Research Output 2004 2017

  • 32049 Citations
  • 41 h-Index
  • 53 Article
  • 3 Comment/debate
  • 1 Chapter
  • 1 Review article
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Article
2017
2 Citations

Age at diagnosis, obesity, smoking, and molecular subtypes in muscle-invasive bladder cancer

Sun, X., Hoadley, K. A., Kim, W. Y., Furberg, H., Olshan, A. F. & Troester, M. A. Jun 1 2017 In : Cancer Causes and Control. 28, 6, p. 539-544 6 p.

Research output: Contribution to journalArticle

Urinary Bladder Neoplasms
Obesity
Smoking
Muscles
Atlases
2016
31 Citations
B-Lymphocytes
Confidence Intervals
Neoplasms
Melanoma
Survival
61 Citations

Molecular heterogeneity and response to neoadjuvant human epidermal growth factor receptor 2 targeting in CALGB 40601, a randomized phase III trial of paclitaxel plus trastuzumab with or without lapatinib

Carey, L. A., Berry, D. A., Cirrincione, C. T., Barry, W. T., Pitcher, B. N., Harris, L. N., Ollila, D. W., Krop, I. E., Henry, N. L., Weckstein, D. J., Anders, C. K., Singh, B., Hoadley, K. A., Iglesia, M., Cheang, M. C. U., Perou, C. M., Winer, E. P. & Hudis, C. A. Feb 20 2016 In : Journal of Clinical Oncology. 34, 6, p. 542-549 8 p.

Research output: Contribution to journalArticle

Paclitaxel
Tumor Microenvironment
Gene Expression
Arm
Hormones
2015
501 Citations

Comprehensive, integrative genomic analysis of diffuse lower-grade gliomas

Brat, D. J. , Verhaak, R. G. W. , Aldape, K. D. , Yung, W. K. A. , Salama, S. R. , Cooper, L. A. D. , Rheinbay, E. , Miller, C. R. , Vitucci, M. , Morozova, O. , Robertson, A. G. , Noushmehr, H. , Laird, P. W. , Cherniack, A. D. , Akbani, R. , Huse, J. T. , Ciriello, G. , Poisson, L. M. , Barnholtz-Sloan, J. S. , Berger, M. S. & 30 others Brennan, C., Colen, R. R., Colman, H., Flanders, A. E., Giannini, C., Grifford, M., Iavarone, A., Jain, R., Joseph, I., Kim, J., Kasaian, K., Mikkelsen, T., Murray, B. A., O'Neill, B. P., Pachter, L., Parsons, D. W., Sougnez, C., Sulman, E. P., Vandenberg, S. R., Van Meir, E. G., Von Deimling, A., Zhang, H., Crain, D., Lau, K., Mallery, D., Morris, S., Paulauskis, J., Penny, R., Shelton, T. & Sherman, M. Jun 25 2015 In : New England Journal of Medicine. 372, 26, p. 2481-2498 18 p.

Research output: Contribution to journalArticle

Glioma
Mutation
Glioblastoma
DNA Methylation
Exome
701 Citations

Comprehensive genomic characterization of head and neck squamous cell carcinomas

The Cancer Genome Atlas Network Jan 29 2015 In : Nature. 517, 7536, p. 576-582 7 p.

Research output: Contribution to journalArticle

Mutation
Neoplasms
TNF Receptor-Associated Factor 3
cdc Genes
Atlases
272 Citations

Comprehensive Molecular Portraits of Invasive Lobular Breast Cancer

Ciriello, G. , Gatza, M. L. , Beck, A. H. , Wilkerson, M. D. , Rhie, S. K. , Pastore, A. , Zhang, H. , McLellan, M. , Yau, C. , Kandoth, C. , Bowlby, R. , Shen, H. , Hayat, S. , Fieldhouse, R. , Lester, S. C. , Tse, G. M. K. , Factor, R. E. , Collins, L. C. , Allison, K. H. , Chen, Y. Y. & 30 others Jensen, K., Johnson, N. B., Oesterreich, S., Mills, G. B., Cherniack, A. D., Robertson, G., Benz, C., Sander, C., Laird, P. W., Hoadley, K. A., King, T. A., Akbani, R., Auman, J. T., Balasundaram, M., Balu, S., Barr, T., Benz, S., Berrios, M., Beroukhim, R., Bodenheimer, T., Boice, L., Bootwalla, M. S., Bowen, J., Brooks, D., Chin, L., Cho, J., Chudamani, S., Davidsen, T., Demchok, J. A. & Dennison, J. B. Oct 8 2015 In : Cell. 163, 2, p. 506-519 14 p.

Research output: Contribution to journalArticle

Lobular Carcinoma
Breast Neoplasms
Phosphorylation
Cadherins
Tumors
484 Citations

Genomic Classification of Cutaneous Melanoma

The Cancer Genome Atlas Network Jun 20 2015 In : Cell. 161, 7, p. 1681-1696 16 p.

Research output: Contribution to journalArticle

Melanoma
Skin
T-cells
Lymphocytes
Pathology
5 Citations

Proteomic profiling of patient-derived glioblastoma xenografts identifies a subset with activated EGFR: Implications for drug development

Brown, K. E., Chagoya, G., Kwatra, S. G., Yen, T., Keir, S. T., Cooter, M., Hoadley, K. A., Rasheed, A., Lipp, E. S., McLendon, R., Ali-Osman, F., Bigner, D. D., Sampson, J. H. & Kwatra, M. M. Jun 1 2015 In : Journal of Neurochemistry. 133, 5, p. 730-738 9 p.

Research output: Contribution to journalArticle

Glioblastoma
Heterografts
Proteomics
Pharmaceutical Preparations
Genes
17 Citations

Response and survival of breast cancer intrinsic subtypes following multi-agent neoadjuvant chemotherapy

Prat, A., Fan, C., Fernández, A., Hoadley, K. A., Martinello, R., Vidal, M., Viladot, M., Pineda, E., Arance, A., Muñoz, M., Paré, L., Cheang, M. C. U., Adamo, B. & Perou, C. M. Dec 18 2015 In : BMC Medicine. 13, 1, 303

Research output: Contribution to journalArticle

Triple Negative Breast Neoplasms
Breast Neoplasms
Drug Therapy
Survival
Recurrence
2 Citations

The Cancer Genome Atlas Project on Muscle-invasive Bladder Cancer

Lerner, S. P., Weinstein, J., Kwiatkowski, D., Kim, J., Robertson, G., Hoadley, K. A., Akbani, R., Creighton, C. & on behalf of the TCGA Muscle Invasive Bladder Cancer Analysis Working Group Jan 1 2015 In : European Urology Focus. 1, 1, p. 94-95 2 p.

Research output: Contribution to journalArticle

Atlases
Urinary Bladder Neoplasms
Genome
Muscles
Neoplasms
353 Citations

The Molecular Taxonomy of Primary Prostate Cancer

Abeshouse, A. , Ahn, J. , Akbani, R. , Ally, A. , Amin, S. , Andry, C. D. , Annala, M. , Aprikian, A. , Armenia, J. , Arora, A. , Auman, J. T. , Balasundaram, M. , Balu, S. , Barbieri, C. E. , Bauer, T. , Benz, C. C. , Bergeron, A. , Beroukhim, R. , Berrios, M. , Bivol, A. & 30 others Bodenheimer, T., Boice, L., Bootwalla, M. S., Borges Dos Reis, R., Boutros, P. C., Bowen, J., Bowlby, R., Boyd, J., Bradley, R. K., Breggia, A., Brimo, F., Bristow, C. A., Brooks, D., Broom, B. M., Bryce, A. H., Bubley, G., Burks, E., Butterfield, Y. S. N., Button, M., Canes, D., Carlotti, C. G., Carlsen, R., Carmel, M., Carroll, P. R., Carter, S. L., Cartun, R., Carver, B. S., Chan, J. M., Chang, M. T. & Chen, Y. Nov 5 2015 In : Cell. 163, 4, p. 1011-1025 15 p.

Research output: Contribution to journalArticle

Taxonomies
Prostatic Neoplasms
Genes
Androgen Receptors
Tumors
162 Citations

Virtual microdissection identifies distinct tumor- and stroma-specific subtypes of pancreatic ductal adenocarcinoma

Moffitt, R. A., Marayati, R., Flate, E. L., Volmar, K. E., Loeza, S. G. H., Hoadley, K. A., Rashid, N. U., Williams, L. A., Eaton, S. C., Chung, A. H., Smyla, J. K., Anderson, J. M., Kim, H. J., Bentrem, D. J., Talamonti, M. S., Iacobuzio-Donahue, C. A., Hollingsworth, M. A. & Yeh, J. J. Jan 1 2015 In : Nature Genetics. 47, 10, p. 1168-1178 11 p.

Research output: Contribution to journalArticle

Microdissection
Adenocarcinoma
Neoplasms
Gene Expression
Urinary Bladder Neoplasms
2014
77 Citations
RNA Sequence Analysis
Poly A
Oligonucleotide Array Sequence Analysis
Paraffin
Formaldehyde
904 Citations

Comprehensive molecular characterization of urothelial bladder carcinoma

Weinstein, J. N. , Akbani, R. , Broom, B. M. , Wang, W. , Verhaak, R. G. W. , McConkey, D. , Lerner, S. , Morgan, M. , Creighton, C. J. , Smith, C. , Cherniack, A. D. , Kim, J. , Pedamallu, C. S. , Noble, M. S. , Al-Ahmadie, H. A. , Reuter, V. E. , Rosenberg, J. E. , F.Bajorin, D. , Bochner, B. H. , Solit, D. B. & 30 others Koppie, T., Robinson, B., Gordenin, D. A., Fargo, D., Klimczak, L. J., Roberts, S. A., Au, J., Laird, P. W., Hinoue, T., Schultz, N., Ramirez, R., Hansel, D., Hoadley, K. A., Kim, W. Y., Damrauer, J. S., Baylin, S. B., Mungall, A. J., Robertson, A. G., Chu, A., Kwiatkowski, D. J., Sougnez, C., Cibulskis, K., Parker, J. S., Hayes, D. N., Jones, C. D., Mieczkowski, P. A., Auman, J. T., Perou, C. M., Rathmell, W. K. & Thorne, L. Jan 1 2014 In : Nature. 507, 7492, p. 315-322 8 p.

Research output: Contribution to journalArticle

Urinary Bladder
Carcinoma
Chromatin
RNA Sequence Analysis
Neoplasms
1157 Citations

Comprehensive molecular profiling of lung adenocarcinoma: The cancer genome atlas research network

Collisson, E. A. , Campbell, J. D. , Brooks, A. N. , Berger, A. H. , Lee, W. , Chmielecki, J. , Beer, D. G. , Cope, L. , Creighton, C. J. , Danilova, L. , Ding, L. , Getz, G. , Hammerman, P. S. , Hayes, D. N. , Hernandez, B. , Herman, J. G. , Heymach, J. V. , Jurisica, I. , Kucherlapati, R. , Kwiatkowski, D. & 290 others Ladanyi, M., Robertson, G., Schultz, N., Shen, R., Sinha, R., Sougnez, C., Tsao, M. S., Travis, W. D., Weinstein, J. N., Wigle, D. A., Wilkerson, M. D., Chu, A., Cherniack, A. D., Hadjipanayis, A., Rosenberg, M., Weisenberger, D. J., Laird, P. W., Radenbaugh, A., Ma, S., Stuart, J. M., Byers, L. A., Baylin, S. B., Govindan, R., Meyerson, M., Gabriel, S. B., Cibulskis, K., Kim, J., Stewart, C., Lichtenstein, L., Lander, E. S., Lawrence, M. S., Getz, E., Fulton, R., Fulton, L. L., McLellan, M. D., Wilson, R. K., Ye, K., Fronick, C. C., Maher, C. A., Miller, C. A., Wendl, M. C., Cabanski, C., Mardis, E., Wheeler, D., Balasundaram, M., Butterfield, Y. S. N., Carlsen, R., Chuah, E., Dhalla, N., Guin, R., Hirst, C., Lee, D., Li, H. I., Mayo, M., Moore, R. A., Mungall, A. J., Schein, J. E., Sipahimalani, P., Tam, A., Varhol, R., Robertson, A. G., Wye, N., Thiessen, N., Holt, R. A., Jones, S. J. M., Marra, M. A., Imielinski, M., Onofrio, R. C., Hodis, E., Zack, T., Helman, E., Pedamallu, C. S., Mesirov, J., Saksena, G., Schumacher, S. E., Carter, S. L., Garraway, L., Beroukhim, R., Lee, S., Mahadeshwar, H. S., Pantazi, A., Protopopov, A., Ren, X., Seth, S., Song, X., Tang, J., Yang, L., Zhang, J., Chen, P. C., Parfenov, M., Xu, A. W., Santoso, N., Chin, L., Park, P. J., Hoadley, K. A., Auman, J. T., Meng, S., Shi, Y., Buda, E., Waring, S., Veluvolu, U., Tan, D., Mieczkowski, P. A., Jones, C. D., Simons, J. V., Soloway, M. G., Bodenheimer, T., Jefferys, S. R., Roach, J., Hoyle, A. P., Wu, J., Balu, S., Singh, D., Prins, J. F., Marron, J. S., Parker, J. S., Perou, C. M., Liu, J., Maglinte, D. T., Lai, P. H., Bootwalla, M. S., Van Den Berg, D. J., Triche, T., Cho, J., DiCara, D., Heiman, D., Lin, P., Mallard, W., Voet, D., Zhang, H., Zou, L., Noble, M. S., Gehlenborg, N., Thorvaldsdottir, H., Nazaire, M. D., Robinson, J., Aksoy, B. A., Ciriello, G., Taylor, B. S., Dresdner, G., Gao, J., Gross, B., Seshan, V. E., Reva, B., Sumer, S. O., Weinhold, N., Sander, C., Ng, S., Zhu, J., Benz, C. C., Yau, C., Haussler, D., Spellman, P. T., Kimes, P. K., Broom, B. M., Wang, J., Lu, Y., Ng, P. K. S., Diao, L., Liu, W., Amos, C. I., Akbani, R., Mills, G. B., Curley, E., Paulauskis, J., Lau, K., Morris, S., Shelton, T., Mallery, D., Gardner, J., Penny, R., Saller, C., Tarvin, K., Richards, W. G., Cerfolio, R., Bryant, A., Raymond, D. P., Pennell, N. A., Farver, C., Czerwinski, C., Huelsenbeck-Dill, L., Iacocca, M., Petrelli, N., Rabeno, B., Brown, J., Bauer, T., Dolzhanskiy, C. O., Potapova, O., Rotin, D., Voronina, O., Nemirovich-Danchenko, E., Fedosenko, K. V., Gal, A., Behera, M., Ramalingam, S. S., Sica, G., Flieder, D., Boyd, J., Weaver, J. E., Kohl, B., Thinh, D. H. Q., Sandusky, G., Juhl, H., Duhig, E., Illei, P., Gabrielson, E., Shin, J., Lee, B., Rogers, K., Trusty, D., Brock, M. V., Williamson, C., Burks, E., Rieger-Christ, K., Holway, A., Sullivan, T., Asiedu, M. K., Kosari, F., Rekhtman, N., Zakowski, M., Rusch, V. W., Zippile, P., Suh, J., Pass, H., Goparaju, C., Owusu-Sarpong, Y., Bartlett, J. M. S., Kodeeswaran, S., Parfitt, J., Sekhon, H., Albert, M., Eckman, J., Myers, J. B., Morrison, C., Gaudioso, C., Borgia, J. A., Bonomi, P., Pool, M., Liptay, M. J., Moiseenko, F., Zaytseva, I., Dienemann, H., Meister, M., Schnabel, P. A., Muley, T. R., Peifer, M., Gomez-Fernandez, C., Herbert, L., Egea, S., Huang, M., Thorne, L. B., Boice, L., Salazar, A. H., Funkhouser, W. K., Rathmell, W. K., Dhir, R., Yousem, S. A., Dacic, S., Schneider, F., Siegfried, J. M., Hajek, R., Watson, M. A., McDonald, S., Meyers, B., Clarke, B., Yang, I. A., Fong, K. M., Hunter, L., Windsor, M., Bowman, R. V., Peters, S., Letovanec, I., Khan, K. Z., Jensen, M. A., Snyder, E. E., Srinivasan, D., Kahn, A. B., Baboud, J., Pot, D. A., Shaw, K. R. M., Sheth, M., Davidsen, T., Demchok, J. A., Yang, L., Wang, Z., Tarnuzzer, R., Zenklusen, J. C., Ozenberger, B. A., Sofia, H. J. & Cheney, R. Jan 1 2014 In : Nature. 511, 7511, p. 543-550 8 p.

Research output: Contribution to journalArticle

Atlases
Genome
Mutation
Research
Neoplasms
538 Citations

Integrated Genomic Characterization of Papillary Thyroid Carcinoma

Agrawal, N. , Akbani, R. , Aksoy, B. A. , Ally, A. , Arachchi, H. , Asa, S. L. , Auman, J. T. , Balasundaram, M. , Balu, S. , Baylin, S. B. , Behera, M. , Bernard, B. , Beroukhim, R. , Bishop, J. A. , Black, A. D. , Bodenheimer, T. , Boice, L. , Bootwalla, M. S. , Bowen, J. , Bowlby, R. & 30 others Bristow, C. A., Brookens, R., Brooks, D., Bryant, R., Buda, E., Butterfield, Y. S. N., Carling, T., Carlsen, R., Carter, S. L., Carty, S. E., Chan, T. A., Chen, A. Y., Cherniack, A. D., Cheung, D., Chin, L., Cho, J., Chu, A., Chuah, E., Cibulskis, K., Ciriello, G., Clarke, A., Clayman, G. L., Cope, L., Copland, J. A., Covington, K., Danilova, L., Davidsen, T., Demchok, J. A., DiCara, D. & Dhalla, N. Oct 23 2014 In : Cell. 159, 3, p. 676-690 15 p.

Research output: Contribution to journalArticle

Thyroid Neoplasms
Factor IX
Methylation
Pathology
Gene expression
32 Citations

Integrated RNA and DNA sequencing improves mutation detection in low purity tumors

Wilkerson, M. D., Cabanski, C. R., Sun, W., Hoadley, K. A., Walter, V., Mose, L. E., Troester, M. A., Hammerman, P. S., Parker, J. S., Perou, C. M. & Hayes, D. N. 2014 In : Nucleic Acids Research. 42, 13

Research output: Contribution to journalArticle

RNA Sequence Analysis
Exome
DNA Sequence Analysis
Mutation
DNA
206 Citations

Intrinsic subtypes of high-grade bladder cancer reflect the hallmarks of breast cancer biology

Damrauer, J. S., Hoadley, K. A., Chism, D. D., Fan, C., Tiganelli, C. J., Wobker, S. E., Yeh, J. J., Milowsky, M. I., Iyer, G., Parker, J. S. & Kim, W. Y. Feb 25 2014 In : Proceedings of the National Academy of Sciences of the United States of America. 111, 8, p. 3110-3115 6 p.

Research output: Contribution to journalArticle

Urinary Bladder Neoplasms
Breast Neoplasms
Gene Expression
Microarray Analysis
Standard of Care
14 Citations

Molecular features of the basal-like breast cancer subtype based on BRCA1 mutation status

Prat, A., Cruz, C., Hoadley, K. A., Díez, O., Perou, C. M. & Balmaña, J. Jan 1 2014 In : Breast Cancer Research and Treatment. 147, 1, p. 185-191 7 p.

Research output: Contribution to journalArticle

Breast Neoplasms
Mutation
DNA Methylation
Neoplasms
MicroRNAs
388 Citations

Multiplatform analysis of 12 cancer types reveals molecular classification within and across tissues of origin

The Cancer Genome Atlas Research Network Aug 14 2014 In : Cell. 158, 4, p. 929-944 16 p.

Research output: Contribution to journalArticle

Tissue
Urinary Bladder Neoplasms
Neoplasms
Genes
Data Mining
18 Citations

Overexpression of miR-146a in basal-like breast cancer cells confers enhanced tumorigenic potential in association with altered p53 status

Sandhu, R., Rein, J., D'Arcy, M., Herschkowitz, J. I., Hoadley, K. A. & Troester, M. A. Nov 1 2014 In : Carcinogenesis. 35, 11, p. 2567-2575 9 p.

Research output: Contribution to journalArticle

Breast Neoplasms
Neoplasms
Up-Regulation
Down-Regulation
Mutation Rate
49 Citations
Ovarian Neoplasms
B-Lymphocytes
Breast Neoplasms
Messenger RNA
Neoplasms
2013
9 Citations

BreakTrans: Uncovering the genomic architecture of gene fusions

Chen, K., Navin, N. E., Wang, Y., Schmidt, H. K., Wallis, J. W., Niu, B., Fan, X., Zhao, H., McLellan, M. D., Hoadley, K. A., Mardis, E. R., Ley, T. J., Perou, C. M., Wilson, R. K. & Ding, L. Aug 23 2013 In : Genome Biology. 14, 8, R87

Research output: Contribution to journalArticle

gene fusion
Gene Fusion
cancer
genomics
gene
982 Citations

Comprehensivemolecular characterization of clear cell renal cell carcinoma

Creighton, C. J. , Morgan, M. , Gunaratne, P. H. , Wheeler, D. A. , Gibbs, R. A. , Robertson, G. , Chu, A. , Beroukhim, R. , Cibulskis, K. , Signoretti, S. , Vandin, F. , Wu, H. T. , Raphael, B. J. , Verhaak, R. G. W. , Tamboli, P. , Torres-Garcia, W. , Akbani, R. , Weinstein, J. N. , Reuter, V. , Hsieh, J. J. & 30 others Brannon, A. R., Hakimi, A. A., Jacobsen, A., Ciriello, G., Reva, B., Ricketts, C. J., Linehan, W. M., Stuart, J. M., Rathmell, W. K., Hui, S., Laird, P. W., Muzny, D., Davis, C., Liu, X., Chang, K., Kakkar, N., Treviño, L. R., Benton, S., Reid, J. G., Morton, D., Doddapaneni, H., Auman, J. T., Jones, C. D., Hoadley, K. A., Mieczkowski, P. A., Topal, M. D., Parker, J. S., Hayes, D. N., Perou, C. M. & Thorne, L. Aug 28 2013 In : Nature. 499, 7456, p. 43-49 7 p.

Research output: Contribution to journalArticle

Renal Cell Carcinoma
Genes
PTEN Phosphohydrolase
Acetyl-CoA Carboxylase
Pentose Phosphate Pathway
1376 Citations

Genomic and epigenomic landscapes of adult de novo acute myeloid leukemia

Ley, T. J. , Miller, C. , Ding, L. , Raphael, B. J. , Mungall, A. J. , Robertson, G. , Hoadley, K. , Triche, T. J. , Laird, P. W. , Baty, J. D. , Fulton, L. L. , Fulton, R. , Heath, S. E. , Kalicki-Veizer, J. , Kandoth, C. , Klco, J. M. , Koboldt, D. C. , Kanchi, K. L. , Kulkarni, S. , Lamprecht, T. L. & 119 others Larson, D. E., Lin, G., Lu, C., McLellan, M. D., McMichael, J. F., Payton, J., Schmidt, H., Spencer, D. H., Tomasson, M. H., Wallis, J. W., Wartman, L. D., Watson, M. A., Welch, J., Wendl, M. C., Ally, A., Balasundaram, M., Birol, I., Butterfield, Y., Chiu, R., Chu, A., Chuah, E., Chun, H. J., Corbett, R., Dhalla, N., Guin, R., He, A., Hirst, C., Hirst, M., Holt, R. A., Jones, S., Karsan, A., Lee, D., Li, H. I., Marra, M. A., Mayo, M., Moore, R. A., Mungall, K., Parker, J., Pleasance, E., Plettner, P., Schein, J., Stoll, D., Swanson, L., Tam, A., Thiessen, N., Varhol, R., Wye, N., Zhao, Y., Gabriel, S., Getz, G., Sougnez, C., Zou, L., Leiserson, M. D. M., Vandin, F., Wu, H. T., Applebaum, F., Baylin, S. B., Akbani, R., Broom, B. M., Chen, K., Motter, T. C., Nguyen, K., Weinstein, J. N., Zhang, N., Ferguson, M. L., Adams, C., Black, A., Bowen, J., Gastier-Foster, J., Grossman, T., Lichtenberg, T., Wise, L., Davidsen, T., Demchok, J. A., Mills Shaw, K. R., Sheth, M., Sofia, H. J., Yang, L., Downing, J. R., Eley, G., Alonso, S., Ayala, B., Baboud, J., Backus, M., Barletta, S. P., Berton, D. L., Chu, A. L., Girshik, S., Jensen, M. A., Kahn, A., Kothiyal, P., Nicholls, M. C., Pihl, T. D., Pot, D. A., Raman, R., Sanbhadti, R. N., Snyder, E. E., Srinivasan, D., Walton, J., Wan, Y., Wang, Z., Issa, J. P. J., Beau, M. L., Carroll, M., Kantarjian, H., Kornblau, S., Bootwalla, M. S., Lai, P. H., Shen, H., Van Den Berg, D. J., Weisenberger, D. J., Link, D. C., Walter, M. J., Ozenberger, B. A., Mardis, E. R., Westervelt, P., Graubert, T. A., DiPersio, J. F. & Wilson, R. K. May 30 2013 In : New England Journal of Medicine. 368, 22, p. 2059-2074 16 p.

Research output: Contribution to journalArticle

Acute Myeloid Leukemia
Epigenomics
Genes
Mutation
Genome
42 Citations

Impact of tumor microenvironment and epithelial phenotypes on metabolism in breast cancer

Brauer, H. A., Makowski, L., Hoadley, K. A., Casbas-Hernandez, P., Lang, L. J., Romàn-Pèrez, E., D'Arcy, M., Freemerman, A. J., Perou, C. M. & Troester, M. A. Feb 1 2013 In : Clinical Cancer Research. 19, 3, p. 571-585 15 p.

Research output: Contribution to journalArticle

Tumor Microenvironment
Breast Neoplasms
Phenotype
Hepatocyte Growth Factor
Neoplasms
1085 Citations

Integrated genomic characterization of endometrial carcinoma

Getz, G. , Gabriel, S. B. , Cibulskis, K. , Lander, E. , Sivachenko, A. , Sougnez, C. , Lawrence, M. , Kandoth, C. , Dooling, D. , Fulton, R. , Fulton, L. , Kalicki-Veizer, J. , McLellan, M. D. , O'Laughlin, M. , Schmidt, H. , Wilson, R. K. , Ye, K. , Li, D. , Ally, A. , Balasundaram, M. & 30 others Birol, I., Butterfield, Y. S. N., Carlsen, R., Carter, C., Chu, A., Chuah, E., Chun, H. J. E., Dhalla, N., Guin, R., Hirst, C., Holt, R. A., Jones, S. J. M., Lee, D., Li, H. I., Marra, M. A., Mayo, M., Moore, R. A., Mungall, A. J., Plettner, P., Todd Auman, J., Neil Hayes, D., Jones, C. D., Mieczkowski, P. A., Parker, J. S., Perou, C. M., Topal, M. D., Hoadley, K. A., Kimryn Rathmell, W., Thorne, L. & Van Le, L. May 13 2013 In : Nature. 497, 7447, p. 67-73 7 p.

Research output: Contribution to journalArticle

Endometrial Neoplasms
Mutation
Neoplasms
Microsatellite Instability
Chromatin Assembly and Disassembly
49 Citations

Joint and individual variation explained (JIVE) for integrated analysis of multiple data types

Lock, E. F., Hoadley, K. A., Marron, J. S. & Nobel, A. B. Mar 2013 In : Annals of Applied Statistics. 7, 1, p. 523-542 20 p.

Research output: Contribution to journalArticle

Tumors
Genes
Decomposition
Gene expression
Principal component analysis
93 Citations

Molecular Subtypes in Head and Neck Cancer Exhibit Distinct Patterns of Chromosomal Gain and Loss of Canonical Cancer Genes

Walter, V. , Yin, X. , Wilkerson, M. D. , Cabanski, C. R. , Zhao, N. , Du, Y. , Ang, M. K. , Hayward, M. C. , Salazar, A. H. , Hoadley, K. A. , Fritchie, K. , Sailey, C. G. , Weissler, M. C. , Shockley, W. W. , Zanation, A. M. , Hackman, T. , Thorne, L. B. , Funkhouser, W. D. , Muldrew, K. L. , Olshan, A. F. & 4 others Randell, S. H., Wright, F. A., Shores, C. G. & Hayes, D. N. Feb 22 2013 In : PLoS ONE. 8, 2, e56823

Research output: Contribution to journalArticle

Papillomaviridae
papilloma
Neoplasm Genes
squamous cell carcinoma
Head and Neck Neoplasms
184 Citations

Prognostically relevant gene signatures of high-grade serous ovarian carcinoma

Verhaak, R. G. W. , Tamayo, P. , Yang, J. Y. , Hubbard, D. , Zhang, H. , Creighton, C. J. , Fereday, S. , Lawrence, M. , Carter, S. L. , Mermel, C. H. , Kostic, A. D. , Etemadmoghadam, D. , Saksena, G. , Cibulskis, K. , Duraisamy, S. , Levanon, K. , Sougnez, C. , Tsherniak, A. , Gomez, S. , Onofrio, R. & 21 others Gabriel, S., Chin, L., Zhang, N., Spellman, P. T., Zhang, Y., Akbani, R., Hoadley, K. A., Kahn, A., Köbel, M., Huntsman, D., Soslow, R. A., Defazio, A., Birrer, M. J., Gray, J. W., Weinstein, J. N., Bowtell, D. D., Drapkin, R., Mesirov, J. P., Getz, G., Levine, D. A. & Meyerson, M. Jan 2 2013 In : Journal of Clinical Investigation. 123, 1, p. 517-525 9 p.

Research output: Contribution to journalArticle

Ovarian Neoplasms
Carcinoma
Genes
Platinum
Survival
41 Citations

The molecular diversity of Luminal A breast tumors

Ciriello, G., Sinha, R., Hoadley, K. A., Jacobsen, A. S., Reva, B., Perou, C. M., Sander, C. & Schultz, N. Oct 2013 In : Breast Cancer Research and Treatment. 141, 3, p. 409-420 12 p.

Research output: Contribution to journalArticle

Breast Neoplasms
Mutation
Aurora Kinases
Chromosomes, Human, Pair 16
Co-Repressor Proteins
1093 Citations

The somatic genomic landscape of glioblastoma

TCGA Research Network Oct 10 2013 In : Cell. 155, 2

Research output: Contribution to journalArticle

Glioblastoma
Tumors
Telomerase
Biomarkers
Neoplasms
2012
1538 Citations

Comprehensive genomic characterization of squamous cell lung cancers

Hammerman, P. S. , Voet, D. , Lawrence, M. S. , Voet, D. , Jing, R. , Cibulskis, K. , Sivachenko, A. , Stojanov, P. , McKenna, A. , Lander, E. S. , Gabriel, S. , Getz, G. , Imielinski, M. , Helman, E. , Hernandez, B. , Pho, N. H. , Meyerson, M. , Chu, A. , Hye-Chun, J. E. , Mungall, A. J. & 30 others Pleasance, E., Robertson, A. G., Sipahimalani, P., Stoll, D., Balasundaram, M., Birol, I., Butterfield, Y. S. N., Chuah, E., Coope, R. J. N., Corbett, R., Dhalla, N., Guin, R., He, A., Hirst, C., Hirst, M., Holt, R. A., Lee, D., Auman, J. T., Hoadley, K. A., Topal, M. D., Jones, C. D., Mieczkowski, P. A., Hayes, D. N., Perou, C. M., Marron, J. S., Liu, Y., Prins, J. F., Funkhouser, W., Rathmell, W. K. & Thorne, L. B. Sep 27 2012 In : Nature. 489, 7417, p. 519-525 7 p.

Research output: Contribution to journalArticle

Squamous Cell Neoplasms
Lung Neoplasms
Mutation
Neoplasms
Genes
2717 Citations

Comprehensive molecular characterization of human colon and rectal cancer

Muzny, D. M. , Bainbridge, M. N. , Chang, K. , Dinh, H. H. , Drummond, J. A. , Fowler, G. , Kovar, C. L. , Lewis, L. R. , Morgan, M. B. , Newsham, I. F. , Reid, J. G. , Santibanez, J. , Shinbrot, E. , Trevino, L. R. , Wu, Y. Q. , Wang, M. , Gunaratne, P. , Donehower, L. A. , Creighton, C. J. , Wheeler, D. A. & 30 others Gibbs, R. A., Lawrence, M. S., Voet, D., Jing, R., Cibulskis, K., Sivachenko, A., Stojanov, P., McKenna, A., Lander, E. S., Gabriel, S., Ding, L., Fulton, R. S., Koboldt, D. C., Wylie, T., Walker, J., Dooling, D. J., Fulton, L., Delehaunty, K. D., Fronick, C. C., Demeter, R., Todd Auman, J., Hoadley, K. A., Topal, M. D., Jones, C. D., Mieczkowski, P. A., Prins, J. F., Neil Hayes, D., Perou, C. M., Meyers, M. & Tepper, J. E. Jul 19 2012 In : Nature. 487, 7407, p. 330-337 8 p.

Research output: Contribution to journalArticle

Rectal Neoplasms
Colonic Neoplasms
Colorectal Neoplasms
Mutation
Genome
3883 Citations

Comprehensive molecular portraits of human breast tumours

Koboldt, D. C. , Fulton, R. S. , McLellan, M. D. , Schmidt, H. , Kalicki-Veizer, J. , McMichael, J. F. , Fulton, L. L. , Dooling, D. J. , Ding, L. , Mardis, E. R. , Wilson, R. K. , Ally, A. , Balasundaram, M. , Butterfield, Y. S. N. , Carlsen, R. , Carter, C. , Chu, A. , Chuah, E. , Chun, H. J. E. , Coope, R. J. N. & 30 others Dhalla, N., Guin, R., Hirst, C., Hirst, M., Holt, R. A., Lee, D., Li, H. I., Mayo, M., Moore, R. A., Mungall, A. J., Pleasance, E., Robertson, A. G., Schein, J. E., Shafiei, A., Sipahimalani, P., Slobodan, J. R., Stoll, D., Tam, A., Thiessen, N., Varhol, R. J., Hoadley, K. A., Auman, J. T., Topal, M. D., Berg, J. S., Booker, J., Parker, J. S., Hayes, D. N., Perou, C. M., Rathmell, W. K. & Thorne, L. Oct 4 2012 In : Nature. 490, 7418, p. 61-70 10 p.

Research output: Contribution to journalArticle

Breast Neoplasms
Mutation
Exome
Protein Array Analysis
p53 Genes
295 Citations

Dynamic reprogramming of the kinome in response to targeted MEK inhibition in triple-negative breast cancer

Duncan, J. S. , Whittle, M. C. , Nakamura, K. , Abell, A. N. , Midland, A. A. , Zawistowski, J. S. , Johnson, N. L. , Granger, D. A. , Jordan, N. V. , Darr, D. B. , Usary, J. , Kuan, P. F. , Smalley, D. M. , Major, B. , He, X. , Hoadley, K. A. , Zhou, B. , Sharpless, N. E. , Perou, C. M. , Kim, W. Y. & 7 others Gomez, S. M., Chen, X., Jin, J., Frye, S. V., Earp, H. S., Graves, L. M. & Johnson, G. L. Apr 13 2012 In : Cell. 149, 2, p. 307-321 15 p.

Research output: Contribution to journalArticle

Triple Negative Breast Neoplasms
Mitogen-Activated Protein Kinase Kinases
Receptor Protein-Tyrosine Kinases
Corrosion inhibitors
Drug Resistance
88 Citations

MiR-181d: Predictive glioblastoma biomarker that downregulates MGMT expression

Zhang, W., Zhang, J., Hoadley, K., Kushwaha, D., Ramakrishnan, V., Li, S., Kang, C., You, Y., Jiang, C., Song, S. W., Jiang, T. & Chen, C. C. Jun 2012 In : Neuro-Oncology. 14, 6, p. 712-719 8 p.

Research output: Contribution to journalArticle

temozolomide
Guanine
Glioblastoma
Transferases
Down-Regulation
223 Citations

TBCRC 001: Randomized phase II study of cetuximab in combination with carboplatin in stage IV triple-negative breast cancer

Carey, L. A., Rugo, H. S., Marcom, P. K., Mayer, E. L., Esteva, F. J., Ma, C. X., Liu, M. C., Storniolo, A. M., Rimawi, M. F., Forero-Torres, A., Wolff, A. C., Hobday, T. J., Ivanova, A., Chiu, W. K., Ferraro, M., Burrows, E., Bernard, P. S., Hoadley, K. A., Perou, C. M. & Winer, E. P. Jul 20 2012 In : Journal of Clinical Oncology. 30, 21, p. 2615-2623 9 p.

Research output: Contribution to journalArticle

Triple Negative Breast Neoplasms
Carboplatin
Epidermal Growth Factor Receptor
Therapeutics
Survival
2011
2808 Citations

Integrated genomic analyses of ovarian carcinoma

Bell, D. , Berchuck, A. , Birrer, M. , Chien, J. , Cramer, D. W. , Dao, F. , Dhir, R. , Disaia, P. , Gabra, H. , Glenn, P. , Godwin, A. K. , Gross, J. , Hartmann, L. , Huang, M. , Huntsman, D. G. , Iacocca, M. , Imielinski, M. , Kalloger, S. , Karlan, B. Y. , Levine, D. A. & 30 others Mills, G. B., Morrison, C., Mutch, D., Olvera, N., Orsulic, S., Park, K., Petrelli, N., Rabeno, B., Rader, J. S., Sikic, B. I., Smith-Mccune, K., Sood, A. K., Bowtell, D., Penny, R., Testa, J. R., Chang, K., Dinh, H. H., Drummond, J. A., Fowler, G., Gunaratne, P., Hawes, A. C., Kovar, C. L., Lewis, L. R., Morgan, M. B., Newsham, I. F., Santibanez, J., Reid, J. G., Trevino, L. R., Wu, Y. Q. & Wang, M. Jun 30 2011 In : Nature. 474, 7353, p. 609-615 7 p.

Research output: Contribution to journalArticle

Ovarian Neoplasms
Carcinoma
Neoplasms
MicroRNAs
Methylation
2010
1139 Citations

Identification of a CpG Island Methylator Phenotype that Defines a Distinct Subgroup of Glioma

Noushmehr, H. , Weisenberger, D. J. , Diefes, K. , Phillips, H. S. , Pujara, K. , Berman, B. P. , Pan, F. , Pelloski, C. E. , Sulman, E. P. , Bhat, K. P. , Verhaak, R. G. W. , Hoadley, K. A. , Hayes, D. N. , Perou, C. M. , Schmidt, H. K. , Ding, L. , Wilson, R. K. , Van Den Berg, D. , Shen, H. , Bengtsson, H. & 7 others Neuvial, P., Cope, L. M., Buckley, J., Herman, J. G., Baylin, S. B., Laird, P. W. & Aldape, K. May 18 2010 In : Cancer Cell. 17, 5, p. 510-522 13 p.

Research output: Contribution to journalArticle

CpG Islands
Glioma
Phenotype
Atlases
Neoplasms
2697 Citations

Integrated Genomic Analysis Identifies Clinically Relevant Subtypes of Glioblastoma Characterized by Abnormalities in PDGFRA, IDH1, EGFR, and NF1

Verhaak, R. G. W. , Hoadley, K. A. , Purdom, E. , Wang, V. , Qi, Y. , Wilkerson, M. D. , Miller, C. R. , Ding, L. , Golub, T. , Mesirov, J. P. , Alexe, G. , Lawrence, M. , O'Kelly, M. , Tamayo, P. , Weir, B. A. , Gabriel, S. , Winckler, W. , Gupta, S. , Jakkula, L. , Feiler, H. S. & 13 others Hodgson, J. G., James, C. D., Sarkaria, J. N., Brennan, C., Kahn, A., Spellman, P. T., Wilson, R. K., Speed, T. P., Gray, J. W., Meyerson, M., Getz, G., Perou, C. M. & Hayes, D. N. Jan 19 2010 In : Cancer Cell. 17, 1, p. 98-110 13 p.

Research output: Contribution to journalArticle

Glioblastoma
Gene Expression
Atlases
Genome
Mutation
101 Citations

Lung squamous cell carcinoma mRNA expression subtypes are reproducible, clinically important, and correspond to normal cell types

Wilkerson, M. D., Yin, X., Hoadley, K. A., Liu, Y., Hayward, M. C., Cabanski, C. R., Muldrew, K., Miller, C. R., Randell, S. H., Socinski, M. A., Parsons, A. M., Funkhouser, W. K., Lee, C. B., Roberts, P. J., Thorne, L., Bernard, P. S., Perou, C. M. & Hayes, D. N. Oct 1 2010 In : Clinical Cancer Research. 16, 19, p. 4864-4875 12 p.

Research output: Contribution to journalArticle

Squamous Cell Carcinoma
Lung
Messenger RNA
Biological Phenomena
Survival
29 Citations

Potential tumor suppressor role for the c-Myb oncogene in luminal breast cancer

Thorner, A. R., Parker, J. S., Hoadley, K. A. & Perou, C. M. Nov 4 2010 In : PLoS ONE. 5, 10, e13073

Research output: Contribution to journalArticle

myb Genes
oncogenes
breast neoplasms
Tumors
breasts
40 Citations

Targeting EGFR induced oxidative stress by PARP1 inhibition in glioblastoma therapy

Nitta, M., Kozono, D., Kennedy, R., Stommel, J., Ng, K., Zinn, P. O., Kushwaha, D., Kesari, S., Furnari, F., Hoadley, K. A., Chin, L., Depinho, R. A., Cavenee, W. K., D'Andrea, A. & Chen, C. C. Sep 17 2010 In : PLoS ONE. 5, 5, e10767

Research output: Contribution to journalArticle

NAD ADP-ribosyltransferase
Oxidative stress
Poly(ADP-ribose) Polymerases
Glioblastoma
Epidermal Growth Factor Receptor
2009
49 Citations

An integration of complementary strategies for gene-expression analysis to reveal novel therapeutic opportunities for breast cancer

Bild, A. H., Parker, J. S., Gustafson, A. M., Acharya, C. R., Hoadley, K. A., Anders, C., Marcom, P. K., Carey, L. A., Potti, A., Nevins, J. R. & Perou, C. M. Jul 28 2009 In : Breast Cancer Research. 11, 4, R55

Research output: Contribution to journalArticle

Breast Neoplasms
Gene Expression
Therapeutics
Phenotype
Drug Therapy
51 Citations

In vitro and in vivo analysis of B-Myb in basal-like breast cancer

Thorner, A. R., Hoadley, K. A., Parker, J. S., Winkel, S., Millikan, R. C. & Perou, C. M. Feb 5 2009 In : Oncogene. 28, 5, p. 742-751 10 p.

Research output: Contribution to journalArticle

Breast Neoplasms
Breast
Topoisomerase Inhibitors
Microarray Analysis
Cell Cycle Checkpoints
2008
3829 Citations

Comprehensive genomic characterization defines human glioblastoma genes and core pathways

McLendon, R. , Friedman, A. , Bigner, D. , Van Meir, E. G. , Brat, D. J. , Mastrogianakis, G. M. , Olson, J. J. , Mikkelsen, T. , Lehman, N. , Aldape, K. , Yung, W. K. A. , Bogler, O. , Weinstein, J. N. , VandenBerg, S. , Berger, M. , Prados, M. , Muzny, D. , Morgan, M. , Scherer, S. , Sabo, A. & 30 others Nazareth, L., Lewis, L., Hall, O., Zhu, Y., Ren, Y., Alvi, O., Yao, J., Hawes, A., Jhangiani, S., Fowler, G., San Lucas, A., Kovar, C., Cree, A., Dinh, H., Santibanez, J., Joshi, V., Gonzalez-Garay, M. L., Miller, C. A., Milosavljevic, A., Donehower, L., Wheeler, D. A., Gibbs, R. A., Cibulskis, K., Sougnez, C., Fennell, T., Mahan, S., Perou, C. M., Hayes, D. N., Topal, M. D. & Hoadley, K. A. Oct 23 2008 In : Nature. 455, 7216, p. 1061-1068 8 p.

Research output: Contribution to journalArticle

Glioblastoma
Atlases
Genes
DNA Methylation
Neoplasms
2007
40 Citations

Development of an immuno tandem mass spectrometry (iMALDI) assay for EGFR diagnosis

Jiang, J., Parker, C. E., Hoadley, K. A., Perou, C. M., Boysen, G. & Borchers, C. H. Dec 2007 In : Proteomics - Clinical Applications. 1, 12, p. 1651-1659 9 p.

Research output: Contribution to journalArticle

Tandem Mass Spectrometry
Epidermal Growth Factor Receptor
Mass spectrometry
Assays
Peptides
196 Citations

EGFR associated expression profiles vary with breast tumor subtype

Hoadley, K. A., Weigman, V. J., Fan, C., Sawyer, L. R., He, X., Troester, M. A., Sartor, C. I., Rieger-House, T., Bernard, P. S., Carey, L. A. & Perou, C. M. Jul 31 2007 In : BMC Genomics. 8, 258

Research output: Contribution to journalArticle

Breast Neoplasms
Cell Line
Breast
Carboplatin
Neoplasms
114 Citations

RNA expression analysis of formalin-fixed paraffin-embedded tumors

Penland, S. K., Keku, T. O., Torrice, C., He, X., Krishnamurthy, J., Hoadley, K. A., Woosley, J. T., Thomas, N. E., Perou, C. M., Sandler, R. S. & Sharpless, N. E. Apr 12 2007 In : Laboratory Investigation. 87, 4, p. 383-391 9 p.

Research output: Contribution to journalArticle

Paraffin
Formaldehyde
RNA
Microarray Analysis
Neoplasms