Oettgen, P.1
-
44
-
-
84865451304
-
The transcription factor SPDEF suppresses prostate tumour metastasis
-
Steffan, J., Koul, S., Meacham, R. & Koul, H. The transcription factor SPDEF suppresses prostate tumour metastasis. J. Biol. Chem. 287, 29968-29978 (2012).
-
(2012)
J. Biol. Chem.
, vol.287
, pp. 29968-29978
-
-
Steffan, J.1
Koul, S.2
Meacham, R.3
Koul, H.4
-
45
-
-
78549251736
-
Analysing biological pathways in genome-wide association studies
-
Wang, K., Li, M. & Hakonarson, H. Analysing biological pathways in genome-wide association studies. Nat. Rev. Genet. 11, 843-854 (2010).
-
(2010)
Nat. Rev. Genet.
, vol.11
, pp. 843-854
-
-
Wang, K.1
Li, M.2
Hakonarson, H.3
-
46
-
-
64049085062
-
A network view of disease and compound screening
-
Schadt, E. E., Friend, S. H. & Shaywitz, D. A. A network view of disease and compound screening. Nat. Rev. Drug. Discov. 8, 286-295 (2009).
-
(2009)
Nat. Rev. Drug. Discov.
, vol.8
, pp. 286-295
-
-
Schadt, E.E.1
Friend, S.H.2
Shaywitz, D.A.3
-
47
-
-
34548561818
-
Beadarray: R classes and methods for Illumina bead-based data
-
Dunning, M. J., Smith, M. L., Ritchie, M. E. & Tavare, S. Beadarray: R classes and methods for Illumina bead-based data. Bioinformatics 23, 2183-2184 (2007).
-
(2007)
Bioinformatics
, vol.23
, pp. 2183-2184
-
-
Dunning, M.J.1
Smith, M.L.2
Ritchie, M.E.3
Tavare, S.4
-
48
-
-
67649834440
-
ChIP-seq: Using high-throughput sequencing to discover protein-DNA interactions
-
Schmidt, D. et al. ChIP-seq: using high-throughput sequencing to discover protein-DNA interactions. Methods 48, 240-248 (2009).
-
(2009)
Methods
, vol.48
, pp. 240-248
-
-
Schmidt, D.1
-
49
-
-
84855228591
-
Reconstruction of nuclear receptor network reveals that NR2E3 is a novel upstream regulator of ESR1 in breast cancer
-
Park, Y. Y. et al. Reconstruction of nuclear receptor network reveals that NR2E3 is a novel upstream regulator of ESR1 in breast cancer. EMBO Mol. Med. 4, 52-67 (2012).
-
(2012)
EMBO Mol. Med.
, vol.4
, pp. 52-67
-
-
Park, Y.Y.1
-
50
-
-
4544341015
-
Linear models and empirical bayes methods for assessing differential expression in microarray experiments
-
Smyth, G. K. Linear models and empirical bayes methods for assessing differential expression in microarray experiments. Stat. Appl. Genet. Mol. Biol. 3, Article3 (2004).
-
(2004)
Stat. Appl. Genet. Mol. Biol.
, vol.3
, pp. 3
-
-
Smyth, G.K.1
-
51
-
-
84863304598
-
-
R-Core-Team. R Foundation for Statistical Computing, Vienna, Austria, ISBN 3-900051-07-0
-
R-Core-Team. R: A Language and Environment For Statistical Computing (R Foundation for Statistical Computing, Vienna, Austria, ISBN 3-900051-07-0, 2012).
-
(2012)
R: A Language and Environment for Statistical Computing
-
-
-
52
-
-
59949086432
-
Minet: A R/Bioconductor package for inferring large transcriptional networks using mutual information
-
Meyer, P. E., Lafitte, F. & Bontempi, G. Minet: A R/Bioconductor package for inferring large transcriptional networks using mutual information. BMC Bioinformat. 9, 461 (2008).
-
(2008)
BMC Bioinformat.
, vol.9
, pp. 461
-
-
Meyer, P.E.1
Lafitte, F.2
Bontempi, G.3
-
53
-
-
27344435774
-
Gene set enrichment analysis: A knowledge-based approach for interpreting genome-wide expression profiles
-
Subramanian, A. et al. Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles. Proc. Natl Acad. Sci. USA 102, 15545-15550 (2005).
-
(2005)
Proc. Natl Acad. Sci. USA
, vol.102
, pp. 15545-15550
-
-
Subramanian, A.1
-
54
-
-
34250359062
-
ENCODE: More genomic empowerment
-
Weinstock, G. M. ENCODE: more genomic empowerment. Genome Res. 17, 667-668 (2007).
-
(2007)
Genome Res.
, vol.17
, pp. 667-668
-
-
Weinstock, G.M.1
-
55
-
-
53849146020
-
Model-based analysis of ChIP-Seq (MACS)
-
Zhang, Y. et al. Model-based analysis of ChIP-Seq (MACS). Genome Biol. 9, R137 (2008).
-
(2008)
Genome Biol.
, vol.9
-
-
Zhang, Y.1
-
56
-
-
0347755531
-
The UCSC Table Browser data retrieval tool
-
Karolchik, D. et al. The UCSC Table Browser data retrieval tool. Nucleic Acids Res. 32, D493-D496 (2004).
-
(2004)
Nucleic Acids Res.
, vol.32
-
-
Karolchik, D.1
-
57
-
-
67849122320
-
MEME SUITE: Tools for motif discovery and searching
-
Bailey, T. L. et al. MEME SUITE: tools for motif discovery and searching. Nucleic Acids Res. 37, W202-W208 (2009).
-
(2009)
Nucleic Acids Res.
, vol.37
-
-
Bailey, T.L.1
|