Shannon Jones McCall | Scholars@Duke

Shannon Jones McCall
Associate Professor of Pathology

As an anatomic pathologist, I am involved in numerous translational cancer research projects that rely on the study of human biological samples. I am the director of the Duke BioRepository & Precision Pathology Center, a shared resource of the School of Medicine and the Duke Cancer Institute. My own area of research interest is gastrointestinal tract metaplasias and their relationship to carcinogenesis, particularly in the upper GI tract.

Current Appointments & Affiliations

Associate Professor of Pathology, Pathology, Clinical Science Departments 2016
Assistant Professor in Surgery, Surgery, Surgical Sciences, Surgery 2016
Member of the Duke Cancer Institute, Duke Cancer Institute, Institutes and Centers 2017

Contact Information

Dept of Pathology Box 3712, Room 327C Davison Building, Durham, NC 27710
Duke Box 3712, Room 327C Davison Bldg, Durham, NC 27710
(919) 684-2531

Background
Education, Training, & Certifications
- Resident, Pathology, Duke University 2000 - 2005
- M.D., Duke University 2000
- B.S., North Carolina State University 1996
Duke Appointment History
- Assistant Professor of Pathology, Pathology, Clinical Science Departments 2010 - 2016
- Member of the Duke Cancer Institute, Duke Cancer Institute, Institutes and Centers 2000 - 2016
- Adjunct Assistant Professor in the Department of Pathology, Pathology, Clinical Science Departments 2007 - 2010
- Adjunct Assistant Professor in the Department of Pathology, Pathology, Clinical Science Departments 2006 - 2007
- Assistant Professor of Pathology, Pathology, Clinical Science Departments 2006
- Associate in the Department of Pathology, Pathology, Clinical Science Departments 2005 - 2006
- Instructor, Temporary of Pathology, Pathology, Clinical Science Departments 2005
Recognition
In the News
- JUL 31, 2017 Medical Physics Web
  
  X-ray diffraction spectra classify breast tissue
- JAN 4, 2017
  
  Medical Xpress: Study sheds light on esophageal cancer
- DEC 21, 2016
  
  New breast cancer therapy targets common genetic mutation
- DEC 14, 2016
  
  Science News: Common breast cancer mutation could be vulnerable to drug combination
- MAR 1, 2015
  
  How satisfied are physicians with labs? Study digs deep.
- SEP 4, 2014
  
  Four Distinct Subtypes of Gastric Cancer Found
- JUL 24, 2014
  
  Medscape: New Classification of Gastric Cancer Spurs Targeted Therapy
- JUL 23, 2014
  
  New view of stomach cancer could hasten better therapies
- JUN 9, 2014
  
  Shared Resource Profile: Biospecimen Repository & Processing Core
- APR 25, 2014
  
  DTMI Profile: Shannon J. McCall, MD; Director of Biorepository by Day, Computer Techie by Night
Awards & Honors
Expertise
Subject Headings
Research
Selected Grants
- Cooperative Human Tissue Network Support through Duke's BioRepository & Precision Pathology Center awarded by National Institutes of Health 2019 - 2024
- Project GENIE Steering Committee Resolution Part II awarded by American Association for Cancer Research 2018 - 2023
- Epigenomic Reprogramming in Patient Derived Models of Colorectal Cancer awarded by National Institutes of Health 2018 - 2023
- The role of gastrin in esophageal submucosal gland acinar ductal metaplasia awarded by National Institutes of Health 2018 - 2023
- Mutation analysis of pap smear samples and associated tissues for ovarian cancer diagnostics awarded by Genendeavor LLC 2017 - 2022
- Characterization of Tumor Immunobiological Factors that Promote Lymphovascular Invasion and Dissemination in Locally Advanced Breast Cancer awarded by Department of Defense 2017 - 2020
- Preoperative Breast Radiotherapy: A Tool to Provide Individualized and Biologically-Based Radiation Therapy awarded by Gateway for Cancer Research 2015 - 2020
- Targeting differential apoptosis regulation in triple negative breast cancer awarded by Department of Defense 2016 - 2019
- Lung Tissue Gene Expression Profiling in Chronic Lung Allograft Dysfunction-CTOT awarded by Mount Sinai School of Medicine 2018 - 2019
- Rapid X-ray diffraction imaging for improved tissue analysis in pathologic applications awarded by North Carolina Biotechnology Center 2017 - 2019
- Duke BRPC sub-contract with Leidos Biomed for NCI CPTAC III (Option1) awarded by Leidos Biomedical Research, Inc. 2018 - 2019
- ROCHE DIAGNOSTICS CORPORATION WORKFLOW ANALYSIS AGREEMENT awarded by Roche Diagnostics 2018 - 2019
- Empowering Duke's Precision Pathology Center with Quantitative Image Analysis to Support Discovery, Diagnostic Assay Development, and Immune Cell Monitoring awarded by North Carolina Biotechnology Center 2018 - 2019
- Lung Squamous Cell Carcinoma: Validation of Molecular Signatures of Prognosis awarded by University of Colorado - Denver 2012 - 2017
- The genetics of hepatosplenic T cell lymphoma awarded by National Institutes of Health 2015 - 2017
- The effect of pre-analytical variables on the ability to detect PD-L1 by immunohistochemical staining of placental tissu awarded by Merck 2014 - 2015
- TCGA Contract awarded by SAIC-Frederick, Inc. 2013 - 2014
Publications & Artistic Works
Selected Publications
- Academic Articles
  - McCall, SJ, and Dry, SM. "Precision Pathology as Part of Precision Medicine: Are We Optimizing Patients’ Interests in Prioritizing Use of Limited Tissue Samples?." Jco Precision Oncology , no. 3 (February 2019): 1-6. Full Text
  - Pabla, S, Conroy, JM, Nesline, MK, Glenn, ST, Papanicolau-Sengos, A, Burgher, B, Hagen, J, Giamo, V, Andreas, J, Lenzo, FL, Yirong, W, Dy, GK, Yau, E, Early, A, Chen, H, Bshara, W, Madden, KG, Shirai, K, Dragnev, K, Tafe, LJ, Marin, D, Zhu, J, Clarke, J, Labriola, M, McCall, S, Zhang, T, Zibelman, M, Ghatalia, P, Araujo-Fernandez, I, Singavi, A, George, B, MacKinnon, AC, Thompson, J, Singh, R, Jacob, R, Dressler, L, Steciuk, M, Binns, O, Kasuganti, D, Shah, N, Ernstoff, M, Odunsi, K, Kurzrock, R, Gardner, M, Galluzzi, L, and Morrison, C. "Proliferative potential and resistance to immune checkpoint blockade in lung cancer patients." Journal for Immunotherapy of Cancer 7, no. 1 (February 2019): 27-null. Full Text
  - Conroy, JM, Pabla, S, Nesline, MK, Glenn, ST, Papanicolau-Sengos, A, Burgher, B, Andreas, J, Giamo, V, Wang, Y, Lenzo, FL, Bshara, W, Khalil, M, Dy, GK, Madden, KG, Shirai, K, Dragnev, K, Tafe, LJ, Zhu, J, Labriola, M, Marin, D, McCall, SJ, Clarke, J, George, DJ, Zhang, T, Zibelman, M, Ghatalia, P, Araujo-Fernandez, I, de la Cruz-Merino, L, Singavi, A, George, B, MacKinnon, AC, Thompson, J, Singh, R, Jacob, R, Kasuganti, D, Shah, N, Day, R, Galluzzi, L, Gardner, M, and Morrison, C. "Next generation sequencing of PD-L1 for predicting response to immune checkpoint inhibitors." Journal for Immunotherapy of Cancer 7, no. 1 (January 24, 2019): 18-null. Full Text
  - Altunel, E, Aljamal, AA, Mantyh, J, Deak, K, Glover, W, McCall, SJ, Datto, M, Strickler, J, and Hsu, DS. "Characterization of the Epidermal Growth Factor Receptor T790M Mutation in Colorectal Cancer." Jco Precision Oncology , no. 2 (November 2018): 1-7. 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
  - 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
  - Garman, KS, and McCall, SJ. "Esophageal submucosal glands as a potential source of subsquamous intestinal metaplasia in Barrett's esophagus." Gastrointestinal Endoscopy 88, no. 1 (July 2018): 200-201. (Letter) 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
  - Siena, S, Sartore-Bianchi, A, Marsoni, S, Hurwitz, HI, McCall, SJ, Penault-Llorca, F, Srock, S, Bardelli, A, and Trusolino, L. "Targeting the human epidermal growth factor receptor 2 (HER2) oncogene in colorectal cancer." Annals of Oncology : Official Journal of the European Society for Medical Oncology 29, no. 5 (May 2018): 1108-1119. 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
  - Hemmerich, Amanda, Mohanad Shaar, Rebecca Burbridge, Cynthia D. Guy, Shannon J. McCall, Diana M. Cardona, Xuchen Zhang, Jinping Lai, and Xuefeng Zhang. “Metastatic Renal Cell Carcinoma as Solitary Subcentimeter Polypoid Gastric Mucosal Lesions: Clinicopathologic Analysis of Five Cases..” Gastroenterology Research 11, no. 1 (February 23, 2018): 25–30. https://doi.org/10.14740/gr952w.
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  - McCall, SJ, Branton, PA, Blanc, VM, Dry, SM, Gastier-Foster, JM, Harrison, JH, Jewell, SD, Dash, RC, Obeng, RC, Rose, J, Mateski, DL, Liubinskas, A, Robb, JA, Ramirez, NC, and Shea, K. "The College of American Pathologists Biorepository Accreditation Program: Results from the First 5 Years." Biopreservation and Biobanking 16, no. 1 (February 2, 2018): 16-22. Full Text
  - Harrison, Grant, Amanda Hemmerich, Cynthia Guy, Kathryn Perkinson, Debra Fleming, Shannon McCall, Diana Cardona, and Xuefeng Zhang. “Overexpression of SOX11 and TFE3 in Solid-Pseudopapillary Neoplasms of the Pancreas..” American Journal of Clinical Pathology 149, no. 1 (December 2017): 67–75. https://doi.org/10.1093/ajcp/aqx142.
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  - Singleton, KR, Crawford, L, Tsui, E, Manchester, HE, Maertens, O, Liu, X, Liberti, MV, Magpusao, AN, Stein, EM, Tingley, JP, Frederick, DT, Boland, GM, Flaherty, KT, McCall, SJ, Krepler, C, Sproesser, K, Herlyn, M, Adams, DJ, Locasale, JW, Cichowski, K, Mukherjee, S, and Wood, KC. "Melanoma Therapeutic Strategies that Select against Resistance by Exploiting MYC-Driven Evolutionary Convergence." Cell Reports 21, no. 10 (December 2017): 2796-2812. Full Text
  - Yi, JS, Ready, N, Healy, P, Dumbauld, C, Osborne, R, Berry, M, Shoemaker, D, Clarke, J, Crawford, J, Tong, B, Harpole, D, D'Amico, TA, McSherry, F, Dunphy, F, McCall, SJ, Christensen, JD, Wang, X, and Weinhold, KJ. "Immune Activation in Early-Stage Non-Small Cell Lung Cancer Patients Receiving Neoadjuvant Chemotherapy Plus Ipilimumab." Clinical Cancer Research : an Official Journal of the American Association for Cancer Research 23, no. 24 (December 2017): 7474-7482. Full Text
  - Furstenberg, Richard J. von, Joy Li, Christina Stolarchuk, Rachel Feder, Alexa Campbell, Leandi Kruger, Liara M. Gonzalez, et al. “Porcine Esophageal Submucosal Gland Culture Model Shows Capacity for Proliferation and Differentiation..” Cellular and Molecular Gastroenterology and Hepatology 4, no. 3 (November 2017): 385–404. https://doi.org/10.1016/j.jcmgh.2017.07.005.
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  - Krüger, L, Gonzalez, LM, Pridgen, TA, McCall, SJ, von Furstenberg, RJ, Harnden, I, Carnighan, GE, Cox, AM, Blikslager, AT, and Garman, KS. "Ductular and proliferative response of esophageal submucosal glands in a porcine model of esophageal injury and repair." American Journal of Physiology. Gastrointestinal and Liver Physiology 313, no. 3 (September 2017): G180-G191. Full Text
  - Anderson, Grace R., Peter S. Winter, Kevin H. Lin, Daniel P. Nussbaum, Merve Cakir, Elizabeth M. Stein, Ryan S. Soderquist, et al. “A Landscape of Therapeutic Cooperativity in KRAS Mutant Cancers Reveals Principles for Controlling Tumor Evolution..” Cell Reports 20, no. 4 (July 2017): 999–1015. https://doi.org/10.1016/j.celrep.2017.07.006.
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  - Volmar, Keith E., Shannon J. McCall, Ronald B. Schifman, Michael L. Talbert, Joseph A. Tworek, Keren I. Hulkower, Anthony J. Guidi, et al. “Professional Practice Evaluation for Pathologists: The Development, Life, and Death of the Evalumetrics Program..” Archives of Pathology & Laboratory Medicine 141, no. 4 (April 2017): 551–58. https://doi.org/10.5858/arpa.2016-0275-cp.
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  - Cancer Genome Atlas Research Network, , Analysis Working Group: Asan University, , BC Cancer Agency, , Brigham and Women’s Hospital, , Broad Institute, , Brown University, , Case Western Reserve University, , Dana-Farber Cancer Institute, , Duke University, , Greater Poland Cancer Centre, , Harvard Medical School, , Institute for Systems Biology, , KU Leuven, , Mayo Clinic, , Memorial Sloan Kettering Cancer Center, , National Cancer Institute, , Nationwide Children’s Hospital, , Stanford University, , University of Alabama, , University of Michigan, , University of North Carolina, , University of Pittsburgh, , University of Rochester, , University of Southern California, , University of Texas MD Anderson Cancer Center, , University of Washington, , Van Andel Research Institute, , Vanderbilt University, , Washington University, , Genome Sequencing Center: Broad Institute, , Washington University in St. Louis, , Genome Characterization Centers: BC Cancer Agency, , Sidney Kimmel Comprehensive Cancer Center at Johns Hopkins University, , University of Southern California Epigenome Center, , Genome Data Analysis Centers: Broad Institute, , Brown University:, , University of California Santa Cruz, , Biospecimen Core Resource: International Genomics Consortium, , Research Institute at Nationwide Children’s Hospital, , Tissue Source Sites: Analytic Biologic Services, , Asan Medical Center, , Asterand Bioscience, , Barretos Cancer Hospital, , BioreclamationIVT, , Botkin Municipal Clinic, , Chonnam National University Medical School, , Christiana Care Health System, , Cureline, , Emory University, , Erasmus University, , Indiana University School of Medicine, , Institute of Oncology of Moldova, , International Genomics Consortium, , Invidumed, , Israelitisches Krankenhaus Hamburg, , Keimyung University School of Medicine, , National Cancer Center Goyang, , Ontario Tumour Bank, , Peter MacCallum Cancer Centre, , Pusan National University Medical School, , Ribeirão Preto Medical School, , St. Joseph’s Hospital &Medical Center, , St. Petersburg Academic University, , Tayside Tissue Bank, , University of Dundee, , University of Kansas Medical Center, , University of North Carolina at Chapel Hill, , University of Pittsburgh School of Medicine, , Disease Working Group: Duke University, , Yonsei University College of Medicine, , Data Coordination Center: CSRA Inc., , and Project Team: National Institutes of Health, . "Integrated genomic characterization of oesophageal carcinoma." Nature 541, no. 7636 (January 4, 2017): 169-175. Full Text
  - Andry, Chris, Elizabeth Duffy, Christopher A. Moskaluk, Shannon McCall, Michael H. A. Roehrl, and Daniel Remick. “Biobanking-Budgets and the Role of Pathology Biobanks in Precision Medicine..” Academic Pathology 4 (January 2017). https://doi.org/10.1177/2374289517702924.
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  - Anderson, Grace R., Suzanne E. Wardell, Merve Cakir, Lorin Crawford, Jim C. Leeds, Daniel P. Nussbaum, Pallavi S. Shankar, et al. “PIK3CA mutations enable targeting of a breast tumor dependency through mTOR-mediated MCL-1 translation..” Science Translational Medicine 8, no. 369 (December 2016). https://doi.org/10.1126/scitranslmed.aae0348.
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  - Patel, Yuval A., Shannon J. McCall, Xuefeng Zhang, Tracy Jaffe, and Rahul A. Shimpi. “Radiographic and endoscopic regression of metastatic gastric cancer to the colon in the setting of 5-aminosalicylic acid use..” Journal of Gastrointestinal Oncology 7, no. 6 (December 2016): E88–92. https://doi.org/10.21037/jgo.2016.05.02.
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  - Hesler, RA, Huang, JJ, Starr, MD, Treboschi, VM, Bernanke, AG, Nixon, AB, McCall, SJ, White, RR, and Blobe, GC. "TGF-β-induced stromal CYR61 promotes resistance to gemcitabine in pancreatic ductal adenocarcinoma through downregulation of the nucleoside transporters hENT1 and hCNT3." Carcinogenesis 37, no. 11 (November 2016): 1041-1051. Full Text
  - McCall, Shannon J., Rhona J. Souers, Barbara Blond, and Larry Massie. “Physician Satisfaction With Clinical Laboratory Services: A College of American Pathologists Q-Probes Study of 81 Institutions..” Archives of Pathology & Laboratory Medicine 140, no. 10 (October 2016): 1098–1103. https://doi.org/10.5858/arpa.2015-0486-cp.
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  - Wood, Kris C., Grace R. Anderson, Suzanne E. Wardell, Jeff S. Jasper, Elizabeth M. Stein, Colin A. Martz, Holly M. Alley, et al. “Identification and Therapeutic Inhibition of Pathways Driving Resistance to Targeted Breast Cancer Therapies.” Journal of Womens Health 25, no. 9 (September 1, 2016): 976–976.
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  - Kapadia, A., R. Morris, K. Albanese, J. Spencer, S. McCall, and J. Greenberg. “TH-AB-209-10: Breast Cancer Identification Through X-Ray Coherent Scatter Spectral Imaging..” Medical Physics 43, no. 6 (June 2016). https://doi.org/10.1118/1.4958101.
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  - Ludmir, EB, McCall, SJ, Cardona, DM, Perkinson, KR, Guy, CD, and Zhang, X. "Mixed Adenoneuroendocrine Carcinoma, Amphicrine Type, of the Small Bowel." American Journal of Clinical Pathology 145, no. 5 (May 2016): 703-709. Full Text
  - Detweiler, Claire J., Diana M. Cardona, David S. Hsu, and Shannon J. McCall. “Primary high-grade neuroendocrine carcinoma emerging from an adenomatous polyp in the setting of familial adenomatous polyposis..” Bmj Case Reports 2016 (February 16, 2016). https://doi.org/10.1136/bcr-2015-214206.
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  - Zhang, X, Burbridge, R, Branch, M, Xiao, S, Zhao, L, McCall, SJ, Guy, C, Cardona, D, Garman, K, Waxman, I, and Hart, J. "Delayed specimen collection may artifactually damage the mucosal surface in endoscopic mucosal resection specimens from Barrett's esophagus." American Journal of Digestive Disease 2, no. 2 (December 30, 2016): 90-94. Link to Item
  - Garman, KS, Kruger, L, Thomas, S, Swiderska-Syn, M, Moser, BK, Diehl, AM, and McCall, SJ. "Ductal metaplasia in oesophageal submucosal glands is associated with inflammation and oesophageal adenocarcinoma." Histopathology 67, no. 6 (December 2015): 771-782. Full Text
  - Cancer Genome Atlas Research Network, . "The Molecular Taxonomy of Primary Prostate Cancer." Cell 163, no. 4 (November 2015): 1011-1025. Full Text
  - Shahid, Rafiq A., David Q-H Wang, Brian E. Fee, Shannon J. McCall, Joelle M-J Romac, Steven R. Vigna, and Rodger A. Liddle. “Endogenous elevation of plasma cholecystokinin does not prevent gallstones..” European Journal of Clinical Investigation 45, no. 3 (March 2015): 237–46. https://doi.org/10.1111/eci.12400.
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  - Zhang, Tian, Elizabeth L. Boswell, Shannon J. McCall, and David S. Hsu. “Mismatch repair gone awry: Management of Lynch syndrome..” Critical Reviews in Oncology/Hematology 93, no. 3 (March 2015): 170–79. https://doi.org/10.1016/j.critrevonc.2014.10.005.
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  - Zhong, Jim, Manisha Palta, Christopher G. Willett, Shannon J. McCall, Frances McSherry, Douglas S. Tyler, Hope E. Uronis, and Brian G. Czito. “Patterns of failure for stage I ampulla of Vater adenocarcinoma: a single institutional experience..” Journal of Gastrointestinal Oncology 5, no. 6 (December 2014): 421–27. https://doi.org/10.3978/j.issn.2078-6891.2014.084.
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  - Tworek, Joseph A., Keith E. Volmar, Shannon J. McCall, Christine P. Bashleben, and Peter J. Howanitz. “Q-Probes studies in anatomic pathology: quality improvement through targeted benchmarking..” Archives of Pathology & Laboratory Medicine 138, no. 9 (September 2014): 1156–66. https://doi.org/10.5858/arpa.2014-0149-oa.
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  - Cancer Genome Atlas Research Network, . "Comprehensive molecular characterization of gastric adenocarcinoma." Nature 513, no. 7517 (September 2014): 202-209. Full Text
  - Strickler, JH, McCall, S, Nixon, AB, Brady, JC, Pang, H, Rushing, C, Cohn, A, Starodub, A, Arrowood, C, Haley, S, Meadows, KL, Morse, MA, Uronis, HE, Blobe, GC, Hsu, SD, Zafar, SY, and Hurwitz, HI. "Phase I study of dasatinib in combination with capecitabine, oxaliplatin and bevacizumab followed by an expanded cohort in previously untreated metastatic colorectal cancer." Invest New Drugs 32, no. 2 (April 2014): 330-339. Full Text Link to Item
  - Ludmir, Ethan B., Shannon J. McCall, Brian G. Czito, and Manisha Palta. “Radiosensitive orbital metastasis as presentation of occult colonic adenocarcinoma..” Bmj Case Reports 2014 (January 2014). https://doi.org/10.1136/bcr-2014-206407.
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  - Strickler, JH, McCall, S, Nixon, AB, Brady, JC, Pang, H, Rushing, C, Cohn, A, Starodub, A, Arrowood, C, Haley, S, Meadows, KL, Morse, MA, Uronis, HE, Blobe, GC, Hsu, SD, Zafar, SY, and Hurwitz, HI. "Phase i study of dasatinib in combination with capecitabine, oxaliplatin and bevacizumab followed by an expanded cohort in previously untreated metastatic colorectal cancer." Investigational New Drugs 32, no. 2 (January 1, 2014): 330-339. Full Text
  - Zhong, J, Palta, M, Willett, CG, McCall, SJ, Bulusu, A, Tyler, DS, White, RR, Uronis, HE, Pappas, TN, and Czito, BG. "The role of local excision in invasive adenocarcinoma of the ampulla of Vater." J Gastrointest Oncol 4, no. 1 (March 2013): 8-13. Full Text Link to Item
  - Guy, CD, Suzuki, A, Burchette, JL, Brunt, EM, Abdelmalek, MF, Cardona, D, McCall, SJ, Ünalp, A, Belt, P, Ferrell, LD, Diehl, AM, and Nonalcoholic Steatohepatitis Clinical Research Network, . "Costaining for keratins 8/18 plus ubiquitin improves detection of hepatocyte injury in nonalcoholic fatty liver disease." Hum Pathol 43, no. 6 (June 2012): 790-800. Full Text Link to Item
  - Czito, B. G., C. Willett, M. Palta, S. McCall, N. Gee, H. Hurwitz, R. E. Coleman, Y. Zafar, P. Kennedy-Newton, and H. Uronis. “A phase I/II study of capecitabine (Cape), oxaliplatin (Ox), panitumumab (Pmab), and external beam radiation therapy (RT) for patients with esophagogastric carcinoma (EC)..” Journal of Clinical Oncology : Official Journal of the American Society of Clinical Oncology 30, no. 4_suppl (February 2012).
  - Uronis, JM, Osada, T, McCall, S, Yang, XY, Mantyh, C, Morse, MA, Lyerly, HK, Clary, BM, and Hsu, DS. "Histological and molecular evaluation of patient-derived colorectal cancer explants." Plos One 7, no. 6 (January 2012): e38422-null. Full Text
  - Omenetti, A, Bass, LM, Anders, RA, Clemente, MG, Francis, H, Guy, CD, McCall, S, Choi, SS, Alpini, G, Schwarz, KB, Diehl, AM, and Whitington, PF. "Hedgehog activity, epithelial-mesenchymal transitions, and biliary dysmorphogenesis in biliary atresia." Hepatology (Baltimore, Md.) 53, no. 4 (April 2011): 1246-1258. Full Text
  - Rossol-Allison, J, Stemmle, LN, Swenson-Fields, KI, Kelly, P, Fields, PE, McCall, SJ, Casey, PJ, and Fields, TA. "Rho GTPase activity modulates Wnt3a/beta-catenin signaling." Cellular Signalling 21, no. 11 (November 2009): 1559-1568. Full Text
  - Sicklick, J. K., J. Huang, S. J. McCall, M. S. Torbenson, and A. M. Diehl. “Analysis of Hepatic Progenitor Populations in Methyl Deficient Liver Injury.” Annals of Surgical Oncology 16 (February 2009): 33–33.
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  - Ouyang, X, Cirillo, P, Sautin, Y, McCall, S, Bruchette, JL, Diehl, AM, Johnson, RJ, and Abdelmalek, MF. "Fructose consumption as a risk factor for non-alcoholic fatty liver disease." Journal of Hepatology 48, no. 6 (June 2008): 993-999. Full Text
  - Romac, JMJ, McCall, SJ, Humphrey, JE, Heo, J, and Liddle, RA. "Pharmacologic disruption of TRPV1-expressing primary sensory neurons but not genetic deletion of TRPV1 protects mice against pancreatitis." Pancreas 36, no. 4 (May 2008): 394-401. Full Text
  - Yamaguchi, Kanji, Liu Yang, Shannon McCall, Jiawen Huang, Xing Xian Yu, Sanjay K. Pandey, Sanjay Bhanot, Brett P. Monia, Yin-Xiong Li, and Anna Mae Diehl. “Diacylglycerol acyltranferase 1 anti-sense oligonucleotides reduce hepatic fibrosis in mice with nonalcoholic steatohepatitis..” Hepatology (Baltimore, Md.) 47, no. 2 (February 2008): 625–35. https://doi.org/10.1002/hep.21988.
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  - Adams, GL, Manson, RJ, Giangiacomo, DM, Fronheiser, L, McCall, S, Nightingale, R, Hasselblad, V, Shaw, LK, Milton, L, and Lawson, JH. "Effectiveness of Glycerol Mono-oleate as a Biosealant." J Invasive Cardiol 20, no. 1 (January 2008): 29-34. Link to Item
  - Yamaguchi, K, Yang, L, McCall, S, Huang, J, Yu, XX, Pandey, SK, Bhanot, S, Monia, BP, Li, Y-X, and Diehl, AM. "Inhibiting triglyceride synthesis improves hepatic steatosis but exacerbates liver damage and fibrosis in obese mice with nonalcoholic steatohepatitis." Hepatology (Baltimore, Md.) 45, no. 6 (June 2007): 1366-1374. Full Text
  - Jung, Youngmi, Shannon J. McCall, Yin-Xiong Li, and Anna Mae Diehl. “Bile ductules and stromal cells express hedgehog ligands and/or hedgehog target genes in primary biliary cirrhosis..” Hepatology (Baltimore, Md.) 45, no. 5 (May 2007): 1091–96. https://doi.org/10.1002/hep.21660.
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  - Omenetti, A, Yang, L, Li, Y-X, McCall, SJ, Jung, Y, Sicklick, JK, Huang, J, Choi, S, Suzuki, A, and Diehl, AM. "Hedgehog-mediated mesenchymal-epithelial interactions modulate hepatic response to bile duct ligation." Laboratory Investigation; a Journal of Technical Methods and Pathology 87, no. 5 (May 2007): 499-514. Full Text
  - Malakauskas, SM, Quan, H, Fields, TA, McCall, SJ, Yu, M-J, Kourany, WM, Frey, CW, and Le, TH. "Aminoaciduria and altered renal expression of luminal amino acid transporters in mice lacking novel gene collectrin." American Journal of Physiology. Renal Physiology 292, no. 2 (February 2007): F533-F544. Full Text
  - Sicklick, JK, Choi, SS, Bustamante, M, McCall, SJ, Pérez, EH, Huang, J, Li, Y-X, Rojkind, M, and Diehl, AM. "Evidence for epithelial-mesenchymal transitions in adult liver cells." American Journal of Physiology. Gastrointestinal and Liver Physiology 291, no. 4 (October 2006): G575-G583. Full Text
  - Suzuki, Ayako, Shannon McCall, Steve S. Choi, Jason K. Sicklick, Jiawen Huang, Yi Qi, Marzena Zdanowicz, Terese Camp, Yin-Xiong Li, and Anna Mae Diehl. “Interleukin-15 increases hepatic regenerative activity..” Journal of Hepatology 45, no. 3 (September 2006): 410–18. https://doi.org/10.1016/j.jhep.2006.04.008.
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  - McCall, SJ, Nassar, R, Malouf, NN, Saunders, AJ, Oakeley, AE, Henderson, PM, Solaro, RJ, Pielak, GJ, Alexander, KA, and Anderson, PAW. "Development and cardiac contractility: cardiac troponin T isoforms and cytosolic calcium in rabbit." Pediatric Research 60, no. 3 (September 2006): 276-281. Full Text
  - Hu, C. K., S. McCall, J. Madden, H. Huang, R. Clough, R. L. Jirtle, and M. S. Anscher. “Loss of heterozygosity of M6P/IGF2R gene is an early event in the development of prostate cancer..” Prostate Cancer and Prostatic Diseases 9, no. 1 (January 2006): 62–67. https://doi.org/10.1038/sj.pcan.4500842.
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  - Fields, TA, McCall, SJ, Reams, BD, Roggli, VL, Palmer, SM, and Howell, DN. "Pulmonary embolization of microcrystalline cellulose in a lung transplant recipient." The Journal of Heart and Lung Transplantation : the Official Publication of the International Society for Heart Transplantation 24, no. 5 (May 2005): 624-627. Full Text
  - McCall, Shannon J., Janet E. Tuttle-Newhall, David N. Howell, and Timothy A. Fields. “Prognostic significance of microvascular thrombosis in donor kidney allograft biopsies..” Transplantation 75, no. 11 (June 2003): 1847–52. https://doi.org/10.1097/01.tp.0000063126.88887.68.
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  - Sun, Z. "Metastatic Gallbladder Cancer Masquerading as Primary Colon Malignancy(Published online)." Clinical Medical Reviews and Case Reports 2, no. 3. Full Text
- Book Sections
  - Nakhleh, Raouf E. “Error Reduction and Prevention in Surgical Pathology.” Springer, 2015.
- Conference Papers
  - Patierno, Brendon, Wayne Glover, Thomas Ribar, Rick Kittles, Wen-Chi Foo, Shannon McCall, Jiaoti Huang, et al. “Establishment of African American prostate cancer patient-derived primary cell lines and xenografts..” In Cancer Epidemiology Biomarkers & Prevention, 27:96–96. AMER ASSOC CANCER RESEARCH, 2018.
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  - Nacouzi, D., J. Spencer, B. Zhao, C. Leung, S. McCall, J. Greenberg, and A. Kapadia. “Smarter Cancer Detection Through Machine-Learning Applied to High-Resolution Diffraction Tissue Scanning.” In Medical Physics, 45:E503–E503. WILEY, 2018.
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  - Schild, Michael, Liyan Xu, Ayako Suzuki, Diana Cardona, Lani Clinton, Shannon McCall, Avani Pendse, et al. “Sonic Hedgehog Immunohistochemistry Improves Inter-observer Agreement for Ballooning and the Diagnosis of Nonalcoholic Steatohepatitis (NASH) among Less Experienced Liver Pathologists.” In Modern Pathology, 31:648–49. NATURE PUBLISHING GROUP, 2018.
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  - Xu, Liyan, Lei Zhao, Amanda Hemmerich, Lynn Ferguson, Cynthia Guy, Shannon McCall, Diana Cardona, John Hart, and Xuefeng Zhang. “MFAP5 Distinguishes Between Benign Desmoplasia-Like Reaction and True Desmoplasia in Invasive Adenocarcinoma of the Gallbladder..” In Modern Pathology, 31:692–93. NATURE PUBLISHING GROUP, 2018.
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  - Schild, M, Xu, L, Suzuki, A, Cardona, D, Clinton, L, McCall, S, Pendse, A, Zhang, X, Abdelmalek, MF, Diehl, AM, and Guy, C. "Sonic Hedgehog Immunohistochemistry Improves Inter-observer Agreement for Ballooning and the Diagnosis of Nonalcoholic Steatohepatitis (NASH) among Less Experienced Liver Pathologists." 107th Annual Meeting of the United-States-and-Canadian-Academy-of-Pathology (USCAP). Vancouver, CANADA. March 17, 2018 - March 23, 2018.: NATURE PUBLISHING GROUP, March 1, 2018. Link to Item
  - Xu, L, Zhao, L, Hemmerich, A, Ferguson, L, Guy, C, McCall, S, Cardona, D, Hart, J, and Zhang, X. "MFAP5 Distinguishes Between Benign Desmoplasia-Like Reaction and True Desmoplasia in Invasive Adenocarcinoma of the Gallbladder." 107th Annual Meeting of the United-States-and-Canadian-Academy-of-Pathology (USCAP). Vancouver, CANADA. March 17, 2018 - March 23, 2018.: NATURE PUBLISHING GROUP, March 1, 2018. Link to Item
  - Masci, AM, McCall, S, Racioppi, A, Ellis, HJ, Obeid, JS, Smith, B, Stoeckert, C, and Zheng, J. "Standardization of the histopathology cancer report: An ontological approach." January 1, 2018.
  - Spencer, J., J. Carter, C. Buxton, C. Leung, S. McCall, J. Greenberg, and A. Kapadia. “BEST IN PHYSICS (IMAGING): X-Ray Diffraction Spectral Imaging for Breast Cancer Assessment.” In Medical Physics, 44:3292–3292. WILEY, 2017.
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  - Harrison, Grant, Amanda Hemmerich, Diana Cardona, Cynthia Guy, Shannon McCall, and Xuefeng Zhang. “TFE3 and SOX11 as Novel Diagnostic Markers for Solid Pseudopapillary Neoplasms.” In Laboratory Investigation, 97:174A-174A. NATURE PUBLISHING GROUP, 2017.
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  - Harrison, Grant, Amanda Hemmerich, Diana Cardona, Cynthia Guy, Shannon McCall, and Xuefeng Zhang. “TFE3 and SOX11 as Novel Diagnostic Markers for Solid Pseudopapillary Neoplasms.” In Modern Pathology, 30:174A-174A, 2017.
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  - Shaar, Mohanad, Ayako Suzuki, Craig Poster, Gustaaf de Ridder, Xuefeng Zhang, Mary Kate Cronin, Shannon McCall, et al. “Serum Amyloid A (SAA) and C-Reactive Protein (CRP) Are Commonly Positive in Hepatocellular Carcinoma and Expression Levels Stratify According to Etiology and the Absence of Cirrhosis.” In Laboratory Investigation, 97:424A-425A. NATURE PUBLISHING GROUP, 2017.
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  - Shaar, Mohanad, Ayako Suzuki, Craig Poster, Gustaaf de Ridder, Xuefeng Zhang, Mary Kate Cronin, Shannon McCall, et al. “Serum Amyloid A (SAA) and C-Reactive Protein (CRP) Are Commonly Positive in Hepatocellular Carcinoma and Expression Levels Stratify According to Etiology and the Absence of Cirrhosis.” In Modern Pathology, 30:424A-425A. NATURE PUBLISHING GROUP, 2017.
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  - Shaar, Mohanad, Cynthia Guy, Shannon McCall, Diana Cardona, and Xuefeng Zhang. “Metastatic Renal Cell Carcinoma Presenting as a Solitary Subcentimeter Gastroesophageal Mucosal Polyp: Report of 5 Cases.” In Modern Pathology, 30:258A-258A, 2017.
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  - Sham, Mohanad, Cynthia Guy, Shannon McCall, Diana Cardona, and Xuefeng Zhang. “Metastatic Renal Cell Carcinoma Presenting as a Solitary Subcentimeter Gastroesophageal Mucosal Polyp: Report of 5 Cases.” In Laboratory Investigation, 97:258A-258A. NATURE PUBLISHING GROUP, 2017.
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  - Spencer, JR, Carter, JE, Leung, CK, McCall, SJ, Greenberg, JA, and Kapadia, AJ. "Coded aperture coherent scatter spectral imaging for assessment of breast cancers: An ex-vivo demonstration." January 1, 2017. Full Text
  - Harrison, Grant, Amanda Hemmerich, Cynthia Guy, Shannon J. McCall, Diana M. Cardona, and Xuefeng Zhang. “Transcription Factor E3 as a Novel Diagnostic Marker for Solid Pseudopapillary Neoplasm.” In Laboratory Investigation, 96:174A-174A. NATURE PUBLISHING GROUP, 2016.
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  - Harrison, Grant, Amanda Hemmerich, Cynthia Guy, Shannon J. McCall, Diana M. Cardona, and Xuefeng Zhang. “Transcription Factor E3 as a Novel Diagnostic Marker for Solid Pseudopapillary Neoplasm.” In Modern Pathology, 29:174A-174A, 2016.
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  - Morris, RE, Albanese, KE, Lakshmanan, MN, McCall, SJ, Greenberg, JA, and Kapadia, AJ. "Validation of coded aperture coherent scatter spectral imaging for normal and neoplastic breast tissues via surgical pathology." January 1, 2016. Full Text
  - Poster, Craig, Karen Gustafson, Emma Furth, Shannon McCall, Diana Cardona, Xuefeng Zhang, Anand Lagoo, Michalea Lefaivre, and Cynthia Guy. “Diagnosing Hepatocellular Carcinoma With Immunohistochemistry: Quantitative Assessment of Performance Characteristics for gamma-H2AX, Glypican-3, Clathrin Heavy Chain, and Glutamine Synthetase.” In Laboratory Investigation, 95:421A-421A. NATURE PUBLISHING GROUP, 2015.
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  - Poster, Craig, Karen Gustafson, Emma Furth, Shannon McCall, Diana Cardona, Xuefeng Zhang, Anand Lagoo, Michalea Lefaivre, and Cynthia Guy. “Diagnosing Hepatocellular Carcinoma With Immunohistochemistry: Quantitative Assessment of Performance Characteristics for gamma-H2AX, Glypican-3, Clathrin Heavy Chain, and Glutamine Synthetase.” In Modern Pathology, 28:421A-421A. NATURE PUBLISHING GROUP, 2015.
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  - Zessin, AS, Randall, A, McCall, S, Datto, MB, and Hsu, SD. "Identification and validation of actionable mutations in solid tumors." : American Society of Clinical Oncology (ASCO), May 20, 2014. Full Text
  - Layne, A. C., T. J. Cummings, C. D. Guy, D. M. Cardona, R. C. Bentley, M. J. Shealy, X. Zhang, and S. J. McCall. “TTF-1 Is Expressed in a Subset of Esophageal Adenocarcinomas.” In Modern Pathology, 27:188A-188A. NATURE PUBLISHING GROUP, 2014.
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  - Layne, A. C., T. J. Cummings, C. D. Guy, D. M. Cardona, R. C. Bentley, M. J. Shealy, X. Zhang, and S. J. McCall. “TTF-1 Is Expressed in a Subset of Esophageal Adenocarcinomas.” In Laboratory Investigation, 94:188A-188A. NATURE PUBLISHING GROUP, 2014.
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  - Shealy, M. J., G. G. de Ridder, S. J. McCall, C. D. Guy, X. Zhang, and D. M. Cardona. “The Role of Eosinophils and Neuroendocrine Cell Nests in the Assessment of Gastrointestinal Biopsies in Bone Marrow Transplant Patients.” In Laboratory Investigation, 94:203A-203A. NATURE PUBLISHING GROUP, 2014.
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  - Shealy, M. J., G. G. de Ridder, S. J. McCall, C. D. Guy, X. Zhang, and D. M. Cardona. “The Role of Eosinophils and Neuroendocrine Cell Nests in the Assessment of Gastrointestinal Biopsies in Bone Marrow Transplant Patients.” In Modern Pathology, 27:203A-203A. NATURE PUBLISHING GROUP, 2014.
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  - Zhang, X., L. Zhao, C. D. Guy, S. J. McCall, D. M. Cardona, R. A. Burbridge, K. S. Garman, et al. “Delayed Specimen Collection May Artifactually Damage the Mucosal Surface in Barrett's EMR Specimens.” In Laboratory Investigation, 94:211A-211A. NATURE PUBLISHING GROUP, 2014.
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  - Zhang, X., L. Zhao, C. D. Guy, S. J. McCall, D. M. Cardona, R. A. Burbridge, K. S. Garman, et al. “Delayed Specimen Collection May Artifactually Damage the Mucosal Surface in Barrett's EMR Specimens.” In Modern Pathology, 27:211A-211A. NATURE PUBLISHING GROUP, 2014.
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  - Zhong, J, Palta, M, Willett, CG, McCall, SJ, McSherry, F, Uronis, HE, Tyler, DS, and Czito, BG. "Patterns of Failure for Stage I Ampulla of Vater Adenocarcinoma: A Single Institutional Experience." : Elsevier BV, October 2013. Full Text
  - Strickler, John H., Shannon McCall, Andrew B. Nixon, Herbert Pang, Christel Rushing, Christy Arrowood, Sherri Haley, Kellen Meadows, and Herbert Hurwitz. “Correlation of Src activation with response to dasatinib, capecitabine, oxaliplatin, and bevacizumab in advanced solid tumors.” In Journal of Clinical Oncology, Vol. 31. AMER SOC CLINICAL ONCOLOGY, 2013.
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  - Czito, BG, Willett, C, Palta, M, McCall, S, Gee, N, Hurwitz, H, Coleman, RE, Zafar, Y, Kennedy-Newton, P, and Uronis, H. "A phase I/II study of capecitabine (Cape), oxaliplatin (Ox), panitumumab (Pmab), and external beam radiation therapy (RT) for patients with esophagogastric carcinoma (EC)." : American Society of Clinical Oncology (ASCO), February 2012. Full Text
  - Guy, C. D., A. Suzuki, J. L. Burchette, E. M. Brunt, M. F. Abelmalek, D. Cardona, S. J. McCall, et al. “A Novel Immunohiostochemical Staining Pattern for Keratin 8/18 Plus Ubiquitin in Nonalcoholic Fatty Liver Disease Is Associated with Increased Disease Severity and Advanced Fibrosis.” In Laboratory Investigation, 91:361A-361A. NATURE PUBLISHING GROUP, 2011.
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  - Guy, C. D., A. Suzuki, J. L. Burchette, E. M. Brunt, M. F. Abelmalek, D. Cardona, S. J. McCall, et al. “A Novel Immunohiostochemical Staining Pattern for Keratin 8/18 Plus Ubiquitin in Nonalcoholic Fatty Liver Disease Is Associated with Increased Disease Severity and Advanced Fibrosis.” In Modern Pathology, 24:361A-361A. NATURE PUBLISHING GROUP, 2011.
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  - Fleig, Susanne V., Liu Yang, Jiawen Huang, Shannon J. Mccall, Youngmi Jung, Hendrika M. Vandongen, Alessia Omenetti, Jason K. Sicklick, Yin-Xiong Li, and Anna Mae Diehl. “Qualitative and quantitative differences in response to liver injury in OB/OB mice.” In Gastroenterology, 132:A818–A818, 2007.
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  - Yamaguchi, Kanji, Liu Yang, Shannon McCall, Jiawen Huang, Xing Xian Yu, Sanjay K. Pandey, Sanjay Bhanot, Brett P. Monia, Yin-Xiong Li, and Anna Mae Diehl. “DGAT1 ASO treatment reduces hepatic fibrosis without improving hepatic steatosis in DB/DB mice fed methionine choline deficient diets.” In Hepatology, 44:663A-663A. JOHN WILEY & SONS INC, 2006.
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  - Yamaguchi, Kanji, Liu Yang, Shannon McCall, Jiawen Huang, Xing Xian Yu, Sanjay K. Pandey, Sanjay Hanot, Brett P. Monia, Yin-Xiong Li, and Anna Mae Diehl. “DGAT2 aso treatment improves hepatic steatosis, but not fibrosis in DB/DB mice fed methionine choline deficient diets.” In Hepatology, 44:665A-665A. JOHN WILEY & SONS INC, 2006.
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  - Suzuki, A., S. McCall, J. W. Huang, Y. Qi, M. Zdanowicz, J. Sicklick, T. Camp, Y. X. Li, and A. M. E. Diehl. “IL-15 increases regenerative activity in the livers.” In Hepatology, 42:572A-572A. JOHN WILEY & SONS INC, 2005.
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  - HU, C, MCCALL, S, MADDEN, J, HUANG, H, CLOUGH, R, RABBANI, Z, JIRTLE, R, and ANSCHER, M. "Loss of heterozygosity in the M6P/IFG2R gene is an early event in the development of prostate cancer." : Elsevier BV, September 2004. Full Text
  - McCall, S. J., L. A. Myers, W. R. Treem, D. D. Patel, and M. R. Gottfried. “Hepatic veno-occlusive disease in primary humoral immunodeficiency.” In Laboratory Investigation, 83:281A-281A, 2003.
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  - McCall, S. J., L. A. Myers, W. R. Treem, D. D. Patel, and M. R. Gottfried. “Hepatic veno-occlusive disease in primary humoral immunodeficiency.” In Modern Pathology, 16:281A-281A. LIPPINCOTT WILLIAMS & WILKINS, 2003.
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Teaching & Mentoring
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- PSP 301B: Research in PSP 2019
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