Scholars@Duke

• Background
• 

  Education, Training, & Certifications

  • Ph.D., University of California at San Diego 1985
• 

  Duke Appointment History

  • Assistant Professor of Pathology, Pathology, Clinical Science Departments 1998 - 2009
  • Associate Professor in Surgery, Surgery, Surgical Sciences, Surgery 1998 - 2009
  • Associate Research Professor of Experimental Surgery in the Department of Surgery, Surgery, Clinical Science Departments 1994 - 1998
  • Assistant Research Professor of Pathology, Pathology, Clinical Science Departments 1997 - 1998
  • Assistant Research Professor of Experimental Surgery in the Department of Surgery, Surgery, Clinical Science Departments 1993 - 1994
• Research
• 

  Selected Grants

  • Duke CTSA (KL2) awarded by National Institutes of Health 2018 - 2023
  • Duke CTSA (TL1) awarded by National Institutes of Health 2018 - 2023
  • Breast Cancer Detection Consortium awarded by National Institutes of Health 2016 - 2021
  • Genomic Diversity and the Microenvironment as Drivers of Progression in DCIS awarded by Department of Defense 2014 - 2020
  • Can contrast dynamics in breast MRI predict genomic intra-tumor heterogeneity awarded by Bracco Diagnostics, Inc. 2016 - 2020
  • Genetics Training Grant awarded by National Institutes of Health 1979 - 2020
  • Organization and Function of Cellular Structure awarded by National Institutes of Health 1975 - 2020
  • Characterizing Molecular Subtypes of Ovarian Cancer in African-American Women awarded by University of Utah 2017 - 2019
  • Molecular and Radiologic Predictors of Invasion in a DCIS Active Surveillance Cohort awarded by Breast Cancer Research Foundation 2018 - 2019
  • (PQC3) Genomic Diversity and Microenvironment as Drivers of Metastasis in DCIS awarded by National Institutes of Health 2014 - 2019
  • Prevent Ductal Carcinoma in Situ Invasive Overtreatment Now - PRECISION awarded by MD Anderson Cancer Center 2017 - 2019
  • Fibulin-3 as a Novel Biomarker and Trget in the Breast Tumor Microenvironment awarded by Susan G. Komen Breast Cancer Foundation 2015 - 2018
  • Molecular and Radiologic Predictors of Invasion in a DCIS Active Surveillance Cohort awarded by Breast Cancer Research Foundation 2016 - 2018
  • Gene expression programs of lactic acidosis in human cancers awarded by National Institutes of Health 2007 - 2018
  • A Simple System for Early Detection of Breast Cancer awarded by Arizona State University 2014 - 2017
  • Atlantic Breast and Gynecologic Clinical Validation Center awarded by National Institutes of Health 1999 - 2016
  • Integrating Population and Basic Science in Cancer Research awarded by National Institutes of Health 2009 - 2015
  • Clinical Oncology Research Career Development Program awarded by National Institutes of Health 2009 - 2015
  • TCGA - Breast Cancer awarded by National Institutes of Health 2010 - 2015
  • Epidemiology of Ovarian Cancer in African-American Women awarded by National Institutes of Health 2010 - 2015
  • Integration of Oncogenic Networks in Cancer Phenotypes awarded by National Institutes of Health 2004 - 2011
  • MAL Promoter Hypermethylation and its Implications in Breast Cancer awarded by National Institutes of Health 2007 - 2010
  • Developing Biomarker-Based Prognostics in Breast Cancer awarded by National Institutes of Health 2004 - 2009
  • Biomarker Studies for Novel Anti-Cancer Agents awarded by National Institutes of Health 2003 - 2008
  • Improving genomic prediction models in breast cancer. awarded by National Institutes of Health 2004 - 2007
  • PPARy: Biomarker for Breast Cancer in Older Women awarded by National Institutes of Health 2005 - 2007
  • Tissue Transglutaminase And Breast Cancer Biology awarded by National Institutes of Health 1997 - 2003
  • Characterization of BRCA2 awarded by National Institutes of Health 1908 - 2002
  • Immune Response to Breast Ductal Carcinoma In Situ awarded by National Institutes of Health 1992 - 2000
  • Tissue Transglutaminase And Breast Cancer Biology awarded by National Institutes of Health 1997 - 1999
  • Characterization Of Brca2 awarded by National Institutes of Health 1997 - 1999
  • Planning A Program Of Research In Early Breast Cancer awarded by National Institutes of Health 1994 - 1998
  • Spore In Breast Cancer awarded by National Institutes of Health 1995 - 1998
  • Spore In Breast Cancer awarded by National Institutes of Health 1995 - 1998
  • Spore In Breast Cancer awarded by National Institutes of Health 1995 - 1998
  • Surrogate Markers Of Tumor Specific Immunity awarded by National Institutes of Health 1994 - 1998
  • Molecularly-Defined Taa As Human Anti-Tumor Ctl Targets awarded by National Institutes of Health 1993 - 1997
  • Molecularly-Defined Taa As Human Anti-Tumor Ctl Targets awarded by National Institutes of Health 1992 - 1997
  • Molecularly-Defined Taa As Human Anti-Tumor Ctl Targets awarded by National Institutes of Health 1992 - 1997
  • Retinoid Signaling Defects In Breast Cancer awarded by National Institutes of Health 1996 - 1997
  • Retinoid Signalling Defects In Breast Cancer awarded by National Institutes of Health 1993 - 1997
  • P53 In Human Breast Cancer awarded by National Institutes of Health 1993 - 1995
• Publications & Artistic Works
• 

  Selected Publications

  • Academic Articles

    • Hu, Q, Li, C, Wang, S, Li, Y, Wen, B, Zhang, Y, Liang, K, Yao, J, Ye, Y, Hsiao, H, Nguyen, TK, Park, PK, Egranov, SD, Hawke, DH, Marks, JR, Han, L, Hung, M-C, Zhang, B, Lin, C, and Yang, L. "LncRNAs-directed PTEN enzymatic switch governs epithelial-mesenchymal transition." Cell Research 29, no. 4 (April 2019): 286-304.  Full Text
    • Mazurowski, MA, Saha, A, Harowicz, MR, Cain, EH, Marks, JR, and Marcom, PK. "Association of distant recurrence-free survival with algorithmically extracted MRI characteristics in breast cancer." Journal of Magnetic Resonance Imaging : Jmri (January 22, 2019).  Full Text
    • Cain, EH, Saha, A, Harowicz, MR, Marks, JR, Marcom, PK, and Mazurowski, MA. "Multivariate machine learning models for prediction of pathologic response to neoadjuvant therapy in breast cancer using MRI features: a study using an independent validation set." Breast Cancer Research and Treatment 173, no. 2 (January 2019): 455-463.  Full Text
    • Saha, A, Harowicz, MR, Cain, EH, Hall, AH, Hwang, E-SS, Marks, JR, Marcom, PK, and Mazurowski, MA. "Intra-tumor molecular heterogeneity in breast cancer: definitions of measures and association with distant recurrence-free survival." Breast Cancer Research and Treatment 172, no. 1 (November 2018): 123-132.  Full Text
    • Sang, L-J, Ju, H-Q, Liu, G-P, Tian, T, Ma, G-L, Lu, Y-X, Liu, Z-X, Pan, R-L, Li, R-H, Piao, H-L, Marks, JR, Yang, L-J, Yan, Q, Wang, W, Shao, J, Zhou, Y, Zhou, T, and Lin, A. "LncRNA CamK-A Regulates Ca2+-Signaling-Mediated Tumor Microenvironment Remodeling." Molecular Cell 72, no. 3 (November 2018): 601-null.  Full Text
    • Korkut, A, Zaidi, S, Kanchi, RS, Rao, S, Gough, NR, Schultz, A, Li, X, Lorenzi, PL, Berger, AC, Robertson, G, Kwong, LN, Datto, M, Roszik, J, Ling, S, Ravikumar, V, Manyam, G, Rao, A, Shelley, S, Liu, Y, Ju, Z, Hansel, D, de Velasco, G, Pennathur, A, Andersen, JB, O'Rourke, CJ, Ohshiro, K, Jogunoori, W, Nguyen, B-N, Li, S, Osmanbeyoglu, HU, Ajani, JA, Mani, SA, Houseman, A, Wiznerowicz, M, Chen, J, Gu, S, Ma, W, Zhang, J, Tong, P, Cherniack, AD, Deng, C, Resar, L, Cancer Genome Atlas Research Network, , Weinstein, JN, Mishra, L, and Akbani, R. "A Pan-Cancer Analysis Reveals High-Frequency Genetic Alterations in Mediators of Signaling by the TGF-β Superfamily." Cell Systems 7, no. 4 (October 2018): 422-437.e7.  Full Text
    • Sang, L-J, Ju, H-Q, Liu, G-P, Tian, T, Ma, G-L, Lu, Y-X, Liu, Z-X, Pan, R-L, Li, R-H, Piao, H-L, Marks, JR, Yang, L-J, Yan, Q, Wang, W, Shao, J, Zhou, Y, Zhou, T, and Lin, A. "LncRNA CamK-A Regulates Ca2+-Signaling-Mediated Tumor Microenvironment Remodeling." Molecular Cell 72, no. 1 (October 2018): 71-83.e7.  Full Text
    • Wang, Y, Xu, X, Maglic, D, Dill, MT, Mojumdar, K, Ng, PK-S, Jeong, KJ, Tsang, YH, Moreno, D, Bhavana, VH, Peng, X, Ge, Z, Chen, H, Li, J, Chen, Z, Zhang, H, Han, L, Du, D, Creighton, CJ, Mills, GB, Cancer Genome Atlas Research Network, , Camargo, F, and Liang, H. "Comprehensive Molecular Characterization of the Hippo Signaling Pathway in Cancer." Cell Reports 25, no. 5 (October 2018): 1304-1317.e5.  Full Text
    • Kahles, A, Lehmann, KV, Toussaint, NC, Hüser, M, Stark, SG, Sachsenberg, T, Stegle, O, Kohlbacher, O, Sander, C, Caesar-Johnson, SJ, Demchok, JA, Felau, I, Kasapi, M, Ferguson, ML, Hutter, CM, Sofia, HJ, Tarnuzzer, R, Wang, Z, Yang, L, Zenklusen, JC, Zhang, J, Chudamani, S, Liu, J, Lolla, L, Naresh, R, Pihl, T, Sun, Q, Wan, Y, Wu, Y, Cho, J, DeFreitas, T, Frazer, S, Gehlenborg, N, Getz, G, Heiman, DI, Kim, J, Lawrence, MS, Lin, P, Meier, S, Noble, MS, Saksena, G, Voet, D, Zhang, H, Bernard, B, Chambwe, N, Dhankani, V, Knijnenburg, T, Kramer, R, Leinonen, K, Liu, Y, Miller, M, Reynolds, S, Shmulevich, I, Thorsson, V, Zhang, W, Akbani, R, Broom, BM, Hegde, AM, Ju, Z, Kanchi, RS, Korkut, A, Li, J, Liang, H, Ling, S, Liu, W, Lu, Y, Mills, GB, Ng, KS, Rao, A, Ryan, M, Wang, J, Weinstein, JN, Abeshouse, A, Armenia, J, Chakravarty, D, Chatila, WK, de Bruijn, I, Gao, J, Gross, BE, Heins, ZJ, Kundra, R, La, K, Ladanyi, M, Luna, A, Nissan, MG, Ochoa, A, Phillips, SM, Reznik, E, Sanchez-Vega, F, Schultz, N, Sheridan, R, Sumer, SO, Sun, Y, Taylor, BS, Anur, P, and Peto, M. "Comprehensive Analysis of Alternative Splicing Across Tumors from 8,705 Patients." Cancer Cell 34, no. 2 (August 13, 2018): 211-224.e6.  Full Text
    • Bailey, MH, Tokheim, C, Porta-Pardo, E, Sengupta, S, Bertrand, D, Weerasinghe, A, Colaprico, A, Wendl, MC, Kim, J, Reardon, B, Kwok-Shing Ng, P, Jeong, KJ, Cao, S, Wang, Z, Gao, J, Gao, Q, Wang, F, Liu, EM, Mularoni, L, Rubio-Perez, C, Nagarajan, N, Cortés-Ciriano, I, Zhou, DC, Liang, W-W, Hess, JM, Yellapantula, VD, Tamborero, D, Gonzalez-Perez, A, Suphavilai, C, Ko, JY, Khurana, E, Park, PJ, Van Allen, EM, Liang, H, MC3 Working Group, , Cancer Genome Atlas Research Network, , Lawrence, MS, Godzik, A, Lopez-Bigas, N, Stuart, J, Wheeler, D, Getz, G, Chen, K, Lazar, AJ, Mills, GB, Karchin, R, and Ding, L. "Comprehensive Characterization of Cancer Driver Genes and Mutations." Cell 174, no. 4 (August 2018): 1034-1035.  Full Text
    • Wu, J, Jiang, Z, Chen, C, Hu, Q, Fu, Z, Chen, J, Wang, Z, Wang, Q, Li, A, Marks, JR, Guo, C, Chen, Y, Zhou, J, Yang, L, Lin, C, and Wang, S. "CircIRAK3 sponges miR-3607 to facilitate breast cancer metastasis." Cancer Letters 430 (August 2018): 179-192.  Full Text
    • Xing, Z, Zhang, Y, Liang, K, Yan, L, Xiang, Y, Li, C, Hu, Q, Jin, F, Putluri, V, Putluri, N, Coarfa, C, Sreekumar, A, Park, PK, Nguyen, TK, Wang, S, Zhou, J, Zhou, Y, Marks, JR, Hawke, DH, Hung, M-C, Yang, L, Han, L, Ying, H, and Lin, C. "Expression of Long Noncoding RNA YIYA Promotes Glycolysis in Breast Cancer." Cancer Research 78, no. 16 (August 2018): 4524-4532.  Full Text
    • Ricketts, CJ, De Cubas, AA, Fan, H, Smith, CC, Lang, M, Reznik, E, Bowlby, R, Gibb, EA, Akbani, R, Beroukhim, R, Bottaro, DP, Choueiri, TK, Gibbs, RA, Godwin, AK, Haake, S, Hakimi, AA, Henske, EP, Hsieh, JJ, Ho, TH, Kanchi, RS, Krishnan, B, Kwiatkowski, DJ, Lui, W, Merino, MJ, Mills, GB, Myers, J, Nickerson, ML, Reuter, VE, Schmidt, LS, Shelley, CS, Shen, H, Shuch, B, Signoretti, S, Srinivasan, R, Tamboli, P, Thomas, G, Vincent, BG, Vocke, CD, Wheeler, DA, Yang, L, Kim, WY, Robertson, AG, Caesar-Johnson, SJ, Demchok, JA, Felau, I, Kasapi, M, Ferguson, ML, Hutter, CM, Sofia, HJ, Tarnuzzer, R, Wang, Z, Zenklusen, JC, Zhang, J, Chudamani, S, Liu, J, Lolla, L, Naresh, R, Pihl, T, Sun, Q, Wan, Y, Wu, Y, Cho, J, DeFreitas, T, Frazer, S, Gehlenborg, N, Getz, G, Heiman, DI, Kim, J, Lawrence, MS, Lin, P, Meier, S, Noble, MS, Saksena, G, Voet, D, Zhang, H, Bernard, B, Chambwe, N, Dhankani, V, Knijnenburg, T, Kramer, R, Leinonen, K, Liu, Y, Miller, M, Reynolds, S, Shmulevich, I, Thorsson, V, Zhang, W, Broom, BM, Hegde, AM, Ju, Z, Korkut, A, Li, J, Liang, H, Ling, S, Liu, W, Lu, Y, Ng, KS, Rao, A, Ryan, M, and Wang, J. "Erratum: The Cancer Genome Atlas Comprehensive Molecular Characterization of Renal Cell Carcinoma (Cell Reports (2018) 23(1) (313–326.e5) (S2211124718304364) (10.1016/j.celrep.2018.03.075))." Cell Reports 23, no. 12 (June 19, 2018): 3698-null.  Full Text
    • Thorsson, V, Gibbs, DL, Brown, SD, Wolf, D, Bortone, DS, Ou Yang, T-H, Porta-Pardo, E, Gao, GF, Plaisier, CL, Eddy, JA, Ziv, E, Culhane, AC, Paull, EO, Sivakumar, IKA, Gentles, AJ, Malhotra, R, Farshidfar, F, Colaprico, A, Parker, JS, Mose, LE, Vo, NS, Liu, J, Liu, Y, Rader, J, Dhankani, V, Reynolds, SM, Bowlby, R, Califano, A, Cherniack, AD, Anastassiou, D, Bedognetti, D, Rao, A, Chen, K, Krasnitz, A, Hu, H, Malta, TM, Noushmehr, H, Pedamallu, CS, Bullman, S, Ojesina, AI, Lamb, A, Zhou, W, Shen, H, Choueiri, TK, Weinstein, JN, Guinney, J, Saltz, J, Holt, RA, Rabkin, CE, Cancer Genome Atlas Research Network, , Lazar, AJ, Serody, JS, Demicco, EG, Disis, ML, Vincent, BG, and Shmulevich, L. "The Immune Landscape of Cancer." Immunity 48, no. 4 (April 5, 2018): 812-830.e14.  Full Text
    • Berger, AC, Korkut, A, Kanchi, RS, Hegde, AM, Lenoir, W, Liu, W, Liu, Y, Fan, H, Shen, H, Ravikumar, V, Rao, A, Schultz, A, Li, X, Sumazin, P, Williams, C, Mestdagh, P, Gunaratne, PH, Yau, C, Bowlby, R, Robertson, AG, Tiezzi, DG, Wang, C, Cherniack, AD, Godwin, AK, Kuderer, NM, Rader, JS, Zuna, RE, Sood, AK, Lazar, AJ, Ojesina, AI, Adebamowo, C, Adebamowo, SN, Baggerly, KA, Chen, T-W, Chiu, H-S, Lefever, S, Liu, L, MacKenzie, K, Orsulic, S, Roszik, J, Shelley, CS, Song, Q, Vellano, CP, Wentzensen, N, Cancer Genome Atlas Research Network, , Weinstein, JN, Mills, GB, Levine, DA, and Akbani, R. "A Comprehensive Pan-Cancer Molecular Study of Gynecologic and Breast Cancers." Cancer Cell 33, no. 4 (April 2, 2018): 690-705.e9.  Full Text
    • Liu, Y, Sethi, NS, Hinoue, T, Schneider, BG, Cherniack, AD, Sanchez-Vega, F, Seoane, JA, Farshidfar, F, Bowlby, R, Islam, M, Kim, J, Chatila, W, Akbani, R, Kanchi, RS, Rabkin, CS, Willis, JE, Wang, KK, McCall, SJ, Mishra, L, Ojesina, AI, Bullman, S, Pedamallu, CS, Lazar, AJ, Sakai, R, Cancer Genome Atlas Research Network, , Thorsson, V, Bass, AJ, and Laird, PW. "Comparative Molecular Analysis of Gastrointestinal Adenocarcinomas." Cancer Cell 33, no. 4 (April 2, 2018): 721-735.e8.  Full Text
    • Taylor, AM, Shih, J, Ha, G, Gao, GF, Zhang, X, Berger, AC, Schumacher, SE, Wang, C, Hu, H, Liu, J, Lazar, AJ, Cancer Genome Atlas Research Network, , Cherniack, AD, Beroukhim, R, and Meyerson, M. "Genomic and Functional Approaches to Understanding Cancer Aneuploidy." Cancer Cell 33, no. 4 (April 2, 2018): 676-689.e3.  Full Text
    • Wang, Z, Yang, B, Zhang, M, Guo, W, Wu, Z, Wang, Y, Jia, L, Li, S, Cancer Genome Atlas Research Network, , Xie, W, and Yang, D. "lncRNA Epigenetic Landscape Analysis Identifies EPIC1 as an Oncogenic lncRNA that Interacts with MYC and Promotes Cell-Cycle Progression in Cancer." Cancer Cell 33, no. 4 (April 2, 2018): 706-720.e9.  Full Text
    • Bailey, MH, Tokheim, C, Porta-Pardo, E, Sengupta, S, Bertrand, D, Weerasinghe, A, Colaprico, A, Wendl, MC, Kim, J, Reardon, B, Ng, PK-S, Jeong, KJ, Cao, S, Wang, Z, Gao, J, Gao, Q, Wang, F, Liu, EM, Mularoni, L, Rubio-Perez, C, Nagarajan, N, Cortés-Ciriano, I, Zhou, DC, Liang, W-W, Hess, JM, Yellapantula, VD, Tamborero, D, Gonzalez-Perez, A, Suphavilai, C, Ko, JY, Khurana, E, Park, PJ, Van Allen, EM, Liang, H, MC3 Working Group, , Cancer Genome Atlas Research Network, , Lawrence, MS, Godzik, A, Lopez-Bigas, N, Stuart, J, Wheeler, D, Getz, G, Chen, K, Lazar, AJ, Mills, GB, Karchin, R, and Ding, L. "Comprehensive Characterization of Cancer Driver Genes and Mutations." Cell 173, no. 2 (April 2018): 371-385.e18.  Full Text
    • Campbell, JD, Yau, C, Bowlby, R, Liu, Y, Brennan, K, Fan, H, Taylor, AM, Wang, C, Walter, V, Akbani, R, Byers, LA, Creighton, CJ, Coarfa, C, Shih, J, Cherniack, AD, Gevaert, O, Prunello, M, Shen, H, Anur, P, Chen, J, Cheng, H, Hayes, DN, Bullman, S, Pedamallu, CS, Ojesina, AI, Sadeghi, S, Mungall, KL, Robertson, AG, Benz, C, Schultz, A, Kanchi, RS, Gay, CM, Hegde, A, Diao, L, Wang, J, Ma, W, Sumazin, P, Chiu, H-S, Chen, T-W, Gunaratne, P, Donehower, L, Rader, JS, Zuna, R, Al-Ahmadie, H, Lazar, AJ, Flores, ER, Tsai, KY, Zhou, JH, Rustgi, AK, Drill, E, Shen, R, Wong, CK, Cancer Genome Atlas Research Network, , Stuart, JM, Laird, PW, Hoadley, KA, Weinstein, JN, Peto, M, Pickering, CR, Chen, Z, and Van Waes, C. "Genomic, Pathway Network, and Immunologic Features Distinguishing Squamous Carcinomas." Cell Reports 23, no. 1 (April 2018): 194-212.e6.  Full Text
    • Chen, H, Li, C, Peng, X, Zhou, Z, Weinstein, JN, Cancer Genome Atlas Research Network, , and Liang, H. "A Pan-Cancer Analysis of Enhancer Expression in Nearly 9000 Patient Samples." Cell 173, no. 2 (April 2018): 386-399.e12.  Full Text
    • Chiu, H-S, Somvanshi, S, Patel, E, Chen, T-W, Singh, VP, Zorman, B, Patil, SL, Pan, Y, Chatterjee, SS, Cancer Genome Atlas Research Network, , Sood, AK, Gunaratne, PH, and Sumazin, P. "Pan-Cancer Analysis of lncRNA Regulation Supports Their Targeting of Cancer Genes in Each Tumor Context." Cell Reports 23, no. 1 (April 2018): 297-312.e12.  Full Text
    • Ding, L, Bailey, MH, Porta-Pardo, E, Thorsson, V, Colaprico, A, Bertrand, D, Gibbs, DL, Weerasinghe, A, Huang, K-L, Tokheim, C, Cortés-Ciriano, I, Jayasinghe, R, Chen, F, Yu, L, Sun, S, Olsen, C, Kim, J, Taylor, AM, Cherniack, AD, Akbani, R, Suphavilai, C, Nagarajan, N, Stuart, JM, Mills, GB, Wyczalkowski, MA, Vincent, BG, Hutter, CM, Zenklusen, JC, Hoadley, KA, Wendl, MC, Shmulevich, L, Lazar, AJ, Wheeler, DA, Getz, G, and Cancer Genome Atlas Research Network, . "Perspective on Oncogenic Processes at the End of the Beginning of Cancer Genomics." Cell 173, no. 2 (April 2018): 305-320.e10.  Full Text
    • Gao, Q, Liang, W-W, Foltz, SM, Mutharasu, G, Jayasinghe, RG, Cao, S, Liao, W-W, Reynolds, SM, Wyczalkowski, MA, Yao, L, Yu, L, Sun, SQ, Fusion Analysis Working Group, , Cancer Genome Atlas Research Network, , Chen, K, Lazar, AJ, Fields, RC, Wendl, MC, Van Tine, BA, Vij, R, Chen, F, Nykter, M, Shmulevich, I, and Ding, L. "Driver Fusions and Their Implications in the Development and Treatment of Human Cancers." Cell Reports 23, no. 1 (April 2018): 227-238.e3.  Full Text
    • Ge, Z, Leighton, JS, Wang, Y, Peng, X, Chen, Z, Chen, H, Sun, Y, Yao, F, Li, J, Zhang, H, Liu, J, Shriver, CD, Hu, H, Cancer Genome Atlas Research Network, , Piwnica-Worms, H, Ma, L, and Liang, H. "Integrated Genomic Analysis of the Ubiquitin Pathway across Cancer Types." Cell Reports 23, no. 1 (April 2018): 213-226.e3.  Full Text
    • Hoadley, KA, Yau, C, Hinoue, T, Wolf, DM, Lazar, AJ, Drill, E, Shen, R, Taylor, AM, Cherniack, AD, Thorsson, V, Akbani, R, Bowlby, R, Wong, CK, Wiznerowicz, M, Sanchez-Vega, F, Robertson, AG, Schneider, BG, Lawrence, MS, Noushmehr, H, Malta, TM, Cancer Genome Atlas Network, , Stuart, JM, Benz, CC, and Laird, PW. "Cell-of-Origin Patterns Dominate the Molecular Classification of 10,000 Tumors from 33 Types of Cancer." Cell 173, no. 2 (April 2018): 291-304.e6.  Full Text
    • Huang, K-L, Mashl, RJ, Wu, Y, Ritter, DI, Wang, J, Oh, C, Paczkowska, M, Reynolds, S, Wyczalkowski, MA, Oak, N, Scott, AD, Krassowski, M, Cherniack, AD, Houlahan, KE, Jayasinghe, R, Wang, L-B, Zhou, DC, Liu, D, Cao, S, Kim, YW, Koire, A, McMichael, JF, Hucthagowder, V, Kim, T-B, Hahn, A, Wang, C, McLellan, MD, Al-Mulla, F, Johnson, KJ, Cancer Genome Atlas Research Network, , Lichtarge, O, Boutros, PC, Raphael, B, Lazar, AJ, Zhang, W, Wendl, MC, Govindan, R, Jain, S, Wheeler, D, Kulkarni, S, Dipersio, JF, Reimand, J, Meric-Bernstam, F, Chen, K, Shmulevich, I, Plon, SE, Chen, F, and Ding, L. "Pathogenic Germline Variants in 10,389 Adult Cancers." Cell 173, no. 2 (April 2018): 355-370.e14.  Full Text
    • Jayasinghe, RG, Cao, S, Gao, Q, Wendl, MC, Vo, NS, Reynolds, SM, Zhao, Y, Climente-González, H, Chai, S, Wang, F, Varghese, R, Huang, M, Liang, W-W, Wyczalkowski, MA, Sengupta, S, Li, Z, Payne, SH, Fenyö, D, Miner, JH, Walter, MJ, Cancer Genome Atlas Research Network, , Vincent, B, Eyras, E, Chen, K, Shmulevich, I, Chen, F, and Ding, L. "Systematic Analysis of Splice-Site-Creating Mutations in Cancer." Cell Reports 23, no. 1 (April 2018): 270-281.e3.  Full Text
    • Knijnenburg, TA, Wang, L, Zimmermann, MT, Chambwe, N, Gao, GF, Cherniack, AD, Fan, H, Shen, H, Way, GP, Greene, CS, Liu, Y, Akbani, R, Feng, B, Donehower, LA, Miller, C, Shen, Y, Karimi, M, Chen, H, Kim, P, Jia, P, Shinbrot, E, Zhang, S, Liu, J, Hu, H, Bailey, MH, Yau, C, Wolf, D, Zhao, Z, Weinstein, JN, Li, L, Ding, L, Mills, GB, Laird, PW, Wheeler, DA, Shmulevich, I, Cancer Genome Atlas Research Network, , Monnat, RJ, Xiao, Y, and Wang, C. "Genomic and Molecular Landscape of DNA Damage Repair Deficiency across The Cancer Genome Atlas." Cell Reports 23, no. 1 (April 2018): 239-254.e6.  Full Text
    • Liu, J, Lichtenberg, T, Hoadley, KA, Poisson, LM, Lazar, AJ, Cherniack, AD, Kovatich, AJ, Benz, CC, Levine, DA, Lee, AV, Omberg, L, Wolf, DM, Shriver, CD, Thorsson, V, Cancer Genome Atlas Research Network, , and Hu, H. "An Integrated TCGA Pan-Cancer Clinical Data Resource to Drive High-Quality Survival Outcome Analytics." Cell 173, no. 2 (April 2018): 400-416.e11.  Full Text
    • Malta, TM, Sokolov, A, Gentles, AJ, Burzykowski, T, Poisson, L, Weinstein, JN, Kamińska, B, Huelsken, J, Omberg, L, Gevaert, O, Colaprico, A, Czerwińska, P, Mazurek, S, Mishra, L, Heyn, H, Krasnitz, A, Godwin, AK, Lazar, AJ, Cancer Genome Atlas Research Network, , Stuart, JM, Hoadley, KA, Laird, PW, Noushmehr, H, and Wiznerowicz, M. "Machine Learning Identifies Stemness Features Associated with Oncogenic Dedifferentiation." Cell 173, no. 2 (April 2018): 338-354.e15.  Full Text
    • Peng, X, Chen, Z, Farshidfar, F, Xu, X, Lorenzi, PL, Wang, Y, Cheng, F, Tan, L, Mojumdar, K, Du, D, Ge, Z, Li, J, Thomas, GV, Birsoy, K, Liu, L, Zhang, H, Zhao, Z, Marchand, C, Weinstein, JN, Cancer Genome Atlas Research Network, , Bathe, OF, and Liang, H. "Molecular Characterization and Clinical Relevance of Metabolic Expression Subtypes in Human Cancers." Cell Reports 23, no. 1 (April 2018): 255-269.e4.  Full Text
    • Ricketts, CJ, De Cubas, AA, Fan, H, Smith, CC, Lang, M, Reznik, E, Bowlby, R, Gibb, EA, Akbani, R, Beroukhim, R, Bottaro, DP, Choueiri, TK, Gibbs, RA, Godwin, AK, Haake, S, Hakimi, AA, Henske, EP, Hsieh, JJ, Ho, TH, Kanchi, RS, Krishnan, B, Kwiatkowski, DJ, Lui, W, Merino, MJ, Mills, GB, Myers, J, Nickerson, ML, Reuter, VE, Schmidt, LS, Shelley, CS, Shen, H, Shuch, B, Signoretti, S, Srinivasan, R, Tamboli, P, Thomas, G, Vincent, BG, Vocke, CD, Wheeler, DA, Yang, L, Kim, WY, Robertson, AG, Cancer Genome Atlas Research Network, , Spellman, PT, Rathmell, WK, and Linehan, WM. "The Cancer Genome Atlas Comprehensive Molecular Characterization of Renal Cell Carcinoma." Cell Reports 23, no. 1 (April 2018): 313-326.e5.  Full Text
    • Saltz, J, Gupta, R, Hou, L, Kurc, T, Singh, P, Nguyen, V, Samaras, D, Shroyer, KR, Zhao, T, Batiste, R, Van Arnam, J, Cancer Genome Atlas Research Network, , Shmulevich, I, Rao, AUK, Lazar, AJ, Sharma, A, and Thorsson, V. "Spatial Organization and Molecular Correlation of Tumor-Infiltrating Lymphocytes Using Deep Learning on Pathology Images." Cell Reports 23, no. 1 (April 2018): 181-193.e7.  Full Text
    • Sanchez-Vega, F, Mina, M, Armenia, J, Chatila, WK, Luna, A, La, KC, Dimitriadoy, S, Liu, DL, Kantheti, HS, Saghafinia, S, Chakravarty, D, Daian, F, Gao, Q, Bailey, MH, Liang, W-W, Foltz, SM, Shmulevich, I, Ding, L, Heins, Z, Ochoa, A, Gross, B, Gao, J, Zhang, H, Kundra, R, Kandoth, C, Bahceci, I, Dervishi, L, Dogrusoz, U, Zhou, W, Shen, H, Laird, PW, Way, GP, Greene, CS, Liang, H, Xiao, Y, Wang, C, Iavarone, A, Berger, AH, Bivona, TG, Lazar, AJ, Hammer, GD, Giordano, T, Kwong, LN, McArthur, G, Huang, C, Tward, AD, Frederick, MJ, McCormick, F, Meyerson, M, Cancer Genome Atlas Research Network, , Van Allen, EM, Cherniack, AD, Ciriello, G, Sander, C, and Schultz, N. "Oncogenic Signaling Pathways in The Cancer Genome Atlas." Cell 173, no. 2 (April 2018): 321-337.e10.  Full Text
    • Seiler, M, Peng, S, Agrawal, AA, Palacino, J, Teng, T, Zhu, P, Smith, PG, Cancer Genome Atlas Research Network, , Buonamici, S, and Yu, L. "Somatic Mutational Landscape of Splicing Factor Genes and Their Functional Consequences across 33 Cancer Types." Cell Reports 23, no. 1 (April 2018): 282-296.e4.  Full Text
    • Way, GP, Sanchez-Vega, F, La, K, Armenia, J, Chatila, WK, Luna, A, Sander, C, Cherniack, AD, Mina, M, Ciriello, G, Schultz, N, Cancer Genome Atlas Research Network, , Sanchez, Y, and Greene, CS. "Machine Learning Detects Pan-cancer Ras Pathway Activation in The Cancer Genome Atlas." Cell Reports 23, no. 1 (April 2018): 172-180.e3.  Full Text
    • Ellrott, K, Bailey, MH, Saksena, G, Covington, KR, Kandoth, C, Stewart, C, Hess, J, Ma, S, Chiotti, KE, McLellan, M, Sofia, HJ, Hutter, C, Getz, G, Wheeler, D, Ding, L, MC3 Working Group, , and Cancer Genome Atlas Research Network, . "Scalable Open Science Approach for Mutation Calling of Tumor Exomes Using Multiple Genomic Pipelines." Cell Systems 6, no. 3 (March 2018): 271-281.e7.  Full Text
    • Schaub, FX, Dhankani, V, Berger, AC, Trivedi, M, Richardson, AB, Shaw, R, Zhao, W, Zhang, X, Ventura, A, Liu, Y, Ayer, DE, Hurlin, PJ, Cherniack, AD, Eisenman, RN, Bernard, B, Grandori, C, and Cancer Genome Atlas Network, . "Pan-cancer Alterations of the MYC Oncogene and Its Proximal Network across the Cancer Genome Atlas." Cell Systems 6, no. 3 (March 2018): 282-300.e2.  Full Text
    • Shi, B, Grimm, LJ, Mazurowski, MA, Baker, JA, Marks, JR, King, LM, Maley, CC, Hwang, ES, and Lo, JY. "Prediction of Occult Invasive Disease in Ductal Carcinoma in Situ Using Deep Learning Features." Journal of the American College of Radiology : Jacr 15, no. 3 Pt B (March 2018): 527-534.  Full Text
    • Wang, S, Liang, K, Hu, Q, Li, P, Song, J, Yang, Y, Yao, J, Mangala, LS, Li, C, Yang, W, Park, PK, Hawke, DH, Zhou, J, Zhou, Y, Xia, W, Hung, M-C, Marks, JR, Gallick, GE, Lopez-Berestein, G, Flores, ER, Sood, AK, Huang, S, Yu, D, Yang, L, and Lin, C. "JAK2-binding long noncoding RNA promotes breast cancer brain metastasis." The Journal of Clinical Investigation 127, no. 12 (December 2017): 4498-4515.  Full Text
    • Harowicz, MR, Saha, A, Grimm, LJ, Marcom, PK, Marks, JR, Hwang, ES, and Mazurowski, MA. "Can algorithmically assessed MRI features predict which patients with a preoperative diagnosis of ductal carcinoma in situ are upstaged to invasive breast cancer?." Journal of Magnetic Resonance Imaging : Jmri 46, no. 5 (November 2017): 1332-1340.  Full Text
    • Zheng, X, Han, H, Liu, G-P, Ma, Y-X, Pan, R-L, Sang, L-J, Li, R-H, Yang, L-J, Marks, JR, Wang, W, and Lin, A. "LncRNA wires up Hippo and Hedgehog signaling to reprogramme glucose metabolism." The Embo Journal 36, no. 22 (November 2017): 3325-3335.  Full Text
    • Shi, B, Grimm, LJ, Mazurowski, MA, Baker, JA, Marks, JR, King, LM, Maley, CC, Hwang, ES, and Lo, JY. "Can Occult Invasive Disease in Ductal Carcinoma In Situ Be Predicted Using Computer-extracted Mammographic Features?." Academic Radiology 24, no. 9 (September 2017): 1139-1147.  Full Text
    • Chen, P-H, Smith, TJ, Wu, J, Siesser, PF, Bisnett, BJ, Khan, F, Hogue, M, Soderblom, E, Tang, F, Marks, JR, Major, MB, Swarts, BM, Boyce, M, and Chi, J-T. "Glycosylation of KEAP1 links nutrient sensing to redox stress signaling." The Embo Journal 36, no. 15 (August 2017): 2233-2250.  Full Text
    • Lin, A, Hu, Q, Li, C, Xing, Z, Ma, G, Wang, C, Li, J, Ye, Y, Yao, J, Liang, K, Wang, S, Park, PK, Marks, JR, Zhou, Y, Zhou, J, Hung, M-C, Liang, H, Hu, Z, Shen, H, Hawke, DH, Han, L, Zhou, Y, Lin, C, and Yang, L. "The LINK-A lncRNA interacts with PtdIns(3,4,5)P3 to hyperactivate AKT and confer resistance to AKT inhibitors." Nature Cell Biology 19, no. 3 (March 2017): 238-251.  Full Text
    • Harowicz, MR, Robinson, TJ, Dinan, MA, Saha, A, Marks, JR, Marcom, PK, and Mazurowski, MA. "Algorithms for prediction of the Oncotype DX recurrence score using clinicopathologic data: a review and comparison using an independent dataset." Breast Cancer Research and Treatment 162, no. 1 (February 2017): 1-10.  Full Text
    • Southey, MC, Goldgar, DE, Winqvist, R, Pylkäs, K, Couch, F, Tischkowitz, M, Foulkes, WD, Dennis, J, Michailidou, K, van Rensburg, EJ, Heikkinen, T, Nevanlinna, H, Hopper, JL, Dörk, T, Claes, KB, Reis-Filho, J, Teo, ZL, Radice, P, Catucci, I, Peterlongo, P, Tsimiklis, H, Odefrey, FA, Dowty, JG, Schmidt, MK, Broeks, A, Hogervorst, FB, Verhoef, S, Carpenter, J, Clarke, C, Scott, RJ, Fasching, PA, Haeberle, L, Ekici, AB, Beckmann, MW, Peto, J, Dos-Santos-Silva, I, Fletcher, O, Johnson, N, Bolla, MK, Sawyer, EJ, Tomlinson, I, Kerin, MJ, Miller, N, Marme, F, Burwinkel, B, Yang, R, Guénel, P, Truong, T, Menegaux, F, Sanchez, M, Bojesen, S, Nielsen, SF, Flyger, H, Benitez, J, Zamora, MP, Perez, JIA, Menéndez, P, Anton-Culver, H, Neuhausen, S, Ziogas, A, Clarke, CA, Brenner, H, Arndt, V, Stegmaier, C, Brauch, H, Brüning, T, Ko, Y-D, Muranen, TA, Aittomäki, K, Blomqvist, C, Bogdanova, NV, Antonenkova, NN, Lindblom, A, Margolin, S, Mannermaa, A, Kataja, V, Kosma, V-M, Hartikainen, JM, Spurdle, AB, Investigators, K, Australian Ovarian Cancer Study Group, , Wauters, E, Smeets, D, Beuselinck, B, Floris, G, Chang-Claude, J, Rudolph, A, Seibold, P, Flesch-Janys, D, Olson, JE, Vachon, C, Pankratz, VS, McLean, C, Haiman, CA, Henderson, BE, Schumacher, F, Le Marchand, L, Kristensen, V, Alnæs, GG, Zheng, W, Hunter, DJ, Lindstrom, S, Hankinson, SE, Kraft, P, Andrulis, I, Knight, JA, Glendon, G, Mulligan, AM, Jukkola-Vuorinen, A, Grip, M, Kauppila, S, Devilee, P, Tollenaar, RAEM, Seynaeve, C, Hollestelle, A, Garcia-Closas, M, Figueroa, J, Chanock, SJ, Lissowska, J, Czene, K, Darabi, H, Eriksson, M, Eccles, DM, Rafiq, S, Tapper, WJ, Gerty, SM, Hooning, MJ, Martens, JWM, Collée, JM, Tilanus-Linthorst, M, Hall, P, Li, J, Brand, JS, Humphreys, K, Cox, A, Reed, MWR, Luccarini, C, Baynes, C, Dunning, AM, Hamann, U, Torres, D, Ulmer, HU, Rüdiger, T, Jakubowska, A, Lubinski, J, Jaworska, K, Durda, K, Slager, S, Toland, AE, Ambrosone, CB, Yannoukakos, D, Swerdlow, A, Ashworth, A, Orr, N, Jones, M, González-Neira, A, Pita, G, Alonso, MR, Álvarez, N, Herrero, D, Tessier, DC, Vincent, D, Bacot, F, Simard, J, Dumont, M, Soucy, P, Eeles, R, Muir, K, Wiklund, F, Gronberg, H, Schleutker, J, Nordestgaard, BG, Weischer, M, Travis, RC, Neal, D, Donovan, JL, Hamdy, FC, Khaw, K-T, Stanford, JL, Blot, WJ, Thibodeau, S, Schaid, DJ, Kelley, JL, Maier, C, Kibel, AS, Cybulski, C, Cannon-Albright, L, Butterbach, K, Park, J, Kaneva, R, Batra, J, Teixeira, MR, Kote-Jarai, Z, Olama, AAA, Benlloch, S, Renner, SP, Hartmann, A, Hein, A, Ruebner, M, Lambrechts, D, Van Nieuwenhuysen, E, Vergote, I, Lambretchs, S, Doherty, JA, Rossing, MA, Nickels, S, Eilber, U, Wang-Gohrke, S, Odunsi, K, Sucheston-Campbell, LE, Friel, G, Lurie, G, Killeen, JL, Wilkens, LR, Goodman, MT, Runnebaum, I, Hillemanns, PA, Pelttari, LM, Butzow, R, Modugno, F, Edwards, RP, Ness, RB, Moysich, KB, du Bois, A, Heitz, F, Harter, P, Kommoss, S, Karlan, BY, Walsh, C, Lester, J, Jensen, A, Kjaer, SK, Høgdall, E, Peissel, B, Bonanni, B, Bernard, L, Goode, EL, Fridley, BL, Vierkant, RA, Cunningham, JM, Larson, MC, Fogarty, ZC, Kalli, KR, Liang, D, Lu, KH, Hildebrandt, MAT, Wu, X, Levine, DA, Dao, F, Bisogna, M, Berchuck, A, Iversen, ES, Marks, JR, Akushevich, L, Cramer, DW, Schildkraut, J, Terry, KL, Poole, EM, Stampfer, M, Tworoger, SS, Bandera, EV, Orlow, I, Olson, SH, Bjorge, L, Salvesen, HB, van Altena, AM, Aben, KKH, Kiemeney, LA, Massuger, LFAG, Pejovic, T, Bean, Y, Brooks-Wilson, A, Kelemen, LE, Cook, LS, Le, ND, Górski, B, Gronwald, J, Menkiszak, J, Høgdall, CK, Lundvall, L, Nedergaard, L, Engelholm, SA, Dicks, E, Tyrer, J, Campbell, I, McNeish, I, Paul, J, Siddiqui, N, Glasspool, R, Whittemore, AS, Rothstein, JH, McGuire, V, Sieh, W, Cai, H, Shu, X-O, Teten, RT, Sutphen, R, McLaughlin, JR, Narod, SA, Phelan, CM, Monteiro, AN, Fenstermacher, D, Lin, H-Y, Permuth, JB, Sellers, TA, Chen, YA, Tsai, Y-Y, Chen, Z, Gentry-Maharaj, A, Gayther, SA, Ramus, SJ, Menon, U, Wu, AH, Pearce, CL, Van Den Berg, D, Pike, MC, Dansonka-Mieszkowska, A, Plisiecka-Halasa, J, Moes-Sosnowska, J, Kupryjanczyk, J, Pharoah, PD, Song, H, Winship, I, Chenevix-Trench, G, Giles, GG, Tavtigian, SV, Easton, DF, and Milne, RL. "PALB2, CHEK2 and ATM rare variants and cancer risk: data from COGS." Journal of Medical Genetics 53, no. 12 (December 2016): 800-811.  Full Text
    • Adams, DL, Adams, DK, Alpaugh, RK, Cristofanilli, M, Martin, SS, Chumsri, S, Tang, C-M, and Marks, JR. "Circulating Cancer-Associated Macrophage-Like Cells Differentiate Malignant Breast Cancer and Benign Breast Conditions." Cancer Epidemiology, Biomarkers & Prevention : a Publication of the American Association for Cancer Research, Cosponsored by the American Society of Preventive Oncology 25, no. 7 (July 2016): 1037-1042.  Full Text
    • Ryser, MD, Worni, M, Turner, EL, Marks, JR, Durrett, R, and Hwang, ES. "Outcomes of Active Surveillance for Ductal Carcinoma in Situ: A Computational Risk Analysis." JNCI Journal of the National Cancer Institute 108, no. 5 (May 2016).  Full Text
    • Piccolo, SR, Hoffman, LM, Conner, T, Shrestha, G, Cohen, AL, Marks, JR, Neumayer, LA, Agarwal, CA, Beckerle, MC, Andrulis, IL, Spira, AE, Moos, PJ, Buys, SS, Johnson, WE, and Bild, AH. "Integrative analyses reveal signaling pathways underlying familial breast cancer susceptibility." Molecular systems biology 12, no. 3 (March 10, 2016): 860-.  Full Text
    • Lin, A, Li, C, Xing, Z, Hu, Q, Liang, K, Han, L, Wang, C, Hawke, DH, Wang, S, Zhang, Y, Wei, Y, Ma, G, Park, PK, Zhou, J, Zhou, Y, Hu, Z, Zhou, Y, Marks, JR, Liang, H, Hung, M-C, Lin, C, and Yang, L. "The LINK-A lncRNA activates normoxic HIF1α signalling in triple-negative breast cancer." Nature Cell Biology 18, no. 2 (February 2016): 213-224.  Full Text
    • Lawrenson, K, Iversen, ES, Tyrer, J, Weber, RP, Concannon, P, Hazelett, DJ, Li, Q, Marks, JR, Berchuck, A, Lee, JM, Aben, KKH, Anton-Culver, H, Antonenkova, N, Australian Cancer Study (Ovarian Cancer), , Australian Ovarian Cancer Study Group, , Bandera, EV, Bean, Y, Beckmann, MW, Bisogna, M, Bjorge, L, Bogdanova, N, Brinton, LA, Brooks-Wilson, A, Bruinsma, F, Butzow, R, Campbell, IG, Carty, K, Chang-Claude, J, Chenevix-Trench, G, Chen, A, Chen, Z, Cook, LS, Cramer, DW, Cunningham, JM, Cybulski, C, Plisiecka-Halasa, J, Dennis, J, Dicks, E, Doherty, JA, Dörk, T, du Bois, A, Eccles, D, Easton, DT, Edwards, RP, Eilber, U, Ekici, AB, Fasching, PA, Fridley, BL, Gao, Y-T, Gentry-Maharaj, A, Giles, GG, Glasspool, R, Goode, EL, Goodman, MT, Gronwald, J, Harter, P, Hasmad, HN, Hein, A, Heitz, F, Hildebrandt, MAT, Hillemanns, P, Hogdall, E, Hogdall, C, Hosono, S, Jakubowska, A, Paul, J, Jensen, A, Karlan, BY, Kjaer, SK, Kelemen, LE, Kellar, M, Kelley, JL, Kiemeney, LA, Krakstad, C, Lambrechts, D, Lambrechts, S, Le, ND, Lee, AW, Cannioto, R, Leminen, A, Lester, J, Levine, DA, Liang, D, Lissowska, J, Lu, K, Lubinski, J, Lundvall, L, Massuger, LFAG, Matsuo, K, McGuire, V, McLaughlin, JR, Nevanlinna, H, McNeish, I, Menon, U, Modugno, F, Moysich, KB, Narod, SA, Nedergaard, L, Ness, RB, Noor Azmi, MA, Odunsi, K, Olson, SH, Orlow, I, Orsulic, S, Pearce, CL, Pejovic, T, Pelttari, LM, Permuth-Wey, J, Phelan, CM, Pike, MC, Poole, EM, Ramus, SJ, Risch, HA, Rosen, B, Rossing, MA, Rothstein, JH, Rudolph, A, Runnebaum, IB, Rzepecka, IK, Salvesen, HB, Budzilowska, A, Sellers, TA, Shu, X-O, Shvetsov, YB, Siddiqui, N, Sieh, W, Song, H, Southey, MC, Sucheston, L, Tangen, IL, Teo, S-H, Terry, KL, Thompson, PJ, Timorek, A, Tworoger, SS, Van Nieuwenhuysen, E, Vergote, I, Vierkant, RA, Wang-Gohrke, S, Walsh, C, Wentzensen, N, Whittemore, AS, Wicklund, KG, Wilkens, LR, Woo, Y-L, Wu, X, Wu, AH, Yang, H, Zheng, W, Ziogas, A, Coetzee, GA, Freedman, ML, Monteiro, ANA, Moes-Sosnowska, J, Kupryjanczyk, J, Pharoah, PD, Gayther, SA, and Schildkraut, JM. "Common variants at the CHEK2 gene locus and risk of epithelial ovarian cancer." Carcinogenesis 36, no. 11 (November 2015): 1341-1353.  Full Text
    • Ciriello, G, Gatza, ML, Beck, AH, Wilkerson, MD, Rhie, SK, Pastore, A, Zhang, H, McLellan, M, Yau, C, Kandoth, C, Bowlby, R, Shen, H, Hayat, S, Fieldhouse, R, Lester, SC, Tse, GMK, Factor, RE, Collins, LC, Allison, KH, Chen, Y-Y, Jensen, K, Johnson, NB, Oesterreich, S, Mills, GB, Cherniack, AD, Robertson, G, Benz, C, Sander, C, Laird, PW, Hoadley, KA, King, TA, TCGA Research Network, , and Perou, CM. "Comprehensive Molecular Portraits of Invasive Lobular Breast Cancer." Cell 163, no. 2 (October 2015): 506-519.  Full Text
    • Siamakpour-Reihani, S, Owzar, K, Jiang, C, Turner, T, Deng, Y, Bean, SM, Horton, JK, Berchuck, A, Marks, JR, Dewhirst, MW, and Alvarez Secord, A. "Prognostic significance of differential expression of angiogenic genes in women with high-grade serous ovarian carcinoma." Gynecologic oncology 139, no. 1 (October 2015): 23-29.  Full Text
    • Elsarraj, HS, Hong, Y, Valdez, KE, Michaels, W, Hook, M, Smith, WP, Chien, J, Herschkowitz, JI, Troester, MA, Beck, M, Inciardi, M, Gatewood, J, May, L, Cusick, T, McGinness, M, Ricci, L, Fan, F, Tawfik, O, Marks, JR, Knapp, JR, Yeh, H-W, Thomas, P, Carrasco, DR, Fields, TA, Godwin, AK, and Behbod, F. "Expression profiling of in vivo ductal carcinoma in situ progression models identified B cell lymphoma-9 as a molecular driver of breast cancer invasion." Breast cancer research : BCR 17 (September 17, 2015): 128-.  Full Text
    • Marks, JR, Anderson, KS, Engstrom, P, Godwin, AK, Esserman, LJ, Longton, G, Iversen, ES, Mathew, A, Patriotis, C, and Pepe, MS. "Construction and analysis of the NCI-EDRN breast cancer reference set for circulating markers of disease." Cancer Epidemiology, Biomarkers & Prevention : a Publication of the American Association for Cancer Research, Cosponsored by the American Society of Preventive Oncology 24, no. 2 (February 2015): 435-441.  Full Text
    • Tang, X, Lin, C-C, Spasojevic, I, Iversen, ES, Chi, J-T, and Marks, JR. "A joint analysis of metabolomics and genetics of breast cancer." Breast Cancer Research : Bcr 16, no. 4 (August 5, 2014): 415-null.  Full Text
    • Marks, JR. "Refining the role of BRCA1 in combating oxidative stress. (Published online)" Breast Cancer Res 15, no. 6 (December 5, 2013): 320-.  Full Text  Link to Item
    • Schildkraut, JM, Iversen, ES, Akushevich, L, Whitaker, R, Bentley, RC, Berchuck, A, and Marks, JR. "Molecular signatures of epithelial ovarian cancer: analysis of associations with tumor characteristics and epidemiologic risk factors." Cancer Epidemiol Biomarkers Prev 22, no. 10 (October 2013): 1709-1721.  Full Text  Link to Item
    • Grant, DJ, Hoyo, C, Akushevich, L, Iversen, ES, Whitaker, R, Marks, J, Berchuck, A, and Schildkraut, JM. "Vitamin D receptor (VDR) polymorphisms and risk of ovarian cancer in Caucasian and African American women." Gynecologic Oncology 129, no. 1 (April 2013): 173-178.  Full Text
    • Sfakianos, GP, Iversen, ES, Whitaker, R, Akushevich, L, Schildkraut, JM, Murphy, SK, Marks, JR, and Berchuck, A. "Validation of ovarian cancer gene expression signatures for survival and subtype in formalin fixed paraffin embedded tissues." Gynecol Oncol 129, no. 1 (April 2013): 159-164.  Full Text  Link to Item
    • Jin, H, Daly, DS, Marks, JR, and Zangar, RC. "Oxidatively modified proteins as plasma biomarkers in breast cancer." Cancer Biomarkers : Section a of Disease Markers 13, no. 3 (January 2013): 193-200.  Full Text
    • Cancer Genome Atlas Network, . "Comprehensive molecular portraits of human breast tumours." Nature 490, no. 7418 (October 2012): 61-70.  Full Text
    • Lowery, WJ, Schildkraut, JM, Akushevich, L, Bentley, R, Marks, JR, Huntsman, D, and Berchuck, A. "Loss of ARID1A-associated protein expression is a frequent event in clear cell and endometrioid ovarian cancers." Int J Gynecol Cancer 22, no. 1 (January 2012): 9-14.  Full Text  Link to Item
    • Fackler, MJ, Umbricht, CB, Williams, D, Argani, P, Cruz, L-A, Merino, VF, Teo, WW, Zhang, Z, Huang, P, Visvananthan, K, Marks, J, Ethier, S, Gray, JW, Wolff, AC, Cope, LM, and Sukumar, S. "Genome-wide methylation analysis identifies genes specific to breast cancer hormone receptor status and risk of recurrence." Cancer Research 71, no. 19 (October 2011): 6195-6207.  Full Text
    • Kung, H-N, Marks, JR, and Chi, J-T. "Glutamine synthetase is a genetic determinant of cell type-specific glutamine independence in breast epithelia." Plos Genetics 7, no. 8 (August 11, 2011): e1002229-null.  Full Text
    • Gonzalez, RM, Daly, DS, Tan, R, Marks, JR, and Zangar, RC. "Plasma biomarker profiles differ depending on breast cancer subtype but RANTES is consistently increased." Cancer Epidemiology, Biomarkers & Prevention : a Publication of the American Association for Cancer Research, Cosponsored by the American Society of Preventive Oncology 20, no. 7 (July 2011): 1543-1551.  Full Text
    • Wardell, SE, Marks, JR, and McDonnell, DP. "The turnover of estrogen receptor α by the selective estrogen receptor degrader (SERD) fulvestrant is a saturable process that is not required for antagonist efficacy." Biochemical Pharmacology 82, no. 2 (July 2011): 122-130.  Full Text
    • Gatza, ML, Kung, H-N, Blackwell, KL, Dewhirst, MW, Marks, JR, and Chi, J-T. "Analysis of tumor environmental response and oncogenic pathway activation identifies distinct basal and luminal features in HER2-related breast tumor subtypes." Breast Cancer Research : Bcr 13, no. 3 (June 7, 2011): R62-null.  Full Text
    • Koh, J, Dar, M, Untch, BR, Dixit, D, Shi, Y, Yang, Z, Adam, MA, Dressman, H, Wang, X, Gesty-Palmer, D, Marks, JR, Spurney, R, Druey, KM, and Olson, JA. "Regulator of G protein signaling 5 is highly expressed in parathyroid tumors and inhibits signaling by the calcium-sensing receptor." Mol Endocrinol 25, no. 5 (May 2011): 867-876.  Full Text  Link to Item
    • Havrilesky, LJ, Sanders, GD, Kulasingam, S, Chino, JP, Berchuck, A, Marks, JR, and Myers, ER. "Development of an ovarian cancer screening decision model that incorporates disease heterogeneity: implications for potential mortality reduction." Cancer 117, no. 3 (February 1, 2011): 545-553.  Full Text  Link to Item
    • Anderson, KS, Sibani, S, Wallstrom, G, Qiu, J, Mendoza, EA, Raphael, J, Hainsworth, E, Montor, WR, Wong, J, Park, JG, Lokko, N, Logvinenko, T, Ramachandran, N, Godwin, AK, Marks, J, Engstrom, P, and Labaer, J. "Protein microarray signature of autoantibody biomarkers for the early detection of breast cancer." Journal of Proteome Research 10, no. 1 (January 2011): 85-96.  Full Text
    • Il'yasova, D, Kennedy, K, Spasojevic, I, Wang, F, Tolun, AA, Base, K, Young, SP, Kelly Marcom, P, Marks, J, Millington, DS, and Dewhirst, MW. "Individual responses to chemotherapy-induced oxidative stress." Breast Cancer Research and Treatment 125, no. 2 (January 2011): 583-589.  Full Text
    • Liggett, TE, Melnikov, AA, Marks, JR, and Levenson, VV. "Methylation patterns in cell-free plasma DNA reflect removal of the primary tumor and drug treatment of breast cancer patients." International Journal of Cancer 128, no. 2 (2011): 492-499.  Full Text
    • Adam, MA, Untch, BR, Danko, ME, Stinnett, S, Dixit, D, Koh, J, Marks, JR, and Olson, JA. "Severe obesity is associated with symptomatic presentation, higher parathyroid hormone levels, and increased gland weight in primary hyperparathyroidism." J Clin Endocrinol Metab 95, no. 11 (November 2010): 4917-4924.  Full Text  Link to Item
    • Moorman, PG, Iversen, ES, Marcom, PK, Marks, JR, Wang, F, Kathleen Cuningham Consortium for Research into Familial Breast Cancer, , Lee, E, Ursin, G, Rebbeck, TR, Domchek, SM, Arun, B, Susswein, L, Isaacs, C, Garber, JE, Visvanathan, K, Griffin, CA, Sutphen, R, Brzosowicz, J, Gruber, S, Finkelstein, DM, and Schildkraut, JM. "Evaluation of established breast cancer risk factors as modifiers of BRCA1 or BRCA2: a multi-center case-only analysis." Breast Cancer Res Treat 124, no. 2 (November 2010): 441-451.  Full Text  Link to Item
    • Il'yasova, D, Spasojevic, I, Wang, F, Tolun, AA, Base, K, Young, SP, Marcom, PK, Marks, J, Mixon, G, DiGiulio, R, and Millington, DS. "Urinary biomarkers of oxidative status in a clinical model of oxidative assault." Cancer Epidemiology, Biomarkers & Prevention : a Publication of the American Association for Cancer Research, Cosponsored by the American Society of Preventive Oncology 19, no. 6 (June 2010): 1506-1510.  Full Text
    • Bernardini, MQ, Baba, T, Lee, PS, Barnett, JC, Sfakianos, GP, Secord, AA, Murphy, SK, Iversen, E, Marks, JR, and Berchuck, A. "Expression signatures of TP53 mutations in serous ovarian cancers." Bmc Cancer 10 (May 26, 2010): 237-null.  Full Text  Open Access Copy
    • Barry, WT, Kernagis, DN, Dressman, HK, Griffis, RJ, Hunter, JD, Olson, JA, Marks, JR, Ginsburg, GS, Marcom, PK, Nevins, JR, Geradts, J, and Datto, MB. "Intratumor heterogeneity and precision of microarray-based predictors of breast cancer biology and clinical outcome." Journal of Clinical Oncology : Official Journal of the American Society of Clinical Oncology 28, no. 13 (May 2010): 2198-2206.  Full Text
    • Danko, ME, Bennett, KM, Zhai, J, Marks, JR, and Olson, JA. "Improved staging in node-positive breast cancer patients using lymph node ratio: results in 1,788 patients with long-term follow-up." Journal of the American College of Surgeons 210, no. 5 (May 2010): 797-807.  Full Text
    • Yurkovetsky, Z, Skates, S, Lomakin, A, Nolen, B, Pulsipher, T, Modugno, F, Marks, J, Godwin, A, Gorelik, E, Jacobs, I, Menon, U, Lu, K, Badgwell, D, Bast, RC, and Lokshin, AE. "Development of a multimarker assay for early detection of ovarian cancer." Journal of Clinical Oncology : Official Journal of the American Society of Clinical Oncology 28, no. 13 (May 2010): 2159-2166.  Full Text
    • Schildkraut, JM, Iversen, ES, Wilson, MA, Clyde, MA, Moorman, PG, Palmieri, RT, Whitaker, R, Bentley, RC, Marks, JR, and Berchuck, A. "Association between DNA damage response and repair genes and risk of invasive serous ovarian cancer.(Published online)" Plos One 5, no. 4 (April 8, 2010): e10061-null.  Full Text  Open Access Copy  Link to Item
    • Barnett, JC, Bean, SM, Whitaker, RS, Kondoh, E, Baba, T, Fujii, S, Marks, JR, Dressman, HK, Murphy, SK, and Berchuck, A. "Ovarian cancer tumor infiltrating T-regulatory (T(reg)) cells are associated with a metastatic phenotype." Gynecologic Oncology 116, no. 3 (March 2010): 556-562.  Full Text
    • Hartman, ZC, Wei, J, Osada, T, Glass, O, Lei, G, Yang, X-Y, Peplinski, S, Kim, D-W, Xia, W, Spector, N, Marks, J, Barry, W, Hobeika, A, Devi, G, Amalfitano, A, Morse, MA, Lyerly, HK, and Clay, TM. "An adenoviral vaccine encoding full-length inactivated human Her2 exhibits potent immunogenicty and enhanced therapeutic efficacy without oncogenicity." Clinical Cancer Research : an Official Journal of the American Association for Cancer Research 16, no. 5 (March 2010): 1466-1477.  Full Text
    • Phelan, CM, Tsai, Y-Y, Goode, EL, Vierkant, RA, Fridley, BL, Beesley, J, Chen, XQ, Webb, PM, Chanock, S, Cramer, DW, Moysich, K, Edwards, RP, Chang-Claude, J, Garcia-Closas, M, Yang, H, Wang-Gohrke, S, Hein, R, Green, AC, Lissowska, J, Carney, ME, Lurie, G, Wilkens, LR, Ness, RB, Pearce, CL, Wu, AH, Van Den Berg, DJ, Stram, DO, Terry, KL, Whiteman, DC, Whittemore, AS, DiCioccio, RA, McGuire, V, Doherty, JA, Rossing, MA, Anton-Culver, H, Ziogas, A, Hogdall, C, Hogdall, E, Krüger Kjaer, S, Blaakaer, J, Quaye, L, Ramus, SJ, Jacobs, I, Song, H, Pharoah, PDP, Iversen, ES, Marks, JR, Pike, MC, Gayther, SA, Cunningham, JM, Goodman, MT, Schildkraut, JM, Chenevix-Trench, G, Berchuck, A, Sellers, TA, Ovarian Cancer Association Consortium, Australian Cancer Study (Ovarian Cancer), , and Australian Ovarian Cancer Study Group, . "Polymorphism in the GALNT1 gene and epithelial ovarian cancer in non-Hispanic white women: the Ovarian Cancer Association Consortium." Cancer Epidemiology, Biomarkers & Prevention : a Publication of the American Association for Cancer Research, Cosponsored by the American Society of Preventive Oncology 19, no. 2 (February 2010): 600-604.  Full Text
    • Hoyo, C, Schildkraut, JM, Murphy, SK, Chow, W-H, Vaughan, TL, Risch, H, Marks, JR, Jirtle, RL, Calingaert, B, Mayne, S, Fraumeni, J, and Gammon, MD. "IGF2R polymorphisms and risk of esophageal and gastric adenocarcinomas." Int J Cancer 125, no. 11 (December 1, 2009): 2673-2678.  Full Text  Link to Item
    • Tebbit, CL, Zhai, J, Untch, BR, Ellis, MJ, Dressman, HK, Bentley, RC, Baker, JA, Marcom, PK, Nevins, JR, Marks, JR, and Olson, JA. "Novel tumor sampling strategies to enable microarray gene expression signatures in breast cancer: a study to determine feasibility and reproducibility in the context of clinical care." Breast Cancer Res Treat 118, no. 3 (December 2009): 635-643.  Full Text  Link to Item
    • Il'yasova, D, Mixon, G, Wang, F, Marcom, PK, Marks, J, Spasojevich, I, Craft, N, Arredondo, F, and DiGiulio, R. "Markers of oxidative status in a clinical model of oxidative assault: a pilot study in human blood following doxorubicin administration." Biomarkers 14, no. 5 (August 2009): 321-325.  Full Text  Link to Item
    • Hoyo, C, Grubber, J, Demark-Wahnefried, W, Lobaugh, B, Jeffreys, AS, Grambow, SC, Marks, JR, Keku, TO, Walther, PJ, and Schildkraut, JM. "Predictors of variation in serum IGF1 and IGFBP3 levels in healthy African American and white men." Journal of the National Medical Association 101, no. 7 (July 2009): 711-716.  Full Text
    • Westmoreland, TJ, Wickramasekara, SM, Guo, AY, Selim, AL, Winsor, TS, Greenleaf, AL, Blackwell, KL, Olson, JA, Marks, JR, and Bennett, CB. "Comparative genome-wide screening identifies a conserved doxorubicin repair network that is diploid specific in Saccharomyces cerevisiae." Plos One 4, no. 6 (June 8, 2009): e5830-null.  Full Text
    • Jesneck, JL, Mukherjee, S, Yurkovetsky, Z, Clyde, M, Marks, JR, Lokshin, AE, and Lo, JY. "Do serum biomarkers really measure breast cancer?(Published online)." Bmc Cancer 9 (May 28, 2009): 164-null.  Full Text  Link to Item
    • Levina, V, Nolen, BM, Marrangoni, AM, Cheng, P, Marks, JR, Szczepanski, MJ, Szajnik, ME, Gorelik, E, and Lokshin, AE. "Role of eotaxin-1 signaling in ovarian cancer." Clinical Cancer Research : an Official Journal of the American Association for Cancer Research 15, no. 8 (April 7, 2009): 2647-2656.  Full Text
    • Berchuck, A, Iversen, ES, Luo, J, Clarke, JP, Horne, H, Levine, DA, Boyd, J, Alonso, MA, Secord, AA, Bernardini, MQ, Barnett, JC, Boren, T, Murphy, SK, Dressman, HK, Marks, JR, and Lancaster, JM. "Microarray analysis of early stage serous ovarian cancers shows profiles predictive of favorable outcome." Clinical Cancer Research : an Official Journal of the American Association for Cancer Research 15, no. 7 (April 2009): 2448-2455.  Full Text
    • Schildkraut, JM, Goode, EL, Clyde, MA, Iversen, ES, Moorman, PG, Berchuck, A, Marks, JR, Lissowska, J, Brinton, L, Peplonska, B, Cunningham, JM, Vierkant, RA, Rider, DN, Chenevix-Trench, G, Webb, PM, Beesley, J, Chen, X, Phelan, C, Sutphen, R, Sellers, TA, Pearce, L, Wu, AH, Van Berg, DD, Conti, D, Elund, CK, Anderson, R, Goodman, MT, Lurie, G, Carney, ME, Thompson, PJ, Gayther, SA, Ramus, SJ, Jacobs, I, Kjaer, SK, Hogdall, E, Blaakaer, J, Hogdall, C, Easton, DF, Song, H, Pharoah, PDP, Whittemore, AS, McGuire, V, Quaye, L, Anton-Culver, H, Ziogas, A, Terry, KL, Cramer, DW, Hankinson, SE, Tworoger, SS, Calingaert, B, Chanock, S, Sherman, M, and Garcia-Closas, M. "Single nucleotide polymorphisms in the TP53 region and susceptibility to invasive epithelial ovarian cancer." Cancer Research 69, no. 6 (March 15, 2009): 2349-2357.  Full Text
    • Horne, HN, Lee, PS, Murphy, SK, Alonso, MA, Olson, JA, and Marks, JR. "Inactivation of the MAL gene in breast cancer is a common event that predicts benefit from adjuvant chemotherapy." Molecular Cancer Research : Mcr 7, no. 2 (February 10, 2009): 199-209.  Full Text
    • Baba, T, Convery, PA, Matsumura, N, Whitaker, RS, Kondoh, E, Perry, T, Huang, Z, Bentley, RC, Mori, S, Fujii, S, Marks, JR, Berchuck, A, and Murphy, SK. "Epigenetic regulation of CD133 and tumorigenicity of CD133+ ovarian cancer cells." Oncogene 28, no. 2 (January 15, 2009): 209-218.  Full Text  Link to Item
    • Hardee, ME, Eapen, RJ, Rabbani, ZN, Dreher, MR, Marks, J, Blackwell, KL, and Dewhirst, MW. "Her2/neu signaling blockade improves tumor oxygenation in a multifactorial fashion in Her2/neu+ tumors." Cancer Chemotherapy and Pharmacology 63, no. 2 (January 2009): 219-228.  Full Text
    • Anders, CK, Hsu, DS, Broadwater, G, Acharya, CR, Foekens, JA, Zhang, Y, Wang, Y, Marcom, PK, Marks, JR, Febbo, PG, Nevins, JR, Potti, A, and Blackwell, KL. "Young age at diagnosis correlates with worse prognosis and defines a subset of breast cancers with shared patterns of gene expression." Journal of Clinical Oncology : Official Journal of the American Society of Clinical Oncology 26, no. 20 (July 2008): 3324-3330.  Full Text
    • Desai, SD, Wood, LM, Tsai, Y-C, Hsieh, T-S, Marks, JR, Scott, GL, Giovanella, BC, and Liu, LF. "ISG15 as a novel tumor biomarker for drug sensitivity." Molecular Cancer Therapeutics 7, no. 6 (June 2008): 1430-1439.  Full Text
    • Schildkraut, JM, Moorman, PG, Bland, AE, Halabi, S, Calingaert, B, Whitaker, R, Lee, PS, Elkins-Williams, T, Bentley, RC, Marks, JR, and Berchuck, A. "Cyclin E overexpression in epithelial ovarian cancer characterizes an etiologic subgroup." Cancer Epidemiol Biomarkers Prev 17, no. 3 (March 2008): 585-593.  Full Text  Link to Item
    • Bennett, CB, Westmoreland, TJ, Verrier, CS, Blanchette, CAB, Sabin, TL, Phatnani, HP, Mishina, YV, Huper, G, Selim, AL, Madison, ER, Bailey, DD, Falae, AI, Galli, A, Olson, JA, Greenleaf, AL, and Marks, JR. "Yeast screens identify the RNA polymerase II CTD and SPT5 as relevant targets of BRCA1 interaction." Plos One 3, no. 1 (January 16, 2008): e1448-null.  Full Text  Open Access Copy
    • Anders, CK, Acharya, CR, Hsu, DS, Broadwater, G, Garman, K, Foekens, JA, Zhang, Y, Wang, Y, Marcom, K, Marks, JR, Mukherjee, S, Nevins, JR, Blackwell, KL, and Potti, A. "Age-specific differences in oncogenic pathway deregulation seen in human breast tumors. (Published online)" PLoS One 3, no. 1 (January 2, 2008): e1373-.  Full Text  Open Access Copy  Link to Item
    • Nolen, BM, Marks, JR, Ta'san, S, Rand, A, Luong, TM, Wang, Y, Blackwell, K, and Lokshin, AE. "Serum biomarker profiles and response to neoadjuvant chemotherapy for locally advanced breast cancer." Breast Cancer Research 10, no. 3 (2008).  Full Text
    • Hoyo, C, Grubber, J, Demark-Wahnefried, W, Marks, JR, Freedland, SJ, Jeffreys, AS, Grambow, SC, Wenham, RM, Walther, PJ, and Schildkraut, JM. "Grade-specific prostate cancer associations of IGF1 (CA)19 repeats and IGFBP3-202A/C in blacks and whites." Journal of the National Medical Association 99, no. 7 (July 2007): 718-722.
    • Spillman, MA, Lacy, J, Murphy, SK, Whitaker, RS, Grace, L, Teaberry, V, Marks, JR, and Berchuck, A. "Regulation of the metastasis suppressor gene MKK4 in ovarian cancer." Gynecol Oncol 105, no. 2 (May 2007): 312-320.  Full Text  Link to Item
    • Gayther, SA, Song, H, Ramus, SJ, Kjaer, SK, Whittemore, AS, Quaye, L, Tyrer, J, Shadforth, D, Hogdall, E, Hogdall, C, Blaeker, J, DiCioccio, R, McGuire, V, Webb, PM, Beesley, J, Green, AC, Whiteman, DC, Australian Ovarian Cancer Study Group, , Goodman, MT, Lurie, G, Carney, ME, Modugno, F, Ness, RB, Edwards, RP, Moysich, KB, Goode, EL, Couch, FJ, Cunningham, JM, Sellers, TA, Wu, AH, Pike, MC, Iversen, ES, Marks, JR, Garcia-Closas, M, Brinton, L, Lissowska, J, Peplonska, B, Easton, DF, Jacobs, I, Ponder, BAJ, Schildkraut, J, Pearce, CL, Chenevix-Trench, G, Berchuck, A, Pharoah, PDP, and Ovarian Cancer Association Consortium, . "Tagging single nucleotide polymorphisms in cell cycle control genes and susceptibility to invasive epithelial ovarian cancer." Cancer Research 67, no. 7 (April 2007): 3027-3035.  Full Text
    • Huper, G, and Marks, JR. "Isogenic normal basal and luminal mammary epithelial isolated by a novel method show a differential response to ionizing radiation." Cancer Research 67, no. 7 (April 2007): 2990-3001.  Full Text
    • Schildkraut, JM, Murphy, SK, Palmieri, RT, Iversen, E, Moorman, PG, Huang, Z, Halabi, S, Calingaert, B, Gusberg, A, Marks, JR, and Berchuck, A. "Trinucleotide repeat polymorphisms in the androgen receptor gene and risk of ovarian cancer." Cancer Epidemiol Biomarkers Prev 16, no. 3 (March 2007): 473-480.  Full Text  Link to Item
    • Dong, M, How, T, Kirkbride, KC, Gordon, KJ, Lee, JD, Hempel, N, Kelly, P, Moeller, BJ, Marks, JR, and Blobe, GC. "The type III TGF-beta receptor suppresses breast cancer progression." The Journal of Clinical Investigation 117, no. 1 (January 2007): 206-217.  Full Text
    • Skates, SJ, Horick, NK, Moy, JM, Minihan, AM, Seiden, MV, Marks, JR, Sluss, P, and Cramer, DW. "Pooling of case specimens to create standard serum sets for screening cancer biomarkers." Cancer Epidemiology Biomarkers and Prevention 16, no. 2 (2007): 334-341.  Full Text
    • Lancaster, JM, Dressman, HK, Clarke, JP, Sayer, RA, Martino, MA, Cragun, JM, Henriott, AH, Gray, J, Sutphen, R, Elahi, A, Whitaker, RS, West, M, Marks, JR, Nevins, JR, and Berchuck, A. "Identification of genes associated with ovarian cancer metastasis using microarray expression analysis." Int J Gynecol Cancer 16, no. 5 (September 2006): 1733-1745.  Full Text  Link to Item
    • Lancaster, JM, Sayer, RA, Blanchette, C, Calingaert, B, Konidari, I, Gray, J, Schildkraut, J, Schomberg, DW, Marks, JR, and Berchuck, A. "High expression of insulin-like growth factor binding protein-2 messenger RNA in epithelial ovarian cancers produces elevated preoperative serum levels." International Journal of Gynecological Cancer : Official Journal of the International Gynecological Cancer Society 16, no. 4 (July 2006): 1529-1535.  Full Text
    • Gynecologic Oncology Group, , Secord, AA, Lee, PS, Darcy, KM, Havrilesky, LJ, Grace, LA, Marks, JR, and Berchuck, A. "Maspin expression in epithelial ovarian cancer and associations with poor prognosis: a Gynecologic Oncology Group study." Gynecologic Oncology 101, no. 3 (June 2006): 390-397.  Full Text
    • Brown, NM, Stenzel, TT, Friedman, PN, Henslee, J, Huper, G, and Marks, JR. "Evaluation of expression based markers for the detection of breast cancer cells." Breast Cancer Res Treat 97, no. 1 (May 2006): 41-47.  Full Text  Link to Item
    • Murphy, SK, Huang, Z, Wen, Y, Spillman, MA, Whitaker, RS, Simel, LR, Nichols, TD, Marks, JR, and Berchuck, A. "Frequent IGF2/H19 domain epigenetic alterations and elevated IGF2 expression in epithelial ovarian cancer." Mol Cancer Res 4, no. 4 (April 2006): 283-292.  Full Text  Link to Item
    • Yao, J, Weremowicz, S, Feng, B, Gentleman, RC, Marks, JR, Gelman, R, Brennan, C, and Polyak, K. "Combined cDNA array comparative genomic hybridization and serial analysis of gene expression analysis of breast tumor progression." Cancer Research 66, no. 8 (April 2006): 4065-4078.  Full Text
    • Dressman, HK, Hans, C, Bild, A, Olson, JA, Rosen, E, Marcom, PK, Liotcheva, VB, Jones, EL, Vujaskovic, Z, Marks, J, Dewhirst, MW, West, M, Nevins, JR, and Blackwell, K. "Gene expression profiles of multiple breast cancer phenotypes and response to neoadjuvant chemotherapy." Clinical Cancer Research : an Official Journal of the American Association for Cancer Research 12, no. 3 Pt 1 (February 2006): 819-826.  Full Text
    • Schafer, ZT, Parrish, AB, Wright, KM, Margolis, SS, Marks, JR, Deshmukh, M, and Kornbluth, S. "Enhanced sensitivity to cytochrome c-induced apoptosis mediated by PHAPI in breast cancer cells." Cancer Research 66, no. 4 (February 2006): 2210-2218.  Full Text
    • Huang, Z, Wen, Y, Shandilya, R, Marks, JR, Berchuck, A, and Murphy, SK. "High throughput detection of M6P/IGF2R intronic hypermethylation and LOH in ovarian cancer." Nucleic Acids Research 34, no. 2 (January 23, 2006): 555-563.  Full Text
    • Bild, AH, Yao, G, Chang, JT, Wang, Q, Potti, A, Chasse, D, Joshi, M-B, Harpole, D, Lancaster, JM, Berchuck, A, Olson, JA, Marks, JR, Dressman, HK, West, M, and Nevins, JR. "Oncogenic pathway signatures in human cancers as a guide to targeted therapies." Nature 439, no. 7074 (January 2006): 353-357.  Full Text
    • Schildkraut, JM, Moorman, PG, Halabi, S, Calingaert, B, Marks, JR, and Berchuck, A. "Analgesic drug use and risk of ovarian cancer." Epidemiology 17, no. 1 (January 2006): 104-107.  Link to Item
    • Petros, WP, Hopkins, PJ, Spruill, S, Broadwater, G, Vredenburgh, JJ, Colvin, OM, Peters, WP, Jones, RB, Hall, J, and Marks, JR. "Associations between drug metabolism genotype, chemotherapy pharmacokinetics, and overall survival in patients with breast cancer." Journal of Clinical Oncology : Official Journal of the American Society of Clinical Oncology 23, no. 25 (September 2005): 6117-6125.  Full Text
    • Berchuck, A, Iversen, ES, Lancaster, JM, Pittman, J, Luo, J, Lee, P, Murphy, S, Dressman, HK, Febbo, PG, West, M, Nevins, JR, and Marks, JR. "Patterns of gene expression that characterize long-term survival in advanced stage serous ovarian cancers." Clin Cancer Res 11, no. 10 (May 15, 2005): 3686-3696.  Full Text  Link to Item
    • Spillman, MA, Schildkraut, JM, Halabi, S, Moorman, P, Calingaert, B, Bentley, RC, Marks, JR, Murphy, S, and Berchuck, A. "Transforming growth factor beta receptor I polyalanine repeat polymorphism does not increase ovarian cancer risk." Gynecol Oncol 97, no. 2 (May 2005): 543-549.  Full Text  Link to Item
    • Wang, W, Huper, G, Guo, Y, Murphy, SK, Olson, JA, and Marks, JR. "Analysis of methylation-sensitive transcriptome identifies GADD45a as a frequently methylated gene in breast cancer." Oncogene 24, no. 16 (April 14, 2005): 2705-2714.  Full Text  Link to Item
    • Sayer, RA, Lancaster, JM, Pittman, J, Gray, J, Whitaker, R, Marks, JR, and Berchuck, A. "High insulin-like growth factor-2 (IGF-2) gene expression is an independent predictor of poor survival for patients with advanced stage serous epithelial ovarian cancer." Gynecol Oncol 96, no. 2 (February 2005): 355-361.  Full Text  Link to Item
    • Schildkraut, JM, Demark-Wahnefried, W, Wenham, RM, Grubber, J, Jeffreys, AS, Grambow, SC, Marks, JR, Moorman, PG, Hoyo, C, Ali, S, and Walther, PJ. "IGF1 (CA)19 repeat and IGFBP3 -202 A/C genotypes and the risk of prostate cancer in Black and White men." Cancer Epidemiology, Biomarkers & Prevention : a Publication of the American Association for Cancer Research, Cosponsored by the American Society of Preventive Oncology 14, no. 2 (February 2005): 403-408.  Full Text
    • Berchuck, A, Schildkraut, JM, Wenham, RM, Calingaert, B, Ali, S, Henriott, A, Halabi, S, Rodriguez, GC, Gertig, D, Purdie, DM, Kelemen, L, Spurdle, AB, Marks, J, and Chenevix-Trench, G. "Progesterone receptor promoter +331A polymorphism is associated with a reduced risk of endometrioid and clear cell ovarian cancers." Cancer Epidemiol Biomarkers Prev 13, no. 12 (December 2004): 2141-2147.  Link to Item
    • Wang, W, Nahta, R, Huper, G, and Marks, JR. "TAFII70 isoform-specific growth suppression correlates with its ability to complex with the GADD45a protein." Mol Cancer Res 2, no. 8 (August 2004): 442-452.  Link to Item
    • Ochiai, H, Moore, SA, Archer, GE, Okamura, T, Chewning, TA, Marks, JR, Sampson, JH, and Gromeier, M. "Treatment of intracerebral neoplasia and neoplastic meningitis with regional delivery of oncolytic recombinant poliovirus." Clinical Cancer Research : an Official Journal of the American Association for Cancer Research 10, no. 14 (July 2004): 4831-4838.  Full Text
    • Shao, R, Bao, S, Bai, X, Blanchette, C, Anderson, RM, Dang, T, Gishizky, ML, Marks, JR, and Wang, X-F. "Acquired expression of periostin by human breast cancers promotes tumor angiogenesis through up-regulation of vascular endothelial growth factor receptor 2 expression." Molecular and Cellular Biology 24, no. 9 (May 2004): 3992-4003.  Full Text
    • Tebbit, CL, Bentley, RC, Olson, JA, and Marks, JR. "Estrogen receptor alpha (ESR1) mutant A908G is not a common feature in benign and malignant proliferations of the breast." Genes Chromosomes Cancer 40, no. 1 (May 2004): 51-54.  Full Text  Link to Item
    • Berchuck, A, Iversen, ES, Lancaster, JM, Dressman, HK, West, M, Nevins, JR, and Marks, JR. "Prediction of optimal versus suboptimal cytoreduction of advanced-stage serous ovarian cancer with the use of microarrays." Am J Obstet Gynecol 190, no. 4 (April 2004): 910-925.  Full Text  Link to Item
    • Westmoreland, TJ, Marks, JR, Olson, JA, Thompson, EM, Resnick, MA, and Bennett, CB. "Cell cycle progression in G1 and S phases is CCR4 dependent following ionizing radiation or replication stress in Saccharomyces cerevisiae." Eukaryotic Cell 3, no. 2 (April 2004): 430-446.  Full Text
    • Lancaster, JM, Dressman, HK, Whitaker, RS, Havrilesky, L, Gray, J, Marks, JR, Nevins, JR, and Berchuck, A. "Gene expression patterns that characterize advanced stage serous ovarian cancers." J Soc Gynecol Investig 11, no. 1 (January 2004): 51-59.  Link to Item
    • Wenham, RM, Schildkraut, JM, McLean, K, Calingaert, B, Bentley, RC, Marks, J, and Berchuck, A. "Polymorphisms in BRCA1 and BRCA2 and risk of epithelial ovarian cancer." Clin Cancer Res 9, no. 12 (October 1, 2003): 4396-4403.  Link to Item
    • Porter, D, Weremowicz, S, Chin, K, Seth, P, Keshaviah, A, Lahti-Domenici, J, Bae, YK, Monitto, CL, Merlos-Suarez, A, Chan, J, Hulette, CM, Richardson, A, Morton, CC, Marks, J, Duyao, M, Hruban, R, Gabrielson, E, Gelman, R, and Polyak, K. "A neural survival factor is a candidate oncogene in breast cancer." Proceedings of the National Academy of Sciences of the United States of America 100, no. 19 (September 2, 2003): 10931-10936.  Full Text
    • Ellis, MJ, Rosen, E, Dressman, H, and Marks, J. "Neoadjuvant comparisons of aromatase inhibitors and tamoxifen: pretreatment determinants of response and on-treatment effect." The Journal of Steroid Biochemistry and Molecular Biology 86, no. 3-5 (September 2003): 301-307. (Review)  Full Text
    • Wenham, RM, Calingaert, B, Ali, S, McClean, K, Whitaker, R, Bentley, R, Lancaster, JM, Schildkraut, J, Marks, J, and Berchuck, A. "Matrix metalloproteinase-1 gene promoter polymorphism and risk of ovarian cancer." Journal of the Society for Gynecologic Investigation 10, no. 6 (September 2003): 381-387.  Full Text
    • Westmoreland, TJ, Olson, JA, Saito, WY, Huper, G, Marks, JR, and Bennett, CB. "Dhh1 regulates the G1/S-checkpoint following DNA damage or BRCA1 expression in yeast." J Surg Res 113, no. 1 (July 2003): 62-73.  Link to Item
    • Lancaster, JM, Wenham, RM, Halabi, S, Calingaert, B, Marks, JR, Moorman, PG, Bentley, RC, Berchuck, A, and Schildkraut, JM. "No relationship between ovarian cancer risk and progesterone receptor gene polymorphism in a population-based, case-control study in North Carolina." Cancer Epidemiol Biomarkers Prev 12, no. 3 (March 2003): 226-227.  Link to Item
    • Mu, D, Chen, L, Zhang, X, See, L-H, Koch, CM, Yen, C, Tong, JJ, Spiegel, L, Nguyen, KCQ, Servoss, A, Peng, Y, Pei, L, Marks, JR, Lowe, S, Hoey, T, Jan, LY, McCombie, WR, Wigler, MH, and Powers, S. "Genomic amplification and oncogenic properties of the KCNK9 potassium channel gene." Cancer Cell 3, no. 3 (March 2003): 297-302.  Full Text
    • Porter, D, Lahti-Domenici, J, Keshaviah, A, Bae, YK, Argani, P, Marks, J, Richardson, A, Cooper, A, Strausberg, R, Riggins, GJ, Schnitt, S, Gabrielson, E, Gelman, R, and Polyak, K. "Molecular markers in ductal carcinoma in situ of the breast." Molecular Cancer Research : Mcr 1, no. 5 (March 2003): 362-375.
    • Lancaster, JM, Sayer, R, Blanchette, C, Calingaert, B, Whitaker, R, Schildkraut, J, Marks, J, and Berchuck, A. "High expression of tumor necrosis factor-related apoptosis-inducing ligand is associated with favorable ovarian cancer survival." Clin Cancer Res 9, no. 2 (February 2003): 762-766.  Link to Item
    • Gilliam, LK, Lobenhofer, EK, Greer, PK, Scearce, RM, Cirisano, FD, Marks, JR, and Hale, LP. "BRCA2 monoclonal antibodies react with differentiating epithelium." Hybrid Hybridomics 21, no. 4 (August 2002): 261-269.  Full Text  Link to Item
    • Li, J, Yang, Y, Peng, Y, Austin, RJ, van Eyndhoven, WG, Nguyen, KCQ, Gabriele, T, McCurrach, ME, Marks, JR, Hoey, T, Lowe, SW, and Powers, S. "Oncogenic properties of PPM1D located within a breast cancer amplification epicenter at 17q23." Nature Genetics 31, no. 2 (June 2002): 133-134.  Full Text
    • Spang, R, Zuzan, H, West, M, Nevins, J, Blanchette, C, and Marks, JR. "Prediction and uncertainty in the analysis of gene expression profiles." In Silico Biol 2, no. 3 (2002): 369-381.  Link to Item
    • Havrilesky, LJ, Alvarez, AA, Whitaker, RS, Marks, JR, and Berchuck, A. "Loss of expression of the p16 tumor suppressor gene is more frequent in advanced ovarian cancers lacking p53 mutations." Gynecologic oncology 83, no. 3 (December 2001): 491-500.  Full Text
    • West, M, Blanchette, C, Dressman, H, Huang, E, Ishida, S, Spang, R, Zuzan, H, Olson, JA, Marks, JR, and Nevins, JR. "Predicting the clinical status of human breast cancer by using gene expression profiles." Proceedings of the National Academy of Sciences of the United States of America 98, no. 20 (September 18, 2001): 11462-11467.  Full Text
    • Krop, IE, Sgroi, D, Porter, DA, Lunetta, KL, LeVangie, R, Seth, P, Kaelin, CM, Rhei, E, Bosenberg, M, Schnitt, S, Marks, JR, Pagon, Z, Belina, D, Razumovic, J, and Polyak, K. "HIN-1, a putative cytokine highly expressed in normal but not cancerous mammary epithelial cells." Proceedings of the National Academy of Sciences of the United States of America 98, no. 17 (August 2001): 9796-9801.  Full Text
    • Porter, DA, Krop, IE, Nasser, S, Sgroi, D, Kaelin, CM, Marks, JR, Riggins, G, and Polyak, K. "A SAGE (serial analysis of gene expression) view of breast tumor progression." Cancer Res 61, no. 15 (August 1, 2001): 5697-5702.  Link to Item
    • Moorman, PG, Hamza, A, Marks, JR, and Olson, JA. "Prognostic significance of the number of lymph nodes examined in patients with lymph node-negative breast carcinoma." Cancer 91, no. 12 (June 2001): 2258-2262.  Full Text
    • Umbricht, CB, Evron, E, Gabrielson, E, Ferguson, A, Marks, J, and Sukumar, S. "Hypermethylation of 14-3-3 sigma (stratifin) is an early event in breast cancer." Oncogene 20, no. 26 (June 2001): 3348-3353.  Full Text
    • Havrilesky, LJ, McMahon, CP, Lobenhofer, EK, Whitaker, R, Marks, JR, and Berchuck, A. "Relationship between expression of coactivators and corepressors of hormone receptors and resistance of ovarian cancers to growth regulation by steroid hormones." Journal of the Society for Gynecologic Investigation 8, no. 2 (March 2001): 104-113.  Full Text
    • Evron, E, Umbricht, CB, Korz, D, Raman, V, Loeb, DM, Niranjan, B, Buluwela, L, Weitzman, SA, Marks, J, and Sukumar, S. "Loss of cyclin D2 expression in the majority of breast cancers is associated with promoter hypermethylation." Cancer Research 61, no. 6 (2001): 2782-2787.
    • Seth, P, Lunetta, KL, Bell, DW, Gray, H, Nasser, SM, Rhei, E, Kaelin, CM, Iglehart, DJ, Marks, JR, Garber, JE, Haber, DA, and Polyak, K. "Phenol sulfotransferases: hormonal regulation, polymorphism, and age of onset of breast cancer." Cancer Res 60, no. 24 (December 15, 2000): 6859-6863.  Link to Item
    • Lobenhofer, EK, and Marks, JR. "Estrogen-induced mitogenesis of MCF-7 cells does not require the induction of mitogen-activated protein kinase activity." J Steroid Biochem Mol Biol 75, no. 1 (December 1, 2000): 11-20.  Link to Item
    • Raman, V, Martensen, SA, Reisman, D, Evron, E, Odenwald, WF, Jaffee, E, Marks, J, and Sukumar, S. "Compromised HOXA5 function can limit p53 expression in human breast tumours." Nature 405, no. 6789 (June 2000): 974-978.  Full Text
    • Ferguson, AT, Evron, E, Umbricht, CB, Pandita, TK, Chan, TA, Hermeking, H, Marks, JR, Lambers, AR, Futreal, PA, Stampfer, MR, and Sukumar, S. "High frequency of hypermethylation at the 14-3-3 sigma locus leads to gene silencing in breast cancer." Proceedings of the National Academy of Sciences of the United States of America 97, no. 11 (May 2000): 6049-6054.  Full Text
    • Lobenhofer, EK, Huper, G, Iglehart, JD, and Marks, JR. "Inhibition of mitogen-activated protein kinase and phosphatidylinositol 3-kinase activity in MCF-7 cells prevents estrogen-induced mitogenesis." Cell Growth & Differentiation : the Molecular Biology Journal of the American Association for Cancer Research 11, no. 2 (February 2000): 99-110.
    • Berchuck, A, Schildkraut, JM, Marks, JR, and Futreal, PA. "Managing hereditary ovarian cancer risk." Cancer 86, no. 11 Suppl (December 1, 1999): 2517-2524. (Review)  Link to Item
    • Davis, PL, Miron, A, Andersen, LM, Iglehart, JD, and Marks, JR. "Isolation and initial characterization of the BRCA2 promoter." Oncogene 18, no. 44 (October 28, 1999): 6000-6012.  Full Text  Link to Item
    • Carey, LA, Kim, NW, Goodman, S, Marks, J, Henderson, G, Umbricht, CB, Dome, JS, Dooley, W, Amshey, SR, and Sukumar, S. "Telomerase activity and prognosis in primary breast cancers." Journal of Clinical Oncology : Official Journal of the American Society of Clinical Oncology 17, no. 10 (October 1999): 3075-3081.  Full Text
    • Lambers, AR, Gumbs, C, Ali, S, Marks, JR, Iglehart, JD, Berchuck, A, and Futreal, PA. "Bcl10 is not a target for frequent mutation in human carcinomas." British Journal of Cancer 80, no. 10 (July 1999): 1575-1576.  Full Text
    • Szukala, SA, Marks, JR, Burchette, JL, Elbendary, AA, and Krigman, HR. "Co-expression of p53 by epithelial and stromal elements in carcinosarcoma of the female genital tract: an immunohistochemical study of 19 cases." Int J Gynecol Cancer 9, no. 2 (March 1999): 131-136.  Link to Item
    • Berchuck, A, Schildkraut, JM, Marks, JR, and Futreal, PA. "Managing hereditary ovarian cancer risk." Cancer 86, no. 11 SUPPL. (1999): 2517-2524.
    • Dong, Q, Johnson, SP, Colvin, OM, Bullock, N, Kilborn, C, Runyon, G, Sullivan, DM, Easton, J, Bigner, DD, Nahta, R, Marks, J, Modrich, P, and Friedman, HS. "Multiple DNA repair mechanisms and alkylator resistance in the human medulloblastoma cell line D-283 Med (4-HCR)." Cancer Chemotherapy and Pharmacology 43, no. 1 (January 1999): 73-79.  Full Text
    • Umbricht, CB, Sherman, ME, Dome, J, Carey, LA, Marks, J, Kim, N, and Sukumar, S. "Telomerase activity in ductal carcinoma in situ and invasive breast cancer." Oncogene 18, no. 22 (1999): 3407-3414.  Full Text
    • Lopez, CB, Rao, TD, Feiner, H, Shapiro, R, Marks, JR, and Frey, AB. "Repression of interleukin-2 mRNA translation in primary human breast carcinoma tumor-infiltrating lymphocytes." Cellular Immunology 190, no. 2 (December 1998): 141-155.  Full Text
    • Berchuck, A, Heron, KA, Carney, ME, Lancaster, JM, Fraser, EG, Vinson, VL, Deffenbaugh, AM, Miron, A, Marks, JR, Futreal, PA, and Frank, TS. "Frequency of germline and somatic BRCA1 mutations in ovarian cancer." Clinical Cancer Research : an Official Journal of the American Association for Cancer Research 4, no. 10 (October 1998): 2433-2437.
    • Carney, ME, Maxwell, GL, Lancaster, JM, Gumbs, C, Marks, J, Berchuck, A, and Futreal, PA. "Aberrant splicing of the TSG101 tumor suppressor gene in human breast and ovarian cancers." J Soc Gynecol Investig 5, no. 5 (September 1998): 281-285.  Link to Item
    • Davis, PL, Shaiu, WL, Scott, GL, Iglehart, JD, Hsieh, TS, and Marks, JR. "Complex response of breast epithelial cell lines to topoisomerase inhibitors." Anticancer Res 18, no. 4C (July 1998): 2919-2932.  Link to Item
    • Berchuck, A, Carney, M, Lancaster, JM, Marks, J, and Futreal, AP. "Familial breast-ovarian cancer syndromes: BRCA1 and BRCA2." Clin Obstet Gynecol 41, no. 1 (March 1998): 157-166. (Review)  Link to Item
    • Burke, HB, Hoang, A, Iglehart, JD, and Marks, JR. "Predicting response to adjuvant and radiation therapy in patients with early stage breast carcinoma." Cancer 82, no. 5 (March 1, 1998): 874-877.  Link to Item
    • Peters, KG, Coogan, A, Berry, D, Marks, J, Iglehart, JD, Kontos, CD, Rao, P, Sankar, S, and Trogan, E. "Expression of Tie2/Tek in breast tumour vasculature provides a new marker for evaluation of tumour angiogenesis." British Journal of Cancer 77, no. 1 (January 1998): 51-56.  Full Text
    • Burke, HB, Goodman, PH, Rosen, DB, Henson, DE, Weinstein, JN, Harrell, FE, Marks, JR, Winchester, DP, and Bostwick, DG. "Artificial neural networks improve the accuracy of cancer survival prediction." Cancer 79, no. 4 (February 1997): 857-862.  Full Text
    • Marks, JR, Huper, G, Vaughn, JP, Davis, PL, Norris, J, McDonnell, DP, Wiseman, RW, Futreal, PA, and Iglehart, JD. "BRCA1 expression is not directly responsive to estrogen." Oncogene 14, no. 1 (January 1997): 115-121.  Full Text
    • Hettasch, JM, Bandarenko, N, Burchette, JL, Lai, TS, Marks, JR, Haroon, ZA, Peters, K, Dewhirst, MW, Iglehart, JD, and Greenberg, CS. "Tissue transglutaminase expression in human breast cancer." Laboratory Investigation; a Journal of Technical Methods and Pathology 75, no. 5 (November 1996): 637-645.
    • Kohler, MF, Carney, P, Dodge, R, Soper, JT, Clarke-Pearson, DL, Marks, JR, and Berchuck, A. "p53 overexpression in advanced-stage endometrial adenocarcinoma." Am J Obstet Gynecol 175, no. 5 (November 1996): 1246-1252.  Link to Item
    • Lancaster, JM, Brownlee, HA, Bell, DA, Futreal, PA, Marks, JR, Berchuck, A, Wiseman, RW, and Taylor, JA. "Microsomal epoxide hydrolase polymorphism as a risk factor for ovarian cancer." Molecular Carcinogenesis 17, no. 3 (November 1996): 160-162.  Full Text
    • Vaughn, JP, Stekler, J, Demirdji, S, Mills, JK, Caruthers, MH, Iglehart, JD, and Marks, JR. "Inhibition of the erbB-2 tyrosine kinase receptor in breast cancer cells by phosphoromonothioate and phosphorodithioate antisense oligonucleotides." Nucleic Acids Research 24, no. 22 (November 1996): 4558-4564.  Full Text
    • Vaughn, JP, Cirisano, FD, Huper, G, Berchuck, A, Futreal, PA, Marks, JR, and Iglehart, JD. "Cell cycle control of BRCA2." Cancer Research 56, no. 20 (October 1996): 4590-4594.
    • Berchuck, A, Cirisano, F, Lancaster, JM, Schildkraut, JM, Wiseman, RW, Futreal, A, and Marks, JR. "Role of BRCA1 mutation screening in the management of familial ovarian cancer." Am J Obstet Gynecol 175, no. 3 Pt 1 (September 1996): 738-746. (Review)  Link to Item
    • Davis, P, Bazar, K, Huper, G, Lozano, G, Marks, J, and Iglehart, JD. "Dominance of wild-type p53-mediated transcriptional activation in breast epithelial cells." Oncogene 13, no. 6 (September 1996): 1315-1322.
    • Elbendary, AA, Cirisano, FD, Evans, AC, Davis, PL, Iglehart, JD, Marks, JR, and Berchuck, A. "Relationship between p21 expression and mutation of the p53 tumor suppressor gene in normal and malignant ovarian epithelial cells." Clin Cancer Res 2, no. 9 (September 1996): 1571-1575.  Link to Item
    • Lancaster, JM, Wooster, R, Mangion, J, Phelan, CM, Cochran, C, Gumbs, C, Seal, S, Barfoot, R, Collins, N, Bignell, G, Patel, S, Hamoudi, R, Larsson, C, Wiseman, RW, Berchuck, A, Iglehart, JD, Marks, JR, Ashworth, A, Stratton, MR, and Futreal, PA. "BRCA2 mutations in primary breast and ovarian cancers." Nature Genetics 13, no. 2 (June 1996): 238-240.  Full Text
    • Vaughn, JP, Davis, PL, Jarboe, MD, Huper, G, Evans, AC, Wiseman, RW, Berchuck, A, Iglehart, JD, Futreal, PA, and Marks, JR. "BRCA1 expression is induced before DNA synthesis in both normal and tumor-derived breast cells." Cell Growth Differ 7, no. 6 (June 1996): 711-715.  Link to Item
    • Hankins, GR, De Souza, AT, Bentley, RC, Patel, MR, Marks, JR, Iglehart, JD, and Jirtle, RL. "M6P/IGF2 receptor: a candidate breast tumor suppressor gene." Oncogene 12, no. 9 (May 2, 1996): 2003-2009.  Link to Item
    • Layfield, LJ, Kerns, B-JM, Conlon, DH, Iglehart, JD, Marks, JR, and Dodge, RK. "Determination of Proliferation Index By MIB-1 Immunostaining in Early Stage Breast Cancer Using Quantitative Image Analysis." The Breast Journal 1, no. 6 (November 1995): 362-371.  Full Text
    • Norris, J, Fan, D, Aleman, C, Marks, JR, Futreal, PA, Wiseman, RW, Iglehart, JD, Deininger, PL, and McDonnell, DP. "Identification of a new subclass of Alu DNA repeats which can function as estrogen receptor-dependent transcriptional enhancers." J Biol Chem 270, no. 39 (September 29, 1995): 22777-22782.  Link to Item
    • Vaughn, JP, Iglehart, JD, Demirdji, S, Davis, P, Babiss, LE, Caruthers, MH, and Marks, JR. "Antisense DNA downregulation of the ERBB2 oncogene measured by a flow cytometric assay." Proceedings of the National Academy of Sciences of the United States of America 92, no. 18 (August 1995): 8338-8342.  Full Text
    • Harpole, DH, Marks, JR, Richards, WG, Herndon, JE, and Sugarbaker, DJ. "Localized adenocarcinoma of the lung: oncogene expression of erbB-2 and p53 in 150 patients." Clin Cancer Res 1, no. 6 (June 1995): 659-664.  Link to Item
    • Iglehart, JD, Kerns, BJ, Huper, G, and Marks, JR. "Maintenance of DNA content and erbB-2 alterations in intraductal and invasive phases of mammary cancer." Breast Cancer Res Treat 34, no. 3 (June 1995): 253-263.  Link to Item
    • Harpole, DH, Herndon, JE, Wolfe, WG, Iglehart, JD, and Marks, JR. "A prognostic model of recurrence and death in stage I non-small cell lung cancer utilizing presentation, histopathology, and oncoprotein expression." Cancer Res 55, no. 1 (January 1, 1995): 51-56.  Link to Item
    • Krigman, HR, Coogan, AC, and Marks, JR. "Simultaneous endometrial malignant mixed mesodermal tumor and ovarian serous adenocarcinoma." Arch Pathol Lab Med 119, no. 1 (January 1995): 99-103.  Link to Item
    • Elbendary, A, Berchuck, A, Davis, P, Havrilesky, L, Bast, RC, Iglehart, JD, and Marks, JR. "Transforming growth factor beta 1 can induce CIP1/WAF1 expression independent of the p53 pathway in ovarian cancer cells." Cell Growth Differ 5, no. 12 (December 1994): 1301-1307.  Link to Item
    • Futreal, PA, Liu, Q, Shattuck-Eidens, D, Cochran, C, Harshman, K, Tavtigian, S, Bennett, LM, Haugen-Strano, A, Swensen, J, and Miki, Y. "BRCA1 mutations in primary breast and ovarian carcinomas." Science (New York, N.Y.) 266, no. 5182 (October 1994): 120-122.  Full Text
    • Pykett, MJ, Murphy, ME, Harnish, PR, Muenke, M, Marks, J, and George, DL. "Loss of chromosome 8p sequences in human breast carcinoma cell lines." Cancer Genetics and Cytogenetics 76, no. 1 (August 1994): 23-28.  Full Text
    • Futreal, PA, Cochran, C, Marks, JR, Iglehart, JD, Zimmerman, W, Barrett, JC, and Wiseman, RW. "Mutation analysis of the THRA1 gene in breast cancer: deletion/fusion of the gene to a novel sequence on 17q in the BT474 cell line." Cancer Res 54, no. 7 (April 1, 1994): 1791-1794.  Link to Item
    • Marks, JR, Humphrey, PA, Wu, K, Berry, D, Bandarenko, N, Kerns, BJ, and Iglehart, JD. "Overexpression of p53 and HER-2/neu proteins as prognostic markers in early stage breast cancer." Ann Surg 219, no. 4 (April 1994): 332-341.  Link to Item
    • Lightner, VA, Marks, JR, and McCachren, SS. "Epithelial cells are an important source of tenascin in normal and malignant human breast tissue." Exp Cell Res 210, no. 2 (February 1994): 177-184.  Full Text  Link to Item
    • Berchuck, A, Kohler, MF, Marks, JR, Wiseman, R, Boyd, J, and Bast, RC. "The p53 tumor suppressor gene frequently is altered in gynecologic cancers." Am J Obstet Gynecol 170, no. 1 Pt 1 (January 1994): 246-252. (Review)  Link to Item
    • Futreal, PA, Cochran, C, Rosenthal, J, Miki, Y, Swenson, J, Hobbs, M, Bennett, LM, Haugen-Strano, A, Marks, J, Barrett, JC, Tavtigian, SV, Shattuck-Eidens, D, Kamb, A, Skolnick, M, and Wiseman, RW. "Isolation of a diverged homeobox gene, MOX1, from the BRCA1 region on 17q21 by solution hybrid capture." Human Molecular Genetics 3, no. 8 (1994): 1359-1364.
    • HUMPHREY, PA, FRANQUEMONT, DW, GEARY, WA, KERNS, BJM, IGLEHART, JD, and MARKS, JR. "IMMUNODETECTION OF P53 PROTEIN IN NONINVASIVE EPITHELIAL PROLIFERATIVE BREAST DISEASE." APPLIED IMMUNOHISTOCHEMISTRY 2, no. 1 (1994): 22-28.  Link to Item
    • Kamb, A, Futreal, PA, Rosenthal, J, Cochran, C, Harshman, KD, Liu, Q, Phelps, RS, Tavtigian, SV, Tran, T, Hussey, C, Bell, R, Miki, Y, Swensen, J, Hobbs, MR, Marks, J, Bennett, LM, Barrett, JC, Wiseman, RW, and Shattuck-Eidens, D. "Localization of the VHR phosphatase gene and its analysis as a candidate for BRCA1." Genomics 23, no. 1 (1994): 163-167.  Full Text
    • Liu, FS, Kohler, MF, Marks, JR, Bast, RC, Boyd, J, and Berchuck, A. "Mutation and overexpression of the p53 tumor suppressor gene frequently occurs in uterine and ovarian sarcomas." Obstet Gynecol 83, no. 1 (January 1994): 118-124.  Link to Item
    • Kerns, BJ, Jordan, PA, Huper, G, Marks, JR, Iglehart, JD, and Layfied, LJ. "Assessment of c-erbB-2 amplification by immunohistochemistry in paraffin-embedded breast cancer." Modern Pathology : an Official Journal of the United States and Canadian Academy of Pathology, Inc 6, no. 6 (November 1993): 673-678.
    • Kohler, MF, Marks, JR, Wiseman, RW, Jacobs, IJ, Davidoff, AM, Clarke-Pearson, DL, Soper, JT, Bast, RC, and Berchuck, A. "Spectrum of mutation and frequency of allelic deletion of the p53 gene in ovarian cancer." J Natl Cancer Inst 85, no. 18 (September 15, 1993): 1513-1519.  Link to Item
    • Kohler, MF, Nishii, H, Humphrey, PA, Saski, H, Marks, J, Bast, RC, Clarke-Pearson, DL, Boyd, J, and Berchuck, A. "Mutation of the p53 tumor-suppressor gene is not a feature of endometrial hyperplasias." Am J Obstet Gynecol 169, no. 3 (September 1993): 690-694.  Link to Item
    • Lidor, YJ, Xu, FJ, Martínez-Maza, O, Olt, GJ, Marks, JR, Berchuck, A, Ramakrishnan, S, Berek, JS, and Bast, RC. "Constitutive production of macrophage colony-stimulating factor and interleukin-6 by human ovarian surface epithelial cells." Exp Cell Res 207, no. 2 (August 1993): 332-339.  Full Text  Link to Item
    • Kohler, MF, Kerns, BJ, Humphrey, PA, Marks, JR, Bast, RC, and Berchuck, A. "Mutation and overexpression of p53 in early-stage epithelial ovarian cancer." Obstet Gynecol 81, no. 5 ( Pt 1) (May 1993): 643-650.  Link to Item
    • Jacobs, IJ, Kohler, MF, Wiseman, RW, Marks, JR, Whitaker, R, Kerns, BA, Humphrey, P, Berchuck, A, Ponder, BA, and Bast, RC. "Clonal origin of epithelial ovarian carcinoma: analysis by loss of heterozygosity, p53 mutation, and X-chromosome inactivation." J Natl Cancer Inst 84, no. 23 (December 2, 1992): 1793-1798.  Link to Item
    • Boente, MP, Berchuck, A, Rodriguez, GC, Davidoff, A, Whitaker, R, Xu, FJ, Marks, J, Clarke-Pearson, DL, and Bast, RC. "The effect of interferon gamma on epidermal growth factor receptor expression in normal and malignant ovarian epithelial cells." American Journal of Obstetrics and Gynecology 167, no. 6 (December 1992): 1877-1882.  Full Text
    • Huper, G, Marks, JR, Wiener, JR, and Iglehart, JD. "Relative promoter activity in human mammary epithelial cells assayed by transient expression." In Vitro Cell Dev Biol 28A, no. 11-12 (November 1992): 730-734.  Link to Item
    • Kerns, BJ, Jordan, PA, Moore, MB, Humphrey, PA, Berchuck, A, Kohler, MF, Bast, RC, Iglehart, JD, and Marks, JR. "p53 overexpression in formalin-fixed, paraffin-embedded tissue detected by immunohistochemistry." The Journal of Histochemistry and Cytochemistry : Official Journal of the Histochemistry Society 40, no. 7 (July 1992): 1047-1051.  Full Text
    • Futreal, PA, Söderkvist, P, Marks, JR, Iglehart, JD, Cochran, C, Barrett, JC, and Wiseman, RW. "Detection of frequent allelic loss on proximal chromosome 17q in sporadic breast carcinoma using microsatellite length polymorphisms." Cancer Research 52, no. 9 (May 1992): 2624-2627.
    • Davidoff, AM, Iglehart, JD, and Marks, JR. "Immune response to p53 is dependent upon p53/HSP70 complexes in breast cancers." Proceedings of the National Academy of Sciences of the United States of America 89, no. 8 (April 1992): 3439-3442.  Full Text
    • Kohler, MF, Berchuck, A, Davidoff, AM, Humphrey, PA, Dodge, RK, Iglehart, JD, Soper, JT, Clarke-Pearson, DL, Bast, RC, and Marks, JR. "Overexpression and mutation of p53 in endometrial carcinoma." Cancer Res 52, no. 6 (March 15, 1992): 1622-1627.  Link to Item
    • Davidoff, AM, Pence, JC, Shorter, NA, Iglehart, JD, and Marks, JR. "Expression of p53 in human neuroblastoma- and neuroepithelioma-derived cell lines." Oncogene 7, no. 1 (January 1992): 127-133.  Link to Item
    • Davidoff, AM, Kerns, BJ, Pence, JC, Marks, JR, and Iglehart, JD. "p53 alterations in all stages of breast cancer." J Surg Oncol 48, no. 4 (December 1991): 260-267.  Link to Item
    • Pence, JC, Kizilbash, AM, Kerns, BJ, Marks, JR, and Iglehart, JD. "Proliferation index in various stages of breast cancer determined by Ki-67 immunostaining." J Surg Oncol 48, no. 1 (September 1991): 11-20.  Link to Item
    • Davidoff, AM, Herndon, JE, Glover, NS, Kerns, BJ, Pence, JC, Iglehart, JD, and Marks, JR. "Relation between p53 overexpression and established prognostic factors in breast cancer." Surgery 110, no. 2 (August 1991): 259-264.  Link to Item
    • Davidoff, AM, Humphrey, PA, Iglehart, JD, and Marks, JR. "Genetic basis for p53 overexpression in human breast cancer." Proc Natl Acad Sci U S A 88, no. 11 (June 1, 1991): 5006-5010.  Link to Item
    • Marks, JR, Davidoff, AM, Kerns, BJ, Humphrey, PA, Pence, JC, Dodge, RK, Clarke-Pearson, DL, Iglehart, JD, Bast, RC, and Berchuck, A. "Overexpression and mutation of p53 in epithelial ovarian cancer." Cancer Res 51, no. 11 (June 1, 1991): 2979-2984.  Link to Item
    • Davidoff, AM, Kerns, BJ, Iglehart, JD, and Marks, JR. "Maintenance of p53 alterations throughout breast cancer progression." Cancer Res 51, no. 10 (May 15, 1991): 2605-2610.  Link to Item
    • Marks, JR. "P53 expression in neuroblastoma." Surgical Forum 41 (December 1, 1990): 579-581.
    • Iglehart, JD, Kraus, MH, Langton, BC, Huper, G, Kerns, BJ, and Marks, JR. "Increased erbB-2 gene copies and expression in multiple stages of breast cancer." Cancer Research 50, no. 20 (October 1990): 6701-6707.
    • Cho, HJ, Seiberg, M, Georgoff, I, Teresky, AK, Marks, JR, and Levine, AJ. "Impact of the genetic background of transgenic mice upon the formation and timing of choroid plexus papillomas." J Neurosci Res 24, no. 1 (September 1989): 115-122.  Full Text  Link to Item
    • Marks, JR, Lin, J, Hinds, P, Miller, D, and Levine, AJ. "Cellular gene expression in papillomas of the choroid plexus from transgenic mice that express the simian virus 40 large T antigen." J Virol 63, no. 2 (February 1989): 790-797.  Link to Item
    • Marks, JR, and Spector, DH. "Replication of the murine cytomegalovirus genome: structure and role of the termini in the generation and cleavage of concatenates." Virology 162, no. 1 (January 1988): 98-107.  Full Text
    • Van Dyke, TA, Finlay, C, Miller, D, Marks, J, Lozano, G, and Levine, AJ. "Relationship between simian virus 40 large tumor antigen expression and tumor formation in transgenic mice." Journal of virology 61, no. 6 (June 1987): 2029-2032.
    • Marks, JR, and Spector, DH. "Fusion of the termini of the murine cytomegalovirus genome after infection." J Virol 52, no. 1 (October 1984): 24-28.  Link to Item
    • Marks, JR, Mercer, JA, and Spector, DH. "Transcription in mouse embryo cells permissively infected by murine cytomegalovirus." Virology 131, no. 1 (November 1983): 247-254.  Full Text
    • Mercer, JA, Marks, JR, and Spector, DH. "Molecular cloning and restriction endonuclease mapping of the murine cytomegalovirus genome (Smith Strain)." Virology 129, no. 1 (August 1983): 94-106.  Full Text

  • Book Sections

    • Jesneck, JL, Mukherjee, S, Nolte, LW, Lokshin, AE, Marks, JR, and Lo, J. "Decision fusion of circulating markers for breast cancer detection in premenopausal women." , 1434-1438. December 1, 2007.  Full Text
    • Marks, J, Lin, J, Miller, D, Lozano, G, Herbert, J, and Levine, AJ. "The expression of viral and cellular genes in papillomas of the choroid plexus induced in transgenic mice." 163-186. 1988.

  • Other Articles

    • "Retraction. An integrated genomic-based approach to individualized treatment of patients with advanced-stage ovarian cancer." Journal of Clinical Oncology : Official Journal of the American Society of Clinical Oncology 30, no. 6 (February 2012): 678-null.  Full Text
    • Potti, A, Dressman, HK, Bild, A, Riedel, RF, Chan, G, Sayer, R, Cragun, J, Cottrill, H, Kelley, MJ, Petersen, R, Harpole, D, Marks, J, Berchuck, A, Ginsburg, GS, Febbo, P, Lancaster, J, and Nevins, JR. "Retraction: Genomic signatures to guide the use of chemotherapeutics." Nature Medicine 17, no. 1 (January 2011): 135-null.  Full Text
    • Potti, A, Dressman, HK, Bild, A, Riedel, RF, Chan, G, Sayer, R, Cragun, J, Cottrill, H, Kelley, MJ, Petersen, R, Harpole, D, Marks, J, Berchuck, A, Ginsburg, GS, Febbo, P, Lancaster, J, and Nevins, JR. "Erratum: Genomic signatures to guide the use of chemotherapeutics (Nature Medicine (2006) 12 (1294-1300))." Nature Medicine 17, no. 1 (January 1, 2011): 135-null.  Full Text
    • Hoyo, C, Schildkraut, JM, Murph, SK, Chow, WH, Vaughan, TL, Risch, H, Marks, JR, Jirtle, RL, Calingeart, B, Mayne, S, Fraumeni, J, and Gammon, MD. "IGF2R polymorphisms and risk of esophageal and gastric adenocarcinomas (International Journal of Cancer (2009) 125, (2673-2678))." International Journal of Cancer 126, no. 3 (February 1, 2010): 799-null.  Full Text
    • Potti, A, Dressman, HK, Bild, A, Riedel, RF, Chan, G, Sayer, R, Cragun, J, Cottrill, H, Kelley, MJ, Petersen, R, Harpole, D, Marks, J, Berchuck, A, Ginsburg, GS, Febbo, P, Lancaster, J, and Nevins, JR. "Corrigendum: Genomic signatures to guide the use of chemotherapeutics (Nature Medicine (2006) 12, (1294-1300))." Nature Medicine 14, no. 8 (August 1, 2008): 889-null.  Full Text
    • Potti, A, Dressman, HK, Bild, A, Riedel, RF, Chan, G, Sayer, R, Cragun, J, Cottrill, H, Kelley, MJ, Petersen, R, Harpole, D, Marks, J, Berchuck, A, Ginsburg, GS, Febbo, P, Lancaster, J, and Nevins, JR. "Erratum: Genomic signatures to guide the use of chemotherapeutics (Nature (2006) 12, (1294-1300))." Nature Medicine 13, no. 11 (November 1, 2007): 1388-null.  Full Text
    • Dressman, HK, Berchuck, A, Chan, G, Zhai, J, Bild, A, Sayer, R, Cragun, J, Clarke, J, Whitaker, RS, Li, L, Gray, J, Marks, J, Ginsburg, GS, Potti, A, West, M, Nevins, JR, and Lancaster, JM. "An integrated genomic-based approach to individualized treatment of patients with advanced-stage ovarian cancer." J Clin Oncol 25, no. 5 (February 10, 2007): 517-525.  Full Text  Link to Item
    • Potti, A, Dressman, HK, Bild, A, Riedel, RF, Chan, G, Sayer, R, Cragun, J, Cottrill, H, Kelley, MJ, Petersen, R, Harpole, D, Marks, J, Berchuck, A, Ginsburg, GS, Febbo, P, Lancaster, J, and Nevins, JR. "Genomic signatures to guide the use of chemotherapeutics." Nature Medicine 12, no. 11 (November 2006): 1294-1300.  Full Text
    • Andrew, B, Iversen, ES, Lancaster, JM, Dressman, HK, West, M, Nevins, JR, Marks, JR, and Miller, BE. "Prediction of optimal versus suboptimal cytoreduction of advanced-stage serious ovarian cancer with the use of microarrays." Women'S Oncology Review 4, no. 3 (September 1, 2004): 203-204.  Full Text
    • Berchuck, A, Maxwell, GL, and Marks, JR. "Relationship between alterations in the p53 gene and chemosensitivity of ovarian cancers." Cme Journal of Gynecologic Oncology 4, no. 1 (December 1, 1999): 78-81. (Review)

  • Conference Papers

    • Lo, JY, Grimm, LJ, Mazurowski, MA, Baker, JA, Marks, JR, King, LM, Maley, CC, Hwang, E-SS, and Shi, B. "Prediction of occult invasive disease in ductal carcinoma in situ using deep learning features." February 2018.  Link to Item
    • Ryser, MD, Weaver, DL, Marks, JR, Hyslop, T, and Hwang, ES. "Quantifying the natural history and overtreatment rate of ductal carcinoma in situ." February 2018.  Link to Item
    • Hou, R, Shi, B, Grimm, LJ, Mazurowski, MA, Marks, JR, King, LM, Maley, CC, Shelley Hwang, E, and Lo, JY. "Improving classification with forced labeling of other related classes: Application to prediction of upstaged ductal carcinoma in situ using mammographic features." January 1, 2018.  Full Text
    • Shi, B, Hou, R, Mazurowski, MA, Grimm, LJ, Ren, Y, Marks, JR, King, LM, Maley, CC, Hwang, ES, and Lo, JY. "Learning better deep features for the prediction of occult invasive disease in ductal carcinoma in situ through transfer learning." January 1, 2018.  Full Text
    • Ding, Y, Marks, JR, King, LM, Hall, AH, Mardis, ER, Rodrigo, AG, Maley, CC, and Hwang, E-S. "Abstract P1-06-06: Evidence for tumor heterogeneity and clonal evolution during invasive progression of breast cancer." : American Association for Cancer Research (AACR), February 15, 2017.  Full Text
    • Fortunato, A, King, L, Mallo, D, Kovacheva, V, Yuan, Y, Boddy, A, Graham, T, Aktipis, A, Mardis, E, Hall, A, Marks, J, Hwang, S, and Maley, C. "Abstract P1-05-30: Genomic and microenvironmental intra-tumor heterogeneity in DCIS." February 15, 2017.  Full Text
    • Harowicz, MR, Marks, JR, Kelly Marcom, P, and Mazurowski, MA. "Can BI-RADS features on mammography be used as a surrogate for expensive genomic testing in breast cancer patients?." February 3, 2017.
    • Harowicz, MR, Marks, JR, Kelly Marcom, P, and Mazurowski, MA. "Can BI-RADS features on mammography be used as a surrogate for expensive genomic testing in breast cancer patients?." January 1, 2017.  Full Text
    • Shi, B, Grimm, LJ, Mazurowski, MA, Marks, JR, King, LM, Maley, CC, Hwang, ES, and Lo, JY. "Prediction of occult invasive disease in ductal carcinoma in situ using computer-extracted mammographic features." January 1, 2017.  Full Text
    • Shi, B, Grimm, LJ, Mazurowski, MA, Marks, JR, King, LM, Maley, CC, Hwang, ES, and Lo, JY. "Can upstaging of ductal carcinoma in situ be predicted at biopsy by histologic and mammographic features?." January 1, 2017.  Full Text
    • Doherty, JA, Greene, CS, Rudd, JE, Tafe, LJ, Alberg, AJ, Bandera, EV, Barnholtz-Sloan, J, Bondy, M, Cote, ML, Funkhouser, E, Moorman, PG, Peters, ES, Schwartz, AG, Terry, P, Bentley, R, Berchuck, A, Marks, JR, and Schildkraut, JM. "Abstract 3407: Gene expression subtypes of high grade serous ovarian cancer in African American women." : American Association for Cancer Research (AACR), July 15, 2016.  Full Text
    • Das Roy, L, Zhou, R, Dillon, L, Moore, L, Puri, R, Marks, J, Lyerly, H, and Mukherjee, P. "Abstract P4-09-16: A monoclonal antibody with exceptional specificity across major breast cancer subtypes." February 15, 2016.  Full Text
    • King, L, Marks, J, Hall, A, Temko, D, Graham, T, Mardis, E, Maley, C, and Hwang, E. "Abstract P6-05-03: Genomic diversity of ductal carcinoma in situ (DCIS) as a driver of invasion and metastasis." February 15, 2016.  Full Text
    • Adams, D, Alpaugh, K, Cristofanilli, M, Martin, S, Chumsri, S, Bergen, RC, Tsai, S, Edelman, M, Zhu, P, Li, S, Makarova, OV, Amstutz, PT, Tang, C-M, and Marks, JR. "Abstract 5165: Cancer associated macrophage-like cells as a blood-based biomarker for the screening of solid tumors." : American Association for Cancer Research (AACR), August 1, 2015.  Full Text
    • Das Roy, L, Zhou, R, Moore, LJ, Dillon, LM, Puri, R, Lyerly, K, Marks, JR, and Mukherjee, P. "Early detection of breast cancer using a unique tumor specific antibody." May 20, 2015.  Link to Item
    • Kung, H-N, Marks, JR, and Chi, J-TA. "Glutamine synthetase is a genetic determinant of cell-type specific glutamine independence in breast epithelia." April 15, 2012.  Full Text  Link to Item
    • Jin, H, Daly, DS, Tan, R, White, AM, Marks, JR, and Zangar, RC. "Abstract 3182: PTM ELISA microarray for breast cancer biomarker discovery." April 15, 2011.  Full Text
    • Untch, BR, Adam, MA, Tebbit, CL, Marks, JR, and Olson, JA. "Tumor Sampling Variables Affect Reproducibility of Predictive Gene Expression Signatures in Breast Cancer." February 2010.  Link to Item
    • Danko, ME, Untch, BR, Tebbit, CL, Zhai, J, Dressman, HK, Bentley, RC, Baker, J, Marks, JR, Nevins, JR, and Jr, OJA. "A clinicogenomic model to predict lymph node metastasis in breast cancer." September 2008.  Full Text  Link to Item
    • Baba, T, Convery, PA, Matsumura, N, Whitaker, RS, Perry, T, Huang, Z, Mori, S, Kondoh, E, Bentley, RC, Fujii, S, Marks, JR, Berchuck, A, and Murphy, SK. "Stem cell marker CD133 (PROMININ-1) is epigenetically regulated in ovarian cancer." March 2008.  Link to Item
    • Baba, T, Convey, P, Matsumura, N, Whitaker, RS, Perry, T, Huang, Z, Mori, S, Kondoh, E, Bentley, RC, Fujii, S, Berchuck, A, Murphy, SK, and Marks, JR. "Stem cell marker CD133 (PROMININ-1) is epigenetically regulated in ovarian cancer." 2008.  Link to Item
    • Anders, CK, Hsu, SD, Acharya, CR, Zhang, Y, Wang, Y, Foekens, JA, Marcom, PK, Marks, JR, Nevins, J, Potti, A, and Blackwell, KL. "Molecular signatures characterize early stage breast cancer arising in young women and have prognostic and therapeutic implications independent of ER status." : AMER SOC CLINICAL ONCOLOGY, June 20, 2007.  Link to Item
    • Berchuck, A, Lancaster, JM, Iversen, ES, Luo, J, Levine, DA, Boyd, J, Secord, AA, Marks, JR, Nevins, JR, and Dressman, H. "Most early-stage serous ovarian cancers have gene expression profiles predictive of long-term survival." March 2007.  Link to Item
    • Schildkraut, JM, French, A, Calingaert, B, Bentley, RC, Murphy, S, Marks, JR, Moorman, P, Halabi, S, and Berchuck, A. "Molecular epidemiology of cyclin E overexpression in epithelial ovarian cancer." : AMER ASSOC CANCER RESEARCH, April 1, 2006.  Link to Item
    • Tebbit, CL, Pittman, J, Ellis, MJ, Bentley, R, Dressman, H, Mann, G, Leight, GS, Nevins, J, Marks, JR, and Olson, JA. "Application of clinico-genomic models that predict breast cancer characteristics in a prospective study." February 2005.  Link to Item
    • Tebbit, CL, Marks, JR, Dressman, H, Blanchette, C, Iverson, E, Pittman, J, and Olson, JA. "Gene expression signature characterizing cyclin E protein overexpression in primary breast tumors." September 2004.  Link to Item
    • Berchuck, A, Iversen, E, Lancaster, JM, Henriott, A, Dressman, H, West, M, Nevins, JR, and Marks, JR. "Prediction of long-term versus short-term survival in advanced stage serous ovarian cancer using expression microarrays." February 2004.  Link to Item
    • Pittman, JL, Tebbit, CL, Black, EP, Dressman, HK, Huang, ES, Olson, JA, Marks, JR, Marcom, PK, Huang, AT, West, M, and Nevins, JR. "Predictive models that combine multiple forms of genomic and clinical data to achieve personalized prediction of outcomes in breast cancer." 2004.  Link to Item
    • Tebbit, CL, Marks, JR, Matthew, EJ, Eric, R, George, LS, Gretchen, M, Holly, D, Rex, B, Joseph, N, and John, OA. "Gene expression profiling can predict the extensive intraductal component phenotype in breast cancer." 2004.  Link to Item
    • Berchuck, A, Henriott, A, Wenham, RM, Calingaert, B, Ali, S, Rodriguez, GC, Marks, JR, and Schildkraut, JM. "Progesterone receptor promoter+331/G/A polymorphism is associated with deceased risk of epithelial ovarian cancer." November 2003.  Link to Item
    • Blackwell, KL, Dewhirst, MW, McDonnell, DP, Dressman, H, Snyder, SA, and Marks, JR. "MTA-1 (metastasis associated protein-1) is upregulated in tamoxifen-resistant breast cancer." 2003.  Link to Item
    • Tebbit, CL, Ellis, M, Marks, JR, Bentley, RC, Mann, G, Soo, MS, Rosen, E, Baker, J, Leight, G, and Olson, JA. "Development of a novel tissue acquisition protocol for biomarker studies in early stage breast cancer." 26th Annual San Antonio Breast Cancer Symposium. SAN ANTONIO, TEXAS. December 3, 2003 - December 6, 2003.: KLUWER ACADEMIC PUBL, January 1, 2003.  Link to Item
    • Marks, JR, Brown, NM, Stenzel, TT, Roberts, L, Henslee, J, and Friedman, P. "Evaluation of new expression-based markers for detection of breast cancer cells." November 2001.  Link to Item
    • Young, SR, Kataoka, N, Wang, Z, Kato, H, Loging, WT, Marks, JR, and Lehman, N. "BRCA1 copy number in paraffin embedded cancer tissue samples of known BRCA1 and BRCA2 mutation carriers using a BRCA1 FISH probe." October 2000.  Link to Item
    • Berchuck, A, Schildkraut, JM, Marks, JR, and Futreal, PA. "Managing hereditary ovarian cancer risk." : Wiley, October 15, 1999.  Full Text
    • Frey, AB, Lopez, C, Feiner, H, Shapiro, R, Marks, J, and Rao, TD. "Repression of IL-2 mRNA translation in primary human breast cancer tumor infiltrating lymphocytes." 1998.
    • Hetiasch, JM, Haroon, Z, Dewhirst, MW, Marks, J, Iglehart, D, Peters, K, and Greenberg, CS. "Tissue transglutaminase is associated with the neovasculature and extracellular matrix of human breast cancer." December 1, 1996.
    • KRIGMAN, HR, ELBENDARY, A, and MARKS, JR. "GLANDULAR AND STROMAL OVEREXPRESSION OF P53 IN MIXED MALIGNANT MESODERMAL TUMORS (MMMT) - AN ARGUMENT FOR CLONAL ORIGIN." January 1995.  Link to Item
• Teaching & Mentoring
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  Recent Courses

  • PATHOL 293: Research Independent Study 2019
  • PATHOL 793: Research Independent Study 2019

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