| 2009 | InStream : the individual-based stream trout research and environmental assessment model |
| 2009 | "A prototype agent based fishery management model of Hawaii's longline fishery" in 18th World IMACS / MODSIM Congress |
| 2009 | "Exploring the persistence of stream-dwelling trout populations under alternative real-world turbidity regimes with an individual-based model" in Transactions of the American Fisheries Society |
| 2009 | "Can remote high-resolution mapping help individual-based fish population models go up-scale?" in AGU Fall Meeting |
| 2008 | "Demonstration Flow Assessment: Judgment and Visual Observation in Instream Flow Studies" in Fisheries Magazine |
| 2008 | "Projecting Cumulative Benefits of Multiple River Restoration Projects: An Example from the Sacramento-San Joaquin River System in California" in Environmental Management |
| 2007 | "Estimating multi-factor cumulative watershed effects on fish populations with an individual-based model" in Fisheries |
| 2006 | "A physical habitat model for predicting the effects of flow fluctuations in nursery habitats of the endangered Colorado pikeminnow (Ptychocheilus lucius)" in River Research and Applications |
| 2006 | "A standard protocol for describing individual-based and agent-based models" in Ecological Modelling |
| 2006 | "Agent-based Simulation Platforms: Review and Development Recommendations" in Simulation |
| 2006 | "Agent-based models in ecology: Patterns and alternative theories of adaptive behaviour" in Contributions to Economics |
| 2005 | "Pattern-Oriented Modeling of Agent-Based Complex Systems: Lessons from Ecology" in Science |
| 2005 | "Strategy for monitoring the short-term distribution of dispersed oils" in 2005 International Oil Spill Conference, IOSC 2005 |
| 2005 | Individual-based Modeling and Ecology |
| 2005 | "Tests of Theory for Diel Variation in Salmonid Feeding Activity and Habitat Use" in Ecology |
| 2003 | "What can habitat preference models tell us? Tests using a virtual trout population" in Ecological Applications |
| 2002 | "Analysis of Habitat-Selection Rules Using an Individual-Based Model" in Ecology |
| 2002 | "Population-Level Analysis and Validation of an Individual-Basec Cutthroat Trout Model" in Natural Resource Modeling |
| 2002 | "Software Engineering Considerations for Individual-Based Models" in Natural Resource Modeling |
| 2002 | "Study questions "cookbook" approach to stream restoration" in Water Resources Research Institute News of the University of North Carolina |
| 2002 | "Modelling changes in migration pattern of herring: collective behaviour and numerical domination" in Journal of Fish Biology |
| 2001 | Individual-based model formulation for cutthroat trout, Little Jones Creek, California |
| 2001 | "Design and Performance of a Channel Reconstruction Project in a Coastal California Gravel-Bed Stream" in Environmental Management |
| 2001 | "Getting "Results": The Pattern-Oriented Approach to Analysing Natural Systems with Individual-Based Models" in Natural Resource Modeling |
| 2001 | "Concepts from complex adaptive systems as a framework for individual-based modelling" in Ecological Modelling |
| 1999 | "Movement rules for individual-based models of stream fish" in Ecological Modelling |
| 1999 | "Bioenergetics modeling of stream trout growth: Temperature and food consumption effects" in Transactions of the American Fisheries Society |
| 1999 | "Reducing uncertainties in instream flow studies" in Fisheries |
| 1998 | "Individual-based model of sympatric populations of brown and rainbow trout for instream flow assessment: model description and calibration" in Ecological Modelling |
| 1997 | "Uncertainty and instream flow standards: Perspectives based on hydropower research and assessment" in Fisheries |
| 1995 | "Role of engineers in multidisciplinary hydropower planning: a case study" in Proceedings of the 22nd Annual Conference on Integrated Water Resources Planning for the 21st Century |
| 1995 | "Testing the instream flow method in trout streams" in Waterpower - Proceedings of the International Conference on Hydropower |
| 1993 | "Water temperature issues in the 90's and beyond" in Water Resources Planning and Management and Urban Water Resources |
| 1993 | "Evaluation of the fisheries impact assessment and monitoring program for the Terror Lake Hydroelectric Project" in Rivers |
| 1992 | "Modeling alternatives for basin-level hydropower development: 1. Optimization methods and applications" in Water Resources Research |
| 1992 | "Closure to “Aeration at Ohio River Basin Navigation Dams” by Steven F. Railsback, John M. Bownds, Michael J. Sale, Martha M. Stevens, and George H. Taylor" in Journal of Environmental Engineering |
| 1992 | "Use of a reservoir water quality model to simulate global climate change effects on fish habitat" in Climate Change |
| 1992 | "Mixing characteristics of submerged and surface wastewater outfalls at mcmurdo station" in Polar Record |
| 1992 | "Hydropower, water quality and waste discharge" in Water Resources Planning and Management: Saving a Threatened Resource - In Search of Solutions, Proceedings of the Water Resources Sessions at Water Forum |
| 1991 | "Discussion of “Indexing Gas Transfer in Self‐Aerated Flows” by John S. Gulliver, John R. Thene, and Alan J. Rindels" in Journal of Environmental Engineering |
| 1991 | "Automated sensitivity analysis for fortran models" in Proceedings of the 18th Annual Conference and Symposium |
| 1991 | "Review of mitigation methods for fish passage, instream flows, and water quality" in Proceedings of the International Conference on Hydropower |
| 1990 | "Aeration at Ohio River Basin Navigation Dams" in Journal of Environmental Engineering |
| 1990 | "Predicting effects of global climate change on reservoir water quality and fish habitat" in Optimizing the Resources for Water Management - Proceedings of the ASCE 17th Annual National Conference |
| 1990 | "Simple empirical model of aeration at navigation dams" in 2nd International Symposium on Gas Transfer at Water Surfaces |
| 1990 | "Improving the Effectiveness of Fisheries Agencies in Developing Hydropower Mitigation" in Fisheries Magazine |
| 1989 | "Instream flows for recreational and aesthetic resources" in Legal, Institutional, Financial, and Environmental Aspects of Water Issues |
| 1989 | "Comparison of Regression and Time-Series Methods for Synthesizing Missing Streamflow Records" in Journal of the American Water Resources Association |
| 1989 | "Balancing hydropower development in the Ohio River basin" in Proceedings of the International Conference on Hydropower |
| 1989 | Development of flow releases for water quality protection at hydroelectric plants at navigation dams in the Ohio River basin |
