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Publications J.I. Herschkowitz, K. Simin, V.J. Weigman, I. Mikaelian, J. Usary, Z. Hu, K.E. Rasmussen, L.P. Jones, S. Assefnia, S. Chandrasekharan, M. G. Backlund, Y. Yin, A.I. Khramtsov, R.I. Glazer, P.H. Brown, J.E. Green, L. Kopelovich, P.A. Furth, J.P. Palazzo, O.I. Olopade, P.S. Bernard, G.A. Churchill, T. Van Dyke, and C.M. Perou. Identification of conserved gene expression features across human and murine mammary tumors, Submitted (2006). D. N. Hayes, S. Monti, G. Parmigiani, K. Naoki, A. Bhattacharjee, D. Beer, M. Garber, C. M. Perou, and M. Meyerson. Gene Expression Profiling Reveals Reproducible Human Lung Adenocarcinoma Subtypes in Multiple Independent DNA Microarray Cohorts, Journal of Clinical Oncology, In Press (2006).
C. Fan, D.S. Oh, L.
Wessels, B. Weigelt, D.S. Nuyten, A. Nobel, L.J. van't Veer,
and C.M. Perou.
Different gene expression-based predictors for breast cancer patients are
concordant, The New England Journal of Medicine, 355:6,
560-569 (2006).
Z. Hu, C. Fan, D.S. Oh,
J.S. Marron, X. He, B.F.
Qaqish, C. Livasy,
L.A. Carey,
E. Reynolds, L. Dressler, A. Nobel, J. Parker,
M.G. Ewend, L.R. Sawyer,
D. Xiang, J. Wu, Y. Liu, R. Nanda, M.
Tretiakova, A.R. Orrico, D. Dreher, J.P. Palazzo, L. Perreard, E. Nelson,
M. Mone, H. Hansen, M. Mullins, J.F. Quackenbush, O.I. Olopade, Philip S.
Bernard and C.M. Perou. The Molecular
Portraits of Breast Tumors Are Conserved Across Microarray Platforms, BMC Genomics 7:96
(27Apr
2006). L. A. Carey, C. M. Perou, C. A. Livasy, L. G. Dressler, K. Conway-Dorsey, G. Karaca, D. Cowan, M. Troester, C. Kit Tse, S. Edmiston, S. L. Deming, J. Geradts, M. C. U. Cheang, T. O. Nielsen, P. G. Norman, H. Shelton Earp, and R. C. Millikan. The Poor Prognosis Basal-like Breast Cancer Subtype is Over-represented in Young African-American Women, Journal of the American Medical Association, 7:295, 2492-502 (2006).
L.
Perreard, C. Fan,
J.F. Quackenbush,
M. Mullins, N.P.
Gauthier, E. Nelson, M. Mone,
H. Hansen, J.
McGreevey, S.
Buyes, A. Szabo, K. Rasmussen, O.I. Olopade, A. Ruiz Orrico, D. Dreher, R.Walters, J.P.
Palazzo,
Z. Hu, X. He, J. Parker, C.M. Perou and P.S. Bernard.
Classification and Risk Stratification of Invasive Breast Carcinomas using
a Real-Time Quantitative RT-PCR Assay, Breast Cancer Research, Apr
20;8(2):R23 [Epub ahead of print] (2006).
D.S. Oh,
M.A. Troester, J. Usary, Z. Hu, X. He, C. Fan, J. Wu, L.A. Carey and
C.M. Perou.
Estrogen-regulated genes predict survival in hormone receptor-positive
breast cancers, Journal of Clinical Oncology, Apr 10;
24(11):1656-64 (2006).
M.L. Whitfield, L.K. George, G.D. Grant, and C.M. Perou. Common Markers of Proliferation, Nature Reviews Cancer, 6; 99-106 (2006). C.A. Livasy, G. Karaca, R. Nanda, M. Tretiakova, O.I. Olopade and C.M. Perou. Phenotypic Evaluation of the Basal-Like Subtype of Invasive Breast Carcinoma, Modern Pathology, Dec 2, 1-8 (2005). J.V. Moyano, J. Evans, F. Chen, M. Lu, M.E. Werner, F. Yehiely, L.K. Diaz, E. Wiley, D. Turbin, T.O. Nielsen, C.M. Perou, and V.L. Cryns. aB-Crystallin: A Novel Oncoprotein that Transforms Mammary Epithelial Cells by a MEK-dependent Mechanism and Predicts Poor Clinical Outcome in Breast Cancer, Journal of Clinical Investigation, 4;116, 261-270 (2006).
B. Weigelt, Z. Hu, X.
He, C. Livasy, L.A. Carey, M.G. Ewend, A.M Glas, C.M. Perou and L.J.
van't Veer. Molecular portraits and 70-gene prognosis signature are
preserved throughout the metastatic process of breast cancer, Cancer
Research, 65(20), 9155-8 (2005). R. Rouzier, C.M. Perou, W.F. Symmans, N. Ibrahim, M. Cristofanilli, K. Anderson, K.R. Hess, J. Stec, M. Ayers, P. Wagner, B. Wang, D. Gold, P. Morandi, C. Fan, I. Rabiul, D.J. Fiterman, J.S. Ross, G.N. Hortobagyi and L. Pusztai. Different molecular subtypes of breast cancer respond differently to preoperative chemotherapy, Clinical Cancer Research, 11 (16), 5678-85 (2005). https://genome.unc.edu/pubsup/ccr_perou_05/
Z. Hu, M.A. Troester and
C.M. Perou. High Reproducibility using Sodium Hydroxide-Stripped
Long Oligonucleotide DNA Microarrays, Biotechniques, 38 (1), 121-4
(2005). M.A. Troester, K.A. Hoadley, J.S. Parker and C.M. Perou. Prediction of Toxicant-Specific Gene Expression Signatures following Chemotherapeutic Treatment of Breast Cell Lines, Environmental Health Perspectives, 112 (16),1607-13 (2004a). A. Szabo, C.M. Perou, M. Karaca, L. Perreard, J.F. Quackenbush and P.S. Bernard. Statistical Modeling for Selecting Housekeeper Genes. Genome Biology, 5 R59 (2004).
M.A. Troester, K.A.
Hoadley, T. Sorlie, A.-L. Borresen-Dale, P.E. Lonning,
B. Shea-Herbert,
J.W. Shay, W. K. Kaufmann and C.M. Perou. Cell-type
Specific Responses to
Chemotherapeutics in Breast Cancer, Cancer Research, 64, 4218-26
(2004b).
T.O. Nielsen, F.D. Hsu,
K. Jensen, M. Cheang, G. Karaca, Z. Hu, T. Hernandez-Boussard,
C. Livasy, D. Cowan, L. Dressler, L A. Akslen, Joseph Ragaz, A.M. Gown,
C.B. Gilks, M. van de Rijn and C.M. Perou. Immunohistochemical and
Clinical Characterization of the Breast Basal-like Subtype of Invasive
Carcinoma, Clinical Cancer Research 10, 5367-74 (2004).
J. Usary, V. Llaca, G.
Karaca, S.
Presswala, M.
Karaca, X. He, A. Langerod, R. Karesen,
D.S. Oh, L.G. Dressler, P.E. Lonning, R.L. Strausberg, S. Chanock, A.-L.
Borresen-Dale and C.M. Perou. Mutations of GATA3 in human breast
tumors, Oncogene 46, 7669-78 (2004).
C.H. Chung, J.S. Parker,
G. Karaca, J. Wu, W.K. Funkhouser, D. Moore, D. Butterfoss, D. Xiang, A. Zanation,
X. Yin, W.W. Shockley, M.C. Weissler, L.G. Dressler, C.G. Shores, W.G.
Yarbrough and C.M. Perou. Molecular Classification of Head and Neck
Squamous Cell Carcinomas using Patterns of Gene Expression, Cancer Cell
5, 489-500 (2004).
M. Benito, J. Parker, Q.
Du, C. M. Perou and J. S. Marron. Adjustment of systematic
microarray data biases, Bioinformatics 20, 105-14 (2004).
T. Sorlie, R. Tibshirani,
J. Parker, T. Hastie, J. S. Marron, A. Nobel, S. Deng, H. Johnsen, R.
Pesich, S. Geisler, C. M. Perou, P. E. Lonning, P. O. Brown, A.-L. Borresen-Dale
and D. Botstein. Repeated Observation of Breast Tumor Subtypes in
Independent Gene Expression Data Sets, PNAS 100, 8418-23 (2003). C. H. Chung, P. S. Bernard and C. M. Perou, Molecular Portraits and the Family Tree of Cancer, Nature Genetics Supplement: Chipping Forecast II 32, 533-540 (2002). M. van de Rijn, C. M. Perou, R. Tibshirani, P. Haas, O. Kallioniemi, J. Kononen, J. Torhorst, G. Sauter, M. Zuber, O. R Kochli, F. Mross, H. Dieterich, S. S. Jeffrey, R. Seitz, D. T. Ross, D. Botstein and P. O. Brown. Expression of cytokeratins 17 and 5 identifies a group of breast carcinomas with poor clinical outcome, Amer. J. of Pathology 161, 1991-1996 (2002).
J. R. Pollack, T. Sorlie, C. M. Perou, C. A. Rees, P. E. Lonning, R. Tibshirani, D. Botstein,
A.-L. Borresen-Dale
and P. O. Brown. Microarray analysis reveals a major direct role of DNA
copy number alteration in the transcriptional program of human breast
tumors, PNAS 99, 12963-12968 (2002).
M. W. Whitfield, G.
Sherlock, A. Saldanha, J. Murray, C. A. Ball, K. E. Alexander, J. C.
Matese, C. M. Perou, M. M. Hurt, P. O. Brown and D. Botstein.
Identification of genes periodically expressed in the human cell cycle and
their expression in tumors, Mol. Biol. of the Cell 13, 1977-2000
(2002). D. T. Ross and C. M. Perou. A comparison of gene expression signatures from breast tumors and breast tissue derived cell lines, Disease Markers 17, 99-109 (2001).
M. E. Garber, O. G.
Troyanskaya, K. Schluens, S. Petersen, Z. Thaesler, M. Pacyna-Gengelbach,
M. van de Rijn, G. D. Rosen, C. M. Perou, R. I. Whyte, R. B.
Altman, P. O. Brown, D. Botstein and I. Petersen. Diversity of
gene expression in adenocarcinoma of the lung, PNAS 98, 13784-9
(2001). B. S. Finlin, C.-L. Gau, G. A. Murphy, H. Shao, T. Kimel, R. S. Seitz, Y.-F. Chiu, D. Botstein, P. O. Brown, C. J. Der, F. Tamanoi, D. A. Andres and C. M. Perou. RERG, an estrogen-regulated and growth-inhibitory gene, encodes a novel Ras-related protein, Journal of Biological Chemistry 276, 42259-67 (2001).
T. Sorlie, C. M.
Perou, R. Tibshirani, T. Aas, S. Geisler, H. Johnsen, T. Hastie, M. B.
Eisen, M. van de Rijn, S. S. Jeffrey, T. Thorsen, H. Quist, C. A. Rees, P.
O. Brown, D. Botstein, P. E. Lonning, A.-L. Borresen-Dale. Gene expression
patterns of breast carcinomas distinguish tumor subclasses with potential
clinical implications, PNAS 19, 10869-10874 (2001).
C. M. Perou,
T. Sorlie, M. B. Eisen, M. van de Rijn, S. S. Jeffrey, C. A. Rees, J. R.
Pollack, D. T. Ross, H. Johnsen, L. A. Akslen, O. Fluge, A.
Pergamenschikov, C. Williams, S. X. Zhu, P. E. Lonning, A.-L. Borresen-Dale,
Patrick O. Brown, and David Botstein. Molecular Portraits of Human Breast
Tumors, Nature, 406, 747-52 (2000).
J. R. Pollack, C. M.
Perou, A. Alizadeh, M. B. Eisen, A. Pergamenschikov, C. F. Williams,
S. S. Jeffrey, D. Botstein and P. O. Brown. Genome-Wide Analysis of DNA
Copy Number Variations Using cDNA Microarrays, Nature Genetics 23,
41-46 (1999).
C. M. Perou,
S. S. Jeffrey, M. van de Rijn, M. B. Eisen, D. T. Ross, A. Pergamenschikov,
C. A. Rees, C. F. Williams, S. X. Zhu, J. C. F. Lee, D. Lashkari, D.
Shalon, P. O. Brown, and D. Botstein. Distinctive Gene Expression Patterns
in Human Mammary Epithelial Cells and Breast Cancers, PNAS 96,
9212-9217 (1999).
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