-
1
-
-
84877765675
-
Systematic analysis of challenge-driven improvements in molecular prognostic models for breast cancer
-
A. A. Margolin, E. Bilal, E. Huang, T. C. Norman, L. Ottestad, B. H. Mecham, B. Sauerwine, M. R. Kellen, L. M. Mangravite, M. D. Furia, H. K. M. Vollan, O. M. Rueda, J. Guinney, N. A. Deflaux, B. Hoff, X. Schildwachter, H. G. Russnes, D. Park, V. O. Vang, T. Pirtle, L. Youseff, C. Citro, C. Curtis, V. N. Kristensen, J. Hellerstein, S. H. Friend, G. Stolovitzky, S. Aparicio, C. Caldas, A. L. Borresen-Dale, Systematic analysis of challenge-driven improvements in molecular prognostic models for breast cancer. Sci. Transl. Med. 5, 181re1 (2013).
-
(2013)
Sci. Transl. Med.
, vol.5
-
-
Margolin, A.A.1
Bilal, E.2
Huang, E.3
Norman, T.C.4
Ottestad, L.5
Mecham, B.H.6
Sauerwine, B.7
Kellen, M.R.8
Mangravite, L.M.9
Furia, M.D.10
Vollan, H.K.M.11
Rueda, O.M.12
Guinney, J.13
Deflaux, N.A.14
Hoff, B.15
Schildwachter, X.16
Russnes, H.G.17
Park, D.18
Vang, V.O.19
Pirtle, T.20
Youseff, L.21
Citro, C.22
Curtis, C.23
Kristensen, V.N.24
Hellerstein, J.25
Friend, S.H.26
Stolovitzky, G.27
Aparicio, S.28
Caldas, C.29
Borresen-Dale, A.L.30
more..
-
2
-
-
84874763866
-
Biomolecular events in cancer revealed by attractor metagenes
-
W. Y. Cheng, T. H. Yang, D. Anastassiou, Biomolecular events in cancer revealed by attractor metagenes. PLoS Comput. Biol. 9, e1002920 (2013).
-
(2013)
PLoS Comput. Biol.
, vol.9
-
-
Cheng, W.Y.1
Yang, T.H.2
Anastassiou, D.3
-
3
-
-
79952284127
-
Hallmarks of cancer: The next generation
-
D. Hanahan, R. A. Weinberg, Hallmarks of cancer: The next generation. Cell 144, 646-674 (2011).
-
(2011)
Cell
, vol.144
, pp. 646-674
-
-
Hanahan, D.1
Weinberg, R.A.2
-
4
-
-
84861527388
-
The genomic and transcriptomic architecture of 2,000 breast tumours reveals novel subgroups
-
METABRIC Group
-
C. Curtis, S. P. Shah, S. F. Chin, G. Turashvili, O. M. Rueda, M. J. Dunning, D. Speed, A. G. Lynch, S. Samarajiwa, Y. Yuan, S. Gräf, G. Ha, G. Haffari, A. Bashashati, R. Russell, S. McKinney, METABRIC Group, A. Langerød, A. Green, E. Provenzano, G. Wishart, S. Pinder, P. Watson, F. Markowetz, L. Murphy, I. Ellis, A. Purushotham, A. L. Borresen-Dale, J. D. Brenton, S. Tavaré, C. Caldas, S. Aparicio, 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
Shah, S.P.2
Chin, S.F.3
Turashvili, G.4
Rueda, O.M.5
Dunning, M.J.6
Speed, D.7
Lynch, A.G.8
Samarajiwa, S.9
Yuan, Y.10
Gräf, S.11
Ha, G.12
Haffari, G.13
Bashashati, A.14
Russell, R.15
McKinney, S.16
Langerød, A.17
Green, A.18
Provenzano, E.19
Wishart, G.20
Pinder, S.21
Watson, P.22
Markowetz, F.23
Murphy, L.24
Ellis, I.25
Purushotham, A.26
Borresen-Dale, A.L.27
Brenton, J.D.28
Tavaré, S.29
Caldas, C.30
Aparicio, S.31
more..
-
6
-
-
3242770671
-
Overall C as a measure of discrimination in survival analysis: Model specific population value and confidence interval estimation
-
M. J. Pencina, R. B. D'Agostino, Overall C as a measure of discrimination in survival analysis: Model specific population value and confidence interval estimation. Stat. Med. 23, 2109-2123 (2004).
-
(2004)
Stat. Med.
, vol.23
, pp. 2109-2123
-
-
Pencina, M.J.1
D'Agostino, R.B.2
-
7
-
-
0004188848
-
-
(Wiley-Interscience, Hoboken, ed. 2, 748.
-
T. M. Cover, J. O. Y. A. Thomas, Elements of Information Theory (Wiley-Interscience, Hoboken, ed. 2, 2006), pp. xxiii, 748.
-
(2006)
Elements of Information Theory
-
-
Cover, T.M.1
Thomas, J.O.Y.A.2
-
8
-
-
33845382806
-
Nonparametric estimation from incomplete observations
-
E. L. Kaplan, P. Meier, Nonparametric estimation from incomplete observations. J. Am. Stat. Assoc. 53, 457-481 (1958).
-
(1958)
J. Am. Stat. Assoc.
, vol.53
, pp. 457-481
-
-
Kaplan, E.L.1
Meier, P.2
-
9
-
-
78049348480
-
Multi-cancer computational analysis reveals invasion-associated variant of desmoplastic reaction involving INHBA, THBS2 and COL11A1
-
H. Kim, J. Watkinson, V. Varadan, D. Anastassiou, Multi-cancer computational analysis reveals invasion-associated variant of desmoplastic reaction involving INHBA, THBS2 and COL11A1. BMC Med. Genomics 3, 51 (2010).
-
(2010)
BMC Med. Genomics
, vol.3
, pp. 51
-
-
Kim, H.1
Watkinson, J.2
Varadan, V.3
Anastassiou, D.4
-
10
-
-
52649085237
-
Novel molecular subtypes of serous and endometrioid ovarian cancer linked to clinical outcome
-
R. W. Tothill, A. V. Tinker, J. George, R. Brown, S. B. Fox, S. Lade, D. S. Johnson, M. K. Trivett, D. Etemadmoghadam, B. Locandro, N. Traficante, S. Fereday, J. A. Hung, Y. E. Chiew, I. Haviv, D. Gertig, A. DeFazio, D. D. Bowtell, Novel molecular subtypes of serous and endometrioid ovarian cancer linked to clinical outcome. Clin. Cancer Res. 14, 5198-5208 (2008).
-
(2008)
Clin. Cancer Res.
, vol.14
, pp. 5198-5208
-
-
Tothill, R.W.1
Tinker, A.V.2
George, J.3
Brown, R.4
Fox, S.B.5
Lade, S.6
Johnson, D.S.7
Trivett, M.K.8
Etemadmoghadam, D.9
Locandro, B.10
Traficante, N.11
Fereday, S.12
Hung, J.A.13
Chiew, Y.E.14
Haviv, I.15
Gertig, D.16
Defazio, A.17
Bowtell, D.D.18
-
11
-
-
68149153184
-
SLP-76-ADAP adaptor module regulates LFA-1 mediated costimulation and T cell motility
-
H. Wang, B. Wei, G. Bismuth, C. E. Rudd, SLP-76-ADAP adaptor module regulates LFA-1 mediated costimulation and T cell motility. Proc. Natl. Acad. Sci. U.S.A. 106, 12436-12441 (2009).
-
(2009)
Proc. Natl. Acad. Sci. U.S.A.
, vol.106
, pp. 12436-12441
-
-
Wang, H.1
Wei, B.2
Bismuth, G.3
Rudd, C.E.4
-
12
-
-
80055090025
-
Most random gene expression signatures are significantly associated with breast cancer outcome
-
D. Venet, J. E. Dumont, V. Detours, 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
-
13
-
-
33144462268
-
Gene expression profiling in breast cancer: Understanding the molecular basis of histologic grade to improve prognosis
-
C. Sotiriou, P. Wirapati, S. Loi, A. Harris, S. Fox, J. Smeds, H. Nordgren, P. Farmer, V. Praz, B. Haibe-Kains, C. Desmedt, D. Larsimont, F. Cardoso, H. Peterse, D. Nuyten, M. Buyse, M. J. Van de Vijver, J. Bergh, M. Piccart, M. Delorenzi, Gene expression profiling in breast cancer: Understanding the molecular basis of histologic grade to improve prognosis. J. Natl. Cancer Inst. 98, 262-272 (2006).
-
(2006)
J. Natl. Cancer Inst.
, vol.98
, pp. 262-272
-
-
Sotiriou, C.1
Wirapati, P.2
Loi, S.3
Harris, A.4
Fox, S.5
Smeds, J.6
Nordgren, H.7
Farmer, P.8
Praz, V.9
Haibe-Kains, B.10
Desmedt, C.11
Larsimont, D.12
Cardoso, F.13
Peterse, H.14
Nuyten, D.15
Buyse, M.16
Vijver De Van, M.J.17
Bergh, J.18
Piccart, M.19
Delorenzi, M.20
more..
-
14
-
-
33748286796
-
A signature of chromosomal instability inferred from gene expression profiles predicts clinical outcome in multiple human cancers
-
S. L. Carter, A. C. Eklund, I. S. Kohane, L. N. Harris, Z. Szallasi, A signature of chromosomal instability inferred from gene expression profiles predicts clinical outcome in multiple human cancers. Nat. Genet. 38, 1043-1048 (2006).
-
(2006)
Nat. Genet.
, vol.38
, pp. 1043-1048
-
-
Carter, S.L.1
Eklund, A.C.2
Kohane, I.S.3
Harris, L.N.4
Szallasi, Z.5
-
15
-
-
84864268943
-
The gene expression landscape of breast cancer is shaped by tumor protein p53 status and epithelialmesenchymal transition
-
E. Fredlund, J. Staaf, J. K. Rantala, O. Kallioniemi, A. Borg, M. Ringnér, The gene expression landscape of breast cancer is shaped by tumor protein p53 status and epithelialmesenchymal transition. Breast Cancer Res. 14, R113 (2012).
-
(2012)
Breast Cancer Res.
, vol.14
-
-
Fredlund, E.1
Staaf, J.2
Rantala, J.K.3
Kallioniemi, O.4
Borg, A.5
Ringnér, M.6
-
16
-
-
58149334773
-
A stroma-related gene signature predicts resistance to neoadjuvant chemotherapy in breast cancer
-
P. Farmer, H. Bonnefoi, P. Anderle, D. Cameron, P. Wirapati, V. Becette, S. André, M. Piccart, M. Campone, E. Brain, G. Macgrogan, T. Petit, J. Jassem, F. Bibeau, E. Blot, J. Bogaerts, M. Aguet, J. Bergh, R. Iggo, M. Delorenzi, A stroma-related gene signature predicts resistance to neoadjuvant chemotherapy in breast cancer. Nat. Med. 15, 68-74 (2009).
-
(2009)
Nat. Med.
, vol.15
, pp. 68-74
-
-
Farmer, P.1
Bonnefoi, H.2
Anderle, P.3
Cameron, D.4
Wirapati, P.5
Becette, V.6
André, S.7
Piccart, M.8
Campone, M.9
Brain, E.10
MacGrogan, G.11
Petit, T.12
Jassem, J.13
Bibeau, F.14
Blot, E.15
Bogaerts, J.16
Aguet, M.17
Bergh, J.18
Iggo, R.19
Delorenzi, M.20
more..
-
17
-
-
18244409687
-
Gene expression profiling predicts clinical outcome of breast cancer
-
L. J. van 't Veer, H. Dai, M. J. van de Vijver, Y. D. He, A. A. Hart, M. Mao, H. L. Peterse, K. van der Kooy, M. J. Marton, A. T. Witteveen, G. J. Schreiber, R. M. Kerkhoven, C. Roberts, P. S. Linsley, R. Bernards, S. H. Friend, Gene expression profiling predicts clinical outcome of breast cancer. Nature 415, 530-536 (2002).
-
(2002)
Nature
, vol.415
, pp. 530-536
-
-
Van't Veer, L.J.1
Dai, H.2
Van De Vijver, M.J.3
He, Y.D.4
Hart, A.A.5
Mao, M.6
Peterse, H.L.7
Van Der Kooy, K.8
Marton, M.J.9
Witteveen, A.T.10
Schreiber, G.J.11
Kerkhoven, R.M.12
Roberts, C.13
Linsley, P.S.14
Bernards, R.15
Friend, S.H.16
-
18
-
-
19944422061
-
A multigene assay to predict recurrence of tamoxifen-treated, node-negative breast cancer
-
S. Paik, S. Shak, G. Tang, C. Kim, J. Baker, M. Cronin, F. L. Baehner, M. G. Walker, D. Watson, T. Park, W. Hiller, E. R. Fisher, D. L. Wickerham, J. Bryant, N. Wolmark, A multigene assay to predict recurrence of tamoxifen-treated, node-negative breast cancer. N. Engl. J. Med. 351, 2817-2826 (2004).
-
(2004)
N. Engl. J. Med.
, vol.351
, pp. 2817-2826
-
-
Paik, S.1
Shak, S.2
Tang, G.3
Kim, C.4
Baker, J.5
Cronin, M.6
Baehner, F.L.7
Walker, M.G.8
Watson, D.9
Park, T.10
Hiller, W.11
Fisher, E.R.12
Wickerham, D.L.13
Bryant, J.14
Wolmark, N.15
-
19
-
-
84855175895
-
Human cancer cells express Slug-based epithelial-mesenchymal transition gene expression signature obtained in vivo
-
D. Anastassiou, V. Rumjantseva, W. Cheng, J. Huang, P. D. Canoll, D. J. Yamashiro, J. J. Kandel, Human cancer cells express Slug-based epithelial-mesenchymal transition gene expression signature obtained in vivo. BMC Cancer 11, 529 (2011).
-
(2011)
BMC Cancer
, vol.11
, pp. 529
-
-
Anastassiou, D.1
Rumjantseva, V.2
Cheng, W.3
Huang, J.4
Canoll, P.D.5
Yamashiro, D.J.6
Kandel, J.J.7
-
20
-
-
84877028141
-
Comprehensive molecular portraits of human breast tumours
-
The Cancer Genome Atlas Network
-
The Cancer Genome Atlas Network, Comprehensive molecular portraits of human breast tumours. Nature 490, 61-70 (2012).
-
(2012)
Nature
, vol.490
, pp. 61-70
-
-
-
21
-
-
0001646484
-
Cox's regression model for counting processes: A large sample study
-
P. K. Andersen, R. D. Gill, Cox's regression model for counting processes: A large sample study. Ann. Stat. 10, 1100-1120 (1982).
-
(1982)
Ann. Stat.
, vol.10
, pp. 1100-1120
-
-
Andersen, P.K.1
Gill, R.D.2
-
23
-
-
0031211090
-
A decision-theoretic generalization of on-line learning and an application to boosting
-
Y. Freund, R. E. Schapire, A decision-theoretic generalization of on-line learning and an application to boosting. J. Comput. Syst. Sci. 55, 119-139 (1997).
-
(1997)
J. Comput. Syst. Sci.
, vol.55
, pp. 119-139
-
-
Freund, Y.1
Schapire, R.E.2
-
24
-
-
0035470889
-
Greedy function approximation: A gradient boosting machine
-
J. H. Friedman, Greedy function approximation: A gradient boosting machine. Ann. Stat. 29, 1189-1232 (2001).
-
(2001)
Ann. Stat.
, vol.29
, pp. 1189-1232
-
-
Friedman, J.H.1
|