Office of Research and Development Publications

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Judson, R., K. Houck, Eric Watt, AND R. Thomas. On Selecting a Minimal Set of In Vitro Assays to Reliably Determine Estrogen Agonist Activity. REGULATORY TOXICOLOGY AND PHARMACOLOGY. Elsevier Science Ltd, New York, NY, 91:39-49, (2017).

Liu, J., G. Patlewicz, A. Williams, R. Thomas, AND I. Shah. Predicting organ toxicity using in vitro bioactivity data and chemical structure. CHEMICAL RESEARCH IN TOXICOLOGY. American Chemical Society, Washington, DC, 30:2046−2059, (2017). https://doi.org/10.1021/acs.chemrestox.7b00084

Shen, L., R. Judson, F. Melnikov, J. Roethle, A. Guidanda, J. Zimmerman, AND P. Anastas. A Probablistic Diagram to Guide Chemical Design with Reduced Potency to Incur Cytotoxicity. GREEN CHEMISTRY. Royal Society of Chemistry, Cambridge, Uk, 18:4461-4467, (2016).

Judson, R., K. Houck, M. Martin, A. Richard, T. Knudsen, I. Shah, S. Little, J. Wambaugh, Woodrow Setzer, P. Kothiya, J. Phuong, D. Filer, D. Smith, D. Reif, D. Rotroff, N. Kleinstreuer, N. Sipes, M. Xia, R. Huang, K. Crofton, AND R. Thomas. Analysis of the Effects of Cell Stress and Cytotoxicity on In Vitro Assay Activity Across a Diverse Chemical and Assay Space. TOXICOLOGICAL SCIENCES. Society of Toxicology, RESTON, VA, 152(2):323-339, (2016).

Ball, N., M. Cronin, J. Shen, M. Adenuga, K. Blackburn, E. Booth, M. Bouhifd, B. Donley, L. Egnash, J. Freeman, C. Hastings, D. Juberg, A. Kleensang, N. Kleinstreuer, D. Kroese, T. Luechtefeld, A. Maertens, S. Marty, J. Naciff, J. Palmer, D. Pamies, M. Penman, A. Richarz, D. Russo, D. Steup, S. Stuard, G. Tier, B. van Ravenzwaay, S. Wu, H. Zhu, AND T. Hartung. CAAT Altex workshop paper entitled "Towards Good Read-Across Practice (GRAP) Guidance". ALTEX. Society ALTEX Edition, Kuesnacht, Switzerland, 33(2):149-166, (2016).

Karmaus, A., D. Filer, M. Martin, AND K. Houck. Evaluation of food-relevant chemicals in the ToxCast high-throughput screening program. FOOD AND CHEMICAL TOXICOLOGY. Elsevier Science Ltd, New York, NY, 92:188-196, (2016).

Karmaus, A., C. Toole, D. Filer, K. Lewis, AND M. Martin. High-throughput screening of chemical effects on steroidogenesis using H295R human adrenocortical carcinoma cells. TOXICOLOGICAL SCIENCES. Society of Toxicology, RESTON, VA, 150(2):323-332, (2016).

Belair, D., M. Schwartz, T. Knudsen, AND W. Murphy. Human iPSC-Derived Endothelial Cell Sprouting Assay in Synthetic Hydrogel Arrays. Acta Biomaterialia. Elsevier B.V., Amsterdam, Netherlands, 39:12-24, (2016).

Auerbach, S., D. Filer, D. Reif, V. Walker, A. Holloway, J. Schlezinger, S. Srinivasan, D. Svoboda, R. Judson, J. Bucher, AND K. Thayer. Prioritizing Environmental Chemicals for Obesity and Diabetes Outcomes Research: A Screening Approach Using ToxCast High Throughput Data. ENVIRONMENTAL HEALTH PERSPECTIVES. National Institute of Environmental Health Sciences (NIEHS), Research Triangle Park, NC, , 1-50, (2016).

Shah, I., J. Liu, Richard S. Judson, Russell S. Thomas, AND G. Patlewicz. Systematically evaluating read-across prediction and performance using a local validity approach characterized by chemical structure and bioactivity information. REGULATORY TOXICOLOGY AND PHARMACOLOGY. Elsevier Science Ltd, New York, NY, 79:12-24, (2016).

Leung, M., J. Phuong, N. Baker, N. Sipes, G. Klinefelter, M. Martin, K. McLaurin, Woodrow Setzer, S. Darney, R. Judson, AND T. Knudsen. Systems Toxicology of Male Reproductive Development: Profiling 774 Chemicals for Molecular Targets and Adverse Outcomes. ENVIRONMENTAL HEALTH PERSPECTIVES. National Institute of Environmental Health Sciences (NIEHS), Research Triangle Park, NC, 124(7):1050-1061, (2016).

Richard, A., R. Judson, K. Houck, C. Grulke, P. Volarath, I. Thillainadarajah, C. Yang, J. Rathman, M. Martin, J. Wambaugh, T. Knudsen, K. Mansouri, J. Kancherla, G. Tier, A. Williams, S. Little, K. Crofton, AND R. Thomas. The ToxCast Chemical Landscape - Paving the Road to 21st Century Toxicology. CHEMICAL RESEARCH IN TOXICOLOGY. American Chemical Society, Washington, DC, 29(8):1225-1251, (2016).

Paul-Friedman, K., Eric D. Watt, Michael W. Hornung, Joan M. Hedge, Richard S. Judson, Kevin M. Crofton, Keith A. Houck, AND Steven O. Simmons. Tiered High-Throughput Screening Approach to Identify Thyroperoxidase Inhibitors within the ToxCast Phase I and II Chemical Libraries. TOXICOLOGICAL SCIENCES. Society of Toxicology, RESTON, VA, 151(1):160-180, (2016).

Shah, I., Woodrow Setzer, J. Jack, K. Houck, R. Judson, T. Knudsen, J. Liu, M. Martin, D. Reif, Ann M. Richard, Russell S. Thomas, K. Crofton, David J. Dix, AND Robert J. Kavlock. Using ToxCast data to reconstruct dynamic cell state trajectories and estimate toxicological points of departure. ENVIRONMENTAL HEALTH PERSPECTIVES. National Institute of Environmental Health Sciences (NIEHS), Research Triangle Park, NC, 124(7):910-919, (2016).

Filer, Dayne L., P. Kothiya, R. Woodrow Setzer, Richard S. Judson, AND Matthew T. Martin. tcpl: The ToxCast Pipeline for High-Throughput Screening Data. BIOINFORMATICS. Oxford University Press, Cary, NC, , 1-3, (2016).

Yang, C., A. Tarkhov, J. Marusczyk1, B. Bienfait, J. Gasteiger, T. Kleinoeder, T. Magdziarz, O. Sacher, C. Schwab, J. Schwoebel, L. Terfloth, K. Arvidson, A. Richard, A. Worth, AND J. Rathman. A New Publicly Available Chemical Query Language, CSRML, to support Chemotype Representations for Application to Data-Mining and Modeling. Journal of Chemical Information and Modeling. American Chemical Society, Washington, DC, 55(3):510-528, (2015).

Richter, A., J. Brown, B. Bharti, A. Wang, S. Gangwal, K. Houck, E. Hubal, V. Paunov, S. Stoyanov, AND O. Velev. An environmentally benign antimicrobial nanoparticle based on a silver-infused lignin core. Nature Nanotechnology. Nature Publishing Group, London, Uk, 10(9):817-823, (2015).

Trisciuzzi, D., D. Alberga, K. Mansouri, R. Judson, S. Cellamare, M. Catto, A. Carotti, E. Benfenati, E. Novellino, G. Mangiatordi, AND O. Nicolotti. Docking-based classification models for exploratory toxicology studies on high-quality estrogenic experimental data. Future Medicinal Chemistry. Future Science Group, London, Uk, 7(14):1921-1936, (2015).

Knudsen, T., D. Keller, M. Sander, E. Carney, N. Doerrer, D. Eaton, S. Fitzpatrick, K. Hastings, D. Mendric, R. Tice, P. Watkins, AND M. Whelan. FORUM - FutureTox II: In vitro Data and In Silico Models for Predictive Toxicology. TOXICOLOGICAL SCIENCES. Society of Toxicology, RESTON, VA, 143(2):256–267, (2015).

Baghdikian, C. AND A. Karmaus. High-Throughput Toxicity Testing: New Strategies for Assessing Chemical Safety. Food Safety Magazine. The Target Group, Inc., Glendale, CA, (Dec./Jan.):1-2, (2016).

Wetmore, B., John F. Wambaugh, B. Allen, S. Ferguson, M. Sochaski, R. Woodrow Setzer, Keith A. Houck, C. Strope, K. Cantwell, Richard S. Judson, E. LeCluyse, H. Clewell III, Russell S. Thomas, AND M. Andersen. Incorporating High-Throughput Exposure Predictions with Dosimetry-Adjusted In Vitro Bioactivity to Inform Chemical Toxicity Testing. TOXICOLOGICAL SCIENCES. Society of Toxicology, RESTON, VA, , 1-57, (2015).

Judson, Richard S., F. Magpantay, V. Chickarmane, C. Haskell, N. Tania, J. Taylor, M. Xia, R. Huang, D. Rotroff, D. Filer, K. Houck, M. Martin, N. Sipes, A. Richard, K. Mansouri, Woodrow Setzer, T. Knudsen, K. Crofton, AND R. Thomas. Integrated Model of Chemical Perturbations of a Biological PathwayUsing 18 In Vitro High Throughput Screening Assays for the Estrogen Receptor. TOXICOLOGICAL SCIENCES. Society of Toxicology, RESTON, VA, :1-42, (2015).

Bal-Price, A., K. Crofton, M. Leist, S. Allen, M. Arand, T. Buetler, N. Delrue, R. FitzGerald, T. Hartung, T. Heinonen, H. Hogberg, S. Hougaard Bennekou, W. Lichtensteiger, D. Oggier, M. Paparella, M. Axelstad, A. Piersma, E. Rached, B. Schilter, G. Schmuck, L. Stoppini, E. Tongiorgi, M. Tiramani, F. Monnet-Tschudi, M. Wilks, T. Ylikomi, AND E. Fritsche. International STakeholder NETwork (ISTNET): Creating a Developmental Neurotoxicity Testing (DNT) Roadmap for Regulatory Purposes. Archives of Toxicology. Springer, New York, NY, 89(2):269-287, (2015).

Liu, J., K. Mansouri, Richard S. Judson, Matthew T. Martin, H. Hong, M. Chen, X. Xu, Russell S. Thomas, AND I. Shah. Predicting hepatotoxicity using ToxCast in vitro bioactivity and chemical structure. CHEMICAL RESEARCH IN TOXICOLOGY. American Chemical Society, Washington, DC, 28(4):738-751, (2015).

Attene-Ramos, M., R. Huang, S. Michael, K. Witt, A. Richard, R. Tice, A. Simeonov, C. Austin, AND M. Xia. Profiling of the Tox21 Chemical Collection for Mitochondrial Function: I. Compounds that Decrease Mitochondrial Membrane Potential. ENVIRONMENTAL HEALTH PERSPECTIVES. National Institute of Environmental Health Sciences (NIEHS), Research Triangle Park, NC, 123(1):49-56, (2015).