Publications & Papers by Columbia Basin Research (CBR) Faculty, Students, and Staff Organized by Author

Publications & Papers by CBR Faculty, Students, and Staff Organized by Author

Publications by Title Author Date Theses/Dissertations

Richard W. Zabel |

James J. Anderson

2011. Predicting and Monitoring Adult Spring Chinook Salmon Migration on the Columbia River in 2010. Report to Bonneville Power Administration, Division of Fish and Wildlife.

2011. Evaluation of the 2010 Predictions of Run-size and Passage Distributions of Adult Chinook Salmon (Oncorhynchus tschawytscha) Returning to the Columbia and Snake Rivers. Report to Bonneville Power Administration, Division of Fish and Wildlife.

2011. Evaluation of the 2010 Predictions of Run-Timing and Survival of Wild Migrant Yearling Chinook and Steelhead on the Columbia and Snake Rivers. Report to Bonneville Power Administration, Division of Fish and Wildlife.

2010. Sensitivity of juvenile salmonid growth to future climate trends. Early view, article online in advance of print.

Final Publication: Beer, W.N. and J.J. Anderson. 2010. Sensitivity of juvenile salmonid growth to future climate trends. River Research and Applications.

2010. Predicting and Monitoring Adult Spring Chinook Salmon Migration on the Columbia River in 2009. Report to Bonneville Power Administration, Division of Fish and Wildlife.

2010. Evaluation of the 2009 Predictions of Run-Timing and Survival of Wild Migrant Yearling Chinook and Steelhead on the Columbia and Snake Rivers. Report to Bonneville Power Administration, Division of Fish and Wildlife.

2010. Evaluation of the 2009 Predictions of Run-size and Passage Distributions of Adult Chinook Salmon (Oncorhynchus tschawytscha) Returning to the Columbia and Snake Rivers. Report to Bonneville Power Administration, Division of Fish and Wildlife.

2009. Oceanic, riverine, and genetic influences on spring chinook salmon migration timing. .

Final Publication: Anderson, J.J. and W.N. Beer. 2009. Oceanic, riverine, and genetic influences on spring chinook salmon migration timing. Ecological Applications 19(8):1989-2003.

2009. Evaluation of the 2008 Predictions of Run-Timing and Survival of Wild Migrant Yearling Chinook and Steelhead on the Columbia and Snake Rivers. Report to Bonneville Power Administration, Division of Fish and Wildlife.

2009. Evaluation of the 2008 Predictions of Run-size and Passage Distributions of Adult Chinook Salmon (Oncorhynchus tschawytscha) Returning to the Columbia and Snake Rivers. Report to Bonneville Power Administration, Division of Fish and Wildlife.

2008. Comprehensive Passage (COMPASS) Model: a model of downstream migration and survival of juvenile salmonids through a hydropower system.

Final Publication: Zabel, R. W., J. Faulkner, S. G. Smith, J. J. Anderson, C. Van Holmes, N. Beer, S. Iltis, J. Krinke, G. Fredicks, B. Bellerud, J. Sweet and A. Giorgi. 2008. Comprehensive Passage (COMPASS) Model: a model of downstream migration and survival of juvenile salmonids through a hydropower system. Hydrobiologia 609(1):289-300.

2008. Linking growth, survival and heterogeneity through vitality.

Final Publication: Anderson, J. J., M. C. Gildea, D. W. Williams, and T. Li. 2008. Linking growth, survival and heterogeneity through vitality. American Naturalist 171: E20-E43.

2008. Mathematical & Conceptual Framework for the New Discipline of Ecohydraulics.

Final Publication: Nestler, J. M., Goodwin, R. A., Smith, D. L., and Anderson, J. J. 2008. Mathematical & Conceptual Framework for the New Discipline of Ecohydraulics. In Hydroecology and Ecohydrology: Past, Present and Future, ed. P. Wood, D. Hannah, and J. Sadler, 205-224, New York: Wiley.

2007. Framework for Assessing Viability of Threatened and Endangered Chinook Salmon and Steelhead in the Sacramento-San Joaquin Basin.

Final Publication: Lindley, S. T., R. S. Schick, E. Mora, P. B. Adams, J. J. Anderson, S. Greene, C. Hanson, B. P. May, D. McEwan, R. B. MacFarlane, C. Swanson, and J. G. Williams. 2007. Framework for Assessing Viability of Threatened and Endangered Chinook Salmon and Steelhead in the Sacramento-San Joaquin Basin. San Francisco Estuary and Watershed Science. Vol. 5, Issue 1 (February), Article 4. http://repositories.cdlib.org/jmie/sfews/vol5/iss1/art4.

2006. Evaluation of the 2005 Predictions of Run-size and Passage Distributions of Adult Chinook Salmon (Oncorhynchus tschawytscha) returning to the Columbia and Snake Rivers.

Final Publication: Beer, W.N, S. Iltis, and J.J. Anderson. 2006. Evaluation of the 2005 Predictions of Run-size and Passage Distributions of Adult Chinook Salmon (Oncorhynchus tschawytscha) returning to the Columbia and Snake Rivers. Technical Report DOE/BP-00025162-3. Portland, OR : Bonneville Power Administration.

2006. Evaluation of the 2005 Predictions of the Run-Timing of Wild Migrant Yearling Chinook, Subyearling Chinook and Steelhead and Water Quality at Multiple Locations on the Snake and Columbia Rivers using CRiSP/RealTime. Report to Bonneville Power Administration, Environment, Fish and Wildlife.

2006. Evaluation of the 2004 Predictions of the Run-Timing of Wild Migrant Yearling Chinook, Subyearling Chinook and Steelhead and Water Quality at Multiple Locations on the Snake and Columbia Rivers using CRiSP/RealTime.

Final Publication: Beer, W.N, S. Iltis, C. Van Holmes, and J.J. Anderson. 2006. Evaluation of the 2004 Predictions of the Run-Timing of Wild Migrant Yearling Chinook, Subyearling Chinook and Steelhead and Water Quality at Multiple Locations on the Snake and Columbia Rivers using CRiSP/RealTime. Technical Report DOE/BP-00005396-2. Portland, OR : Bonneville Power Administration.

2006. Forecasting 3-D fish movement behavior using a Eulerian-Lagrangian-agent method (ELAM). Abstract.

Final Publication: Goodwin, R.A., J.M. Nestler, J.J. Anderson, L.J. Weber, and D.P. Loucks. 2006. Forecasting 3-D fish movement behavior using a Eulerian-Lagrangian-agent method (ELAM). Ecological Modelling 192: 197-223.

2006. Historical Population Structure of Central Valley Steelhead and its Alteration by Dams. Abstract.

Final Publication: Lindley, S.T., R.S. Schick, A. Agrawal, M. Goslin, T.E. Pearson, E. Mora, J.J. Anderson, B. May, S. Greene, C. Hanson, A. Low, D. McEwan, R.B. MacFarlane, C. Swanson and J.G. Williams. 2006. Historical Population Structure of Central Valley Steelhead and its Alteration by Dams. San Francisco Estuary & Watershed Science 4(1).

2006. Evaluation of the 2004 Predictions of Run-size and Passage Distributions of Adult Chinook Salmon (Oncorhynchus tschawytscha) returning to the Columbia and Snake Rivers.

Final Publication: Beer, W.N, D. Salinger, S. Iltis, and J.J. Anderson. 2006. Evaluation of the 2004 Predictions of Run-size and Passage Distributions of Adult Chinook Salmon (Oncorhynchus tschawytscha) returning to the Columbia and Snake Rivers. Technical Report DOE/BP-00005396-1. Portland, OR : Bonneville Power Administration.

2006. Effects of Water Temperature and Flow on Adult Salmon Migration Swim Speed and Delay. Abstract.

Final Publication: Salinger, D.H., and J.J. Anderson. 2006. Effects of Water Temperature and Flow on Adult Salmon Migration Swim Speed and Delay. Transactions of the American Fisheries Society 135(1): 188-199.

2006. Application of an Eulerian-Lagrangian-Agent method (ELAM) to rank alternative designs of a juvenile fish passage facility.

Final Publication: Weber, L. J., R. A. Goodwin, S. Li, J. M. Nestler, J. J. Anderson. 2006. Application of an Eulerian-Lagrangian-Agent method (ELAM) to rank alternative designs of a juvenile fish passage facility. J. Hydroinformatics 8(4):271-295.

2005. Effect of Multiple Turbine Passage on Juvenile Snake River Salmonid Survival. Executive Summary.

Final Publication: Ham, K.D., J.J. Anderson, and J.A. Vucelick. 2005. Effect of Multiple Turbine Passage on Juvenile Snake River Salmonid Survival. PNNL-15450. Richland, WA: Pacific Northwest National Laboratory.

2005. Mean free-path length theory of predator-prey interactions: Application to juvenile salmon migration. Abstract.

Final Publication: Anderson, J.J., E. Gurarie, R.W. Zabel. 2005. Mean free-path length theory of predator-prey interactions: Application to juvenile salmon migration. Ecological Modelling 186(2): 196-211.

2005. A statistical model for in-season forecasts of sockeye salmon (Oncorhynchus nerka) returns to the Bristol Bay districts of Alaska. Abstract.

Final Publication: Hyun, S., R. Hilborn, J.J. Anderson, and B. Ernst. 2005. A statistical model for in-season forecasts of sockeye salmon (Oncorhynchus nerka) returns to the Bristol Bay districts of Alaska. Canadian Journal of Fisheries and Aquatic Sciences 62(7): 1665-1680.

2005. Evaluation of Wanapum Dam Bypass Configurations for Outmigrating Juvenile Salmon Using Virtual Fish: Numerical Fish Surrogate (NFS) Analysis. Abstract.

Final Publication: Goodwin, R.A., J.M. Nestler, J.J. Anderson, J. Kim, and T. Toney. 2005. Evaluation of Wanapum Dam Bypass Configurations for Outmigrating Juvenile Salmon Using Virtual Fish: Numerical Fish Surrogate (NFS) Analysis. ERDC/EL TR-05-7 June 2005. Washington, DC: U.S. Army Corps of Engineers.

2005. Contaminants as viral cofactors: assessing indirect population effects. Abstract.

Final Publication: Springman, K.R., G. Kurath, J.J. Anderson, and J.M. Emlen. 2005. Contaminants as viral cofactors: assessing indirect population effects. Aquatic Toxicology 71(1): 13-23.

2004. Evaluation of the 2003 Predictions of the Run-Timing of Wild Migrant Yearling Chinook, Subyearling Chinook and Steelhead and Water Quality at Multiple Locations on the Snake and Columbia Rivers using CRiSP/RealTime. Report to Bonneville Power Administration, Environment, Fish and Wildlife.

2004. Evaluation of the 2003 Predictions of Run-size and Passage Distributions of Adult Chinook Salmon returning to the Columbia and Snake Rivers.

2004. Predicted Fall Chinook Survival and Passage Timing Under BiOp and Alternative Summer Spill Programs Using the Columbia River Salmon Passage Model. white paper.

2004. Sensitivity of salmon survival to temperature in the mainstem Snake and Columbia Rivers. white paper.

2004. Effects of water temperature on adult salmon migration swim speed. Abstract.

2004. Decoding 3-D movement patterns of fish in response to hydrodynamics and water quality for forecast simulation. Submitted to the 6^th International Conference on Hydroinformatics 2004, 21-24 June 2004, Singapore.

2003. Toward a Resolution of the Flow/Survival Debate and the Impacts of Flow Augmentation and Water Withdrawal in the Columbia/Snake River System. white paper.

2003. A parameter estimation routine for the vitality-based survival model. Abstract.

Final Publication: Salinger, D.H., J.J. Anderson, and O.S. Hamel. 2003. A parameter estimation routine for the vitality-based survival model. Ecological Modelling 166(3): 287-294.

2003. Evaluation of the 2002 Predictions of the Run-Timing of Wild Migrant Yearling Chinook and Water Quality at Multiple Locations on the Snake and Columbia Rivers using CRiSP/RealTime. Report to Bonneville Power Administration, Environment, Fish and Wildlife.

2003. Exposure of migrating salmon populations in the Columbia/Snake River basins to environmental factors. white paper.

2003. Predicted Fall Chinook Survival and Passage Timing Under BiOp and Alternative Summer Spill Programs Using CRiSP. white paper.

2003. An analysis of smolt survival with implications to flow management.

2002. The Flow Survival Relationship and Flow Augmentation Policy in the Columbia River Basin.

2002. Relationship between antigen concentration and bacterial load in Pacific salmon with bacterial kidney disease.

Final Publication: Hamel, O.S. and J.J. Anderson. 2002. Relationship between antigen concentration and bacterial load in Pacific salmon with bacterial kidney disease. Diseases of Aquatic Organisms 51(2): 85-92.

2002. An agent-based event driven foraging model.

Final Publication: Anderson, James J. 2002. An agent-based event driven foraging model. Natural Resource Modeling 15(1): 55-82.

2002. Evaluation of the 2001 Predictions of the Run-Timing of Wild Migrant Yearling Chinook and Water Quality at Multiple Locations on the Snake and Columbia Rivers using CRiSP/RealTime. Report to Bonneville Power Administration, Environment, Fish and Wildlife.

2001. History of the Flow Survival Relationship and Flow Augmentation Policy in the Columbia River Basin. working paper.

2001. Testimony of James J Anderson before the Subcommittee on Water and Power of the U.S. House of Representatives Committee on Resources Held May 19, 2001 in Tacoma, Washington.

2001. Effect of spawning day and temperature on salmon emergence: interpretations of a growth model for Methow River chinook.

Final Publication: Beer, W. Nicholas and James J. Anderson. 2001. Effect of spawning day and temperature on salmon emergence: interpretations of a growth model for Methow River chinook. Can. J. Fish. Aquat. Sci. 58(5): 943-949.

2001. Modeling Juvenile Salmon Migration Using a Simple Markov Chain, DRAFT.

Final Publication: Steel, E.A., P. Guttorp, J.J. Anderson and D.C. Caccia. 2001. Modeling Juvenile Salmon Migration Using a Simple Markov Chain. Journal of Agricultural, Biological & Environmental Statistics 6(1): 80-88.

2001. Evaluation of the 2000 Predictions of the Run-Timing of Wild Migrant Yearling Chinook and Water Quality at Multiple Locations on the Snake and Columbia Rivers using CRiSP/RealTime. Report to Bonneville Power Administration, Environment, Fish and Wildlife.

2000. Columbia River Salmon Passage Model CRiSP.1.6 Theory and Calibration.

2000. Effects of Flow Augmentation on Snake River Fall Chinook. Report to the Committee of Nine and the Idaho Water Users Association.

2000. Testimony of James J. Anderson, Associate Professor, School of Aquatic and Fishery Sciences, University of Washington, Seattle, Washington, before the Subcommittee on Fisheries, Wildlife and Water of the Senate Committee on Environment and Public Works held in Boise, Idaho, November 20, 2000.

2000. Heat Budget of Water Flowing through Hells Canyon and the Effect of Flow Augmentation on Snake River Water Temperature DRAFT.

2000. Testimony of James J. Anderson, Associate Professor, School of Fisheries, University of Washington, Seattle, Washington, before the Subcommittee on Water and Power of the Senate Energy and Natural Resources Committee held in Cascade Locks, Oregon, April 18, 2000.

2000. Evaluation of the 1999 Predictions of the Run-Timing of Wild Migrant Yearling Chinook and Water Quality at Multiple Locations on the Snake and Columbia Rivers using CRiSP/RealTime. Report to Bonneville Power Administration, Environment, Fish and Wildlife.

2000. Application of the Out-Migrant Survival Simulator (OMSS) using the SWARM modeling environment to study smolt-predator interactions. Presented at SwarmFest 2000, March 11-13, 2000, Utah State University, Logan, Utah.

2000. A vitality based model relating stressors and environmental properties to organism survival - DRAFT.

Final Publication: Anderson, J.J. 2000. Ecological Monographs 70(3): 445-470.

1999. Evaluation of the 1998 Predictions of the Run-Timing of Wild Migrant Yearling Chinook and Water Quality at Multiple Locations on the Snake and Columbia Rivers using CRiSP/RealTime.

Final Publication: Beer, W.N., J.A. Hayes, P. Shaw, R.W. Zabel, and J.J. Anderson. 1999. Evaluation of the 1998 Predictions of the Run-Timing of Wild Migrant Yearling Chinook and Water Quality at Multiple Locations on the Snake and Columbia Rivers using CRiSP/RealTime. Technical Report DOE/BP-02347-1. Portland, OR : Bonneville Power Administration.

1999. Testimony of James J. Anderson, Associate Professor, School of Fisheries, University of Washington, Seattle, Washington, before the U.S. House of Representatives Committee on Resources Subcommittee on Water and Power and Subcommittee on Fisheries, Conservation, Wildlife and Oceans held in the Longworth House Office Building Washington D.C. May 27, 1999.

1999. Testimony of James J. Anderson, Associate Professor, School of Fisheries, University of Washington, Seattle, Washington, before the U.S. Senate Subcommittee on Water and Power in Hood River, Oregon, April 6, 1999.

1999. A Personal In-side Review of PATH. Presented at the Idaho State House in Boise, Jan 20, 1999.

1998. Testimony of James J. Anderson Associate Professor, School of Fisheries, University of Washington, Before The U.S. House of Representatives Committee on Resources, September 2, 1998 Pasco, Washington.

1998. A multiple reach model to describe the migratory behavior of Snake River yearling chinook salmon (Oncorhynchus tshawytscha).

Final Publication: Zabel, R.W., J.J. Anderson, and P. Shaw. A multiple reach model to describe the migratory behavior of Snake River yearling chinook salmon (Oncorhynchus tshawytscha). Can. J. Fish. Aquat. Sci. 55(3): 658-667.

1998. Testimony of James J. Anderson, Associate Professor, School of Fisheries, University of Washington, Seattle, Washington, before the U.S. Senate Subcommittee on Water and Power in Vancouver, Washington, February 17, 1998.

1997. Modelling the Growth of Salmonid Embryos.

Final Publication: Beer, W.N. and J.J. Anderson. 1997. Modelling the Growth of Salmonid Embryos. Journal of Theoretical Biology 189(3): 297-306.

1997. Decadal climate cycles and declining Columbia River salmon.

Final Publication: Anderson, J.J. 2000. Decadal climate cycles and declining Columbia River salmon. In Sustainable Fisheries Management: Pacific Salmon, ed. E.E. Knudsen et al., 467-484. New York : CRC Press LLC.

1997. Effects of the ocean and river environments on the survival of Snake River stream-type chinook salmon.

Final Publication: Hinrichsen, R.A., J.J. Anderson, G.M. Matthews, and C.C. Ebbesmeyer. 1998. Effects of the ocean and river environments on the survival of Snake River stream-type chinook salmon. In Plan for Analyzing and Testing Hypotheses (PATH): Retrospective and prospective analyses of spring/summer chinook reviewed in fiscal year 1997, ed. D.R. Marmorek, C.N. Peters, and I. Parnell. Vancouver, BC, Canada: ESSA Technologies Ltd.

1997. Testimony of James J. Anderson, Associate Professor, School of Fisheries, University of Washington, Seattle, Washington, before the U.S. House of Representatives Subcommittee on Water and Power in Lewiston, Idaho, May 31, 1997.

1997. Decadal Scale Climate Pattern and Salmon Survival: Indicators, Interactions and Implications.

Final Publication: Anderson, J.J. 1997. Decadal scale climate pattern and salmon survival: Indicators, interactions and implications. In Estuarine and Ocean Survival of Northeastern Pacific Salmon: Proceedings of the Workshop, March 20-22, 1996, Newport, Oregon, ed. R.L. Emmett and M.H. Schiewe. U.S. Dep. Commer., NOAA Tech. Memo. NMFS-NWFSC-29.

1997. A model of the travel time of migrating juvenile salmon, with an application to Snake River spring chinook.

Final Publication: Zabel, R.W. and J.J. Anderson. 1997. A model of the travel time of migrating juvenile salmon, with an application to Snake River spring chinook. North American Journal of Fisheries Management 17(1):93-100.

1996. Climate Indicators of Salmon Survival. Presented at the PICES meeting, October 18, 1996, Nanaimo, B.C.

1996. Columbia River Salmon Passage Model CRiSP.1.5 Theory, Calibration and Validation for SUNOS.

1996. Review of the Influence of Climate on Salmon.

Final Publication: Anderson, J.J. 1996. Review of the influence of climate on salmon. In Plan for Analyzing and Testing Hypotheses (PATH): Final report on retrospective analyses for fiscal year 1996, ed. D.R. Marmorek. Vancouver, B.C. : ESSA Technologies Ltd.

1996. Columbia River Salmon Passage Model CRiSP.1.5 User manual for SUNOS.

1995. Testimony presented before the Subcommittee on Water and Power of the US House of Representatives Committee on Resources. June 1995 Washington D.C.

1995. Analysis of Snake River Spill: Information based on the CRiSP research project. Testimony before the Subcommittee on Water and Power of the Senate Energy and Natural Resources Committee June 1995.

1995. Decline and Recovery of Snake River Salmon.

1995. Notes on Snake River Recovery Plan. Public Power Tour.

1994. Comparison of Mainstem Recovery Options Recover-1 and DFOP.

1992. Potential Impacts of Pile Driving on Juvenile Pink (Oncorhynchus gorbuscha) and Chum (O. keta) Salmon Behavior and Distribution.

Final Publication: Feist, B.E., J.J. Anderson, and R. Miyamoto. 1996. Potential Impacts of Pile Driving on Juvenile Pink (Oncorhynchus gorbuscha) and Chum (O. keta) Salmon Behavior and Distribution. FRI-UW-9603. Seattle, WA : Fisheries Research Institute, School of Fisheries, University of Washington.

1991. Analysis of Fish Response to Flows in the 1991 Pasco Flume Experiments.

1990. Assessment of the risk of pile driving to juvenile fish. Presented at the 15th Annual Meeting of Deep Foundations Institute, October 10-12, 1990, Seattle, WA.

1989. Measurement of Low Frequency Sound at Bonneville, McNary and Lower Granite Dams--1988.

Final Publication: Anderson, J.J., B.E. Feist, R.T. Miyamoto, and S.O. McConnell. 1989. Measurement of Low Frequency Sound at Bonneville, McNary and Lower Granite Dams--1988. FRI-UW-8906. Seattle, WA : Fisheries Research Institute, School of Fisheries, University of Washington.

W. Nicholas Beer

2011. Predicting and Monitoring Adult Spring Chinook Salmon Migration on the Columbia River in 2010. Report to Bonneville Power Administration, Division of Fish and Wildlife.

2010. Sensitivity of juvenile salmonid growth to future climate trends. Early view, article online in advance of print.

Final Publication: Beer, W.N. and J.J. Anderson. 2010. Sensitivity of juvenile salmonid growth to future climate trends. River Research and Applications.

2010. Predicting and Monitoring Adult Spring Chinook Salmon Migration on the Columbia River in 2009. Report to Bonneville Power Administration, Division of Fish and Wildlife.

2009. Oceanic, riverine, and genetic influences on spring chinook salmon migration timing. .

Final Publication: Anderson, J.J. and W.N. Beer. 2009. Oceanic, riverine, and genetic influences on spring chinook salmon migration timing. Ecological Applications 19(8):1989-2003.

2009. Predicting and Monitoring Spring Chinook Salmon Migrations on the Columbia River. Report to Bonneville Power Administration, Division of Fish and Wildlife.

2008. Stock Separation of Chinook salmon at Bonneville Dam for Adult Upstream Migration Model (2008). white paper.

2008. Comprehensive Passage (COMPASS) Model: a model of downstream migration and survival of juvenile salmonids through a hydropower system.

2007. Run timing of adult Chinook salmon passing Bonneville dam on the Columbia River. white paper.

2006. Evaluation of the 2005 Predictions of Run-size and Passage Distributions of Adult Chinook Salmon (Oncorhynchus tschawytscha) returning to the Columbia and Snake Rivers.

2006. Evaluation of the 2004 Predictions of Run-size and Passage Distributions of Adult Chinook Salmon (Oncorhynchus tschawytscha) returning to the Columbia and Snake Rivers.

2004. Evaluation of the 2003 Predictions of Run-size and Passage Distributions of Adult Chinook Salmon returning to the Columbia and Snake Rivers.

2004. Sensitivity of salmon survival to temperature in the mainstem Snake and Columbia Rivers. white paper.

2003. Exposure of migrating salmon populations in the Columbia/Snake River basins to environmental factors. white paper.

2003. Total Dissolved Gas submodel parameter calibration for use with CRiSP.

2001. Effect of spawning day and temperature on salmon emergence: interpretations of a growth model for Methow River chinook.

2000. Columbia River Salmon Passage Model CRiSP.1.6 Theory and Calibration.

1999. Evaluation of the 1998 Predictions of the Run-Timing of Wild Migrant Yearling Chinook and Water Quality at Multiple Locations on the Snake and Columbia Rivers using CRiSP/RealTime.

1999. Application of the Out-Migrant Survival Simulator using the SWARM modeling environment to study smolt-predator interactions: Modeling Support to Army Corps of Engineers Columbia River Fisheries Programs, DRAFT.

1999. Comparison of mechanistic and empirical methods for modeling embryo and alevin development in Chinook salmon.

Final Publication: Beer, W.N. 1999. Comparison of mechanistic and empirical methods for modeling embryo and alevin development in Chinook salmon. North American Journal of Aquaculture 61:126-134.

1998. Growth of Snake River chinook salmon, DRAFT.

1997. Modelling the Growth of Salmonid Embryos.

Final Publication: Beer, W.N. and J.J. Anderson. 1997. Modelling the Growth of Salmonid Embryos. Journal of Theoretical Biology 189(3): 297-306.

1996. A growth model for larval salmon with application to field and laboratory observations of chinook salmon. Thesis.

Final Publication: Beer, W.N. 1996. A growth model for larval salmon with application to field and laboratory observations of chinook salmon. Master of Science Thesis. University of Washington. Seattle, Washington.

Kevin W. Brinck

2002. Comparing methods for inferring site biological condition from a sample of site biota. Thesis.

Final Publication: Brinck, K.W. 2002. Comparing methods for inferring site biological condition from a sample of site biota. Master of Science Thesis. University of Washington. Seattle, Washington.

Rebecca A. Buchanan

2010. Using multistate mark-recapture methods to model adult salmonid migration in an industrialized river. .

Final Publication: Buchanan, R.A. and J.R. Skalski. 2010. Using multistate mark-recapture methods to model adult salmonid migration in an industrialized river. Ecological Modelling 221:582-589.

2010. Performance of Three Alternative Estimators of Stream Residence Time Based on Live and Dead Counts of Salmonids. .

Final Publication: Skalski, J.R., S. Liao and R.A. Buchanan. 2010. Performance of Three Alternative Estimators of Stream Residence Time Based on Live and Dead Counts of Salmonids. North American Journal of Fisheries Management 30(1):191-208.

2010. Evaluating Surrogacy of Hatchery Releases for the Performance of Wild Yearling Chinook Salmon from the Snake River Basin. .

Final Publication: Buchanan, R.A., J.R. Skalski and A.E. Giorgi. 2010. Evaluating Surrogacy of Hatchery Releases for the Performance of Wild Yearling Chinook Salmon from the Snake River Basin. North American Journal of Fisheries Management 30(5):1258–1269.

2009. A Multiple-Release Model to Estimate Route-Specific and Dam Passage Survival at a Hydroelectric Project. .

Final Publication: Skalski, J.R., R.A. Buchanan, R.L. Townsend, T.W. Steig, and S. Hemstrom. 2009. A Multiple-Release Model to Estimate Route-Specific and Dam Passage Survival at a Hydroelectric Project. North American Journal of Fisheries Management 29(3):670-679.

2009. Review of Marking Methods and Release-Recapture Designs for Estimating the Survival of Very Small Fish: Examples from the Assessment of Salmonid Fry Survival. .

Final Publication: Skalski, J.R., R.A. Buchanan, and J. Griswold. 2009. Review of Marking Methods and Release-Recapture Designs for Estimating the Survival of Very Small Fish: Examples from the Assessment of Salmonid Fry Survival. Reviews in Fisheries Science 17(3):391-401.

2007. A Migratory Life-Cycle Release-Recapture Model for Salmonid PIT-Tag Investigations. .

Final Publication: Buchanan, R.A. and J.R. Skalski. 2007. A Migratory Life-Cycle Release-Recapture Model for Salmonid PIT-Tag Investigations. Journal of Agricultural, Biological, and Environmental Statistics 12(3):325-345.

2006. Estimating the Effects of Smolt Transportation from Different Vantage Points and Management Perspectives. .

Final Publication: Buchanan, R.A., J.R. Skalski and S.G. Smith. 2006. Estimating the Effects of Smolt Transportation from Different Vantage Points and Management Perspectives. North American Journal of Fisheries Management 26:460-472.

Caitlin Burgess

2003. Monitoring and Evaluation of Smolt Migration in the Columbia Basin, Volume XI: Evaluation of the 2003 Predictions of the Run-Timing of Wild and Hatchery-Reared Migrant Salmon and Steelhead Trout migrating to Lower Granite, Rock Island, McNary, and John Day Dams using Program RealTime.

Final Publication: Burgess, C. and J.R. Skalski. 2003. Monitoring and Evaluation of Smolt Migration in the Columbia Basin, Volume XI: Evaluation of the 2003 Predictions of the Run-Timing of Wild and Hatchery-Reared Migrant Salmon and Steelhead Trout migrating to Lower Granite, Rock Island, McNary, and John Day Dams using Program RealTime. Technical Report DOE/BP-00004134-6. Portland, OR : Bonneville Power Administration.

2002. Monitoring and Evaluation of Smolt Migration in the Columbia Basin, Volume X: Evaluation of the 2002 Predictions of the Run-Timing of Wild and Hatchery-Reared Salmon and Steelhead Smolt to Lower Granite, Rock Island, McNary, and John Day Dams using Program RealTime.

Final Publication: Burgess, C. and J.R. Skalski. 2002. Monitoring and Evaluation of Smolt Migration in the Columbia Basin, Volume X: Evaluation of the 2002 Predictions of the Run-Timing of Wild and Hatchery-Reared Salmon and Steelhead Smolt to Lower Granite, Rock Island, McNary, and John Day Dams using Program RealTime. Technical Report DOE/BP-00004134-5. Portland, OR : Bonneville Power Administration.

2001. Monitoring and Evaluation of Smolt Migration in the Columbia Basin, Volume IX: Evaluation of the 2001 Predictions of the Run-Timing of Wild and Hatchery-Reared Migrant Salmon and Steelhead Trout migrating to Lower Granite, Rock Island, McNary, and John Day Dams using Program RealTime.

Final Publication: Burgess, C. and J.R. Skalski. 2001. Monitoring and Evaluation of Smolt Migration in the Columbia Basin, Volume IX: Evaluation of the 2001 Predictions of the Run-Timing of Wild and Hatchery-Reared Migrant Salmon and Steelhead Trout migrating to Lower Granite, Rock Island, McNary, and John Day Dams using Program RealTime. Technical Report DOE/BP-00004134-1. Portland, OR : Bonneville Power Administration.

2001. Monitoring and Evaluation of Smolt Migration in the Columbia Basin, Volume VI: Evaluation of the 2000 Predictions of the Run-Timing of Wild Migrant Chinook Salmon & Steelhead Trout, & Hatchery Sockeye Salmon in the Snake River Basin, & Combined Wild & Hatchery Salmonids migrating to Rock Island & McNary Dams Using Program RealTime.

Final Publication: Burgess, C. and J.R. Skalski. 2001. Monitoring and Evaluation of Smolt Migration in the Columbia Basin, Volume VI: Evaluation of the 2000 Predictions of the Run-Timing of Wild Migrant Chinook Salmon & Steelhead Trout, & Hatchery Sockeye Salmon in the Snake River Basin, & Combined Wild & Hatchery Salmonids migrating to Rock Island & McNary Dams Using Program RealTime. Technical Report DOE/BP-91572-5. Portland, OR : Bonneville Power Administration.

2000. Monitoring and Evaluation of Smolt Migration in the Columbia Basin, Volume V: Evaluation of the 1999 Predictions of the Run-Timing of Wild Migrant Yearling and Subyearling Chinook Salmon & Steelhead Trout, & Hatchery Sockeye Salmon in the Snake River Basin using Program RealTime.

Final Publication: Burgess, C. and J.R. Skalski. 2000. Monitoring and Evaluation of Smolt Migration in the Columbia Basin, Volume V: Evaluation of the 1999 Predictions of the Run-Timing of Wild Migrant Yearling and Subyearling Chinook Salmon & Steelhead Trout, & Hatchery Sockeye Salmon in the Snake River Basin using Program RealTime. Technical Report DOE/BP-91572-4. Portland, OR : Bonneville Power Administration.

1999. Monitoring and Evaluation of Smolt Migration in the Columbia Basin, Volume IV: Evaluation of the 1998 Predictions of the Run-Timing of Wild Migrant Yearling and Subyearling Chinook and Steelhead, and Hatchery Sockeye in the Snake River Basin using Program RealTime.

Final Publication: Burgess, C., R.L. Townsend, and J.R. Skalski. 1999. Monitoring and Evaluation of Smolt Migration in the Columbia Basin, Volume IV: Evaluation of the 1998 Predictions of the Run-Timing of Wild Migrant Yearling and Subyearling Chinook and Steelhead, and Hatchery Sockeye in the Snake River Basin using Program RealTime. Technical Report DOE/BP-91572-7. Portland, OR : Bonneville Power Administration.

Molly M. Cobleigh

2008. Linking growth, survival and heterogeneity through vitality.

Final Publication: Anderson, J. J., M. C. Gildea, D. W. Williams, and T. Li. 2008. Linking growth, survival and heterogeneity through vitality. American Naturalist 171: E20-E43.

2003. Stress, Growth and Survival of Juvenile Chinook Salmon. Thesis.

Final Publication: Cobleigh, M.M. 2003. Stress, Growth and Survival of Juvenile Chinook Salmon. Master of Science Thesis. University of Washington. Seattle, Washington.

Blake E. Feist

1992. Potential Impacts of Pile Driving on Juvenile Pink (Oncorhynchus gorbuscha) and Chum (O. keta) Salmon Behavior and Distribution.

1991. Potential Impacts of Pile Driving on Juvenile Pink (Oncorhynchus gorbuscha) and Chum (O. keta) Salmon Behavior and Distribution. Thesis.

Final Publication: Feist, B.E. 1991. Potential Impacts of Pile Driving on Juvenile Pink (Oncorhynchus gorbuscha) and Chum (O. keta) Salmon Behavior and Distribution. Master of Science Thesis. University of Washington. Seattle, Washington.

1989. Measurement of Low Frequency Sound at Bonneville, McNary and Lower Granite Dams--1988.

Troy Frever

2000. Columbia River Salmon Passage Model CRiSP.1.6 Theory and Calibration.

1999. Coast Model Documentation Manual. Prepared for U.S. Dept. of Commerce, NOAA, NMFS, NWFSC.

Jim Griswold

2007. Monitoring and Evaluation of Smolt Migration in the Columbia Basin, Volume XIV; Evaluation of 2006 Predictions of the Run-Timing of Wild and Hatchery-Reared Salmon and Steelhead Smolt at Rock Island, Lower Granite, McNary, John Day and Bonneville Dams using Program Real Time.

Final Publication: Griswold, J., R.L. Townsend and J.R. Skalski. 2007. Monitoring and Evaluation of Smolt Migration in the Columbia Basin, Volume XIV; Evaluation of 2006 Predictions of the Run-Timing of Wild and Hatchery-Reared Salmon and Steelhead Smolt at Rock Island, Lower Granite, McNary, John Day and Bonneville Dams using Program Real Time. Technical Report DOE/BP-00025093-2. Portland, OR : Bonneville Power Administration.

2006. Design and Analysis of Salmonid Tagging Studies in the Columbia Basin, Volume XXI: A Summary of Methods for Conducting Salmonid Fry Mark-Recapture Studies for Estimating Survival in Tributaries.

Final Publication: Skalski, J.R. and Jim Griswold "Design and Analysis of Salmonid Tagging Studies in the Columbia Basin, Volume XXI; A Summary of Methods for Conducting Salmonid Fry Mark-Recapture Studies for Estimating Survival in Tributaries", 2005-2006 Technical Report, Project No. 198910700, 50 electronic pages, (BPA Report DOE/BP-00025091-2).

2006. Monitoring and Evaluation of Smolt Migration in the Columbia Basin, Volume XIII: Evaluation of the 2005 Predictions of the Run-Timing of Wild and Hatchery-Reared Migrant Salmon and Steelhead Trout migrating to Lower Granite, Rock Island, McNary, John Day, and Bonneville Dams using Program RealTime.

Final Publication: Griswold, J., R.L. Townsend and J.R. Skalski. 2006. Monitoring and Evaluation of Smolt Migration in the Columbia Basin, Volume XIII: Evaluation of the 2005 Predictions of the Run-Timing of Wild and Hatchery-Reared Migrant Salmon and Steelhead Trout migrating to Lower Granite, Rock Island, McNary, John Day, and Bonneville Dams using Program RealTime. Technical Report DOE/BP-00013690-5. Portland, OR : Bonneville Power Administration.

2005. Monitoring and Evaluation of Smolt Migration in the Columbia Basin, Volume XII: Evaluation of the 2004 Predictions of the Run-Timing of Wild and Hatchery-Reared Migrant Salmon and Steelhead Trout migrating to Lower Granite, Rock Island, McNary, John Day, and Bonneville Dams using Program RealTime.

Final Publication: Griswold, J., R.L. Townsend and J.R. Skalski. 2005. Monitoring and Evaluation of Smolt Migration in the Columbia Basin, Volume XII: Evaluation of the 2004 Predictions of the Run-Timing of Wild and Hatchery-Reared Migrant Salmon and Steelhead Trout migrating to Lower Granite, Rock Island, McNary, John Day, and Bonneville Dams using Program RealTime. Technical Report DOE/BP-00013690-4. Portland, OR : Bonneville Power Administration.

Eliezer Gurarie

2008. Models and analysis of animal movements: From individual tracks to mass dispersal. Dissertation.

Final Publication: Gurarie, E. 2008. Models and analysis of animal movements: From individual tracks to mass dispersal. Ph.D. diss., University of Washington, Seattle.

2006. Preliminary analysis of hydroacoustically tagged salmon smolt survival and migration rates in the mid-Columbia River.

2005. Mean free-path length theory of predator-prey interactions: Application to juvenile salmon migration. Abstract.

Owen S. Hamel

2002. Relationship between antigen concentration and bacterial load in Pacific salmon with bacterial kidney disease.

2001. The Dynamics and Effects of Bacterial Kidney Disease in Snake River Spring Chinook Salmon (Oncorhynchus tshawytscha). Dissertation.

Final Publication: Hamel, O.S. 2001. The Dynamics and Effects of Bacterial Kidney Disease in Snake River Spring Chinook Salmon (Oncorhynchus tshawyscha). Ph.D. diss., Quantitative Ecology and Resource Management, University of Washington, Seattle.

Joshua A. Hayes

2000. Columbia River Salmon Passage Model CRiSP.1.6 Theory and Calibration.

1999. Evaluation of the 1998 Predictions of the Run-Timing of Wild Migrant Yearling Chinook and Water Quality at Multiple Locations on the Snake and Columbia Rivers using CRiSP/RealTime.

1997. Analysis of reported release and collection results from Cramer (1996) in comparison to CRiSP v1.5.3.

1996. CRiSP validation against preliminary 1996 NMFS survival results. Memo to William Stelle, NMFS.

1996. Columbia River Salmon Passage Model CRiSP.1.5 Theory, Calibration and Validation for SUNOS.

1996. Columbia River Salmon Passage Model CRiSP.1.5 User manual for SUNOS.

Richard A. Hinrichsen

2000. Effects of Flow Augmentation on Snake River Fall Chinook. Report to the Committee of Nine and the Idaho Water Users Association.

1997. Effects of the ocean and river environments on the survival of Snake River stream-type chinook salmon.

1996. Climate Indicators of Salmon Survival. Presented at the PICES meeting, October 18, 1996, Nanaimo, B.C.

1994. Optimization Models For Understanding Migration Patterns of Juvenile Chinook Salmon. Dissertation.

Final Publication: Hinrichsen, R.A. 1994. Optimization Models For Understanding Migration Patterns of Juvenile Chinook Salmon. Ph.D. diss., University of Washington, Seattle.

Saang-Yoon Hyun

2005. A statistical model for in-season forecasts of sockeye salmon (Oncorhynchus nerka) returns to the Bristol Bay districts of Alaska. Abstract.

2002. Inseason Forecasts of Sockeye Salmon Returns to the Bristol Bay Districts of Alaska. Dissertation.

Final Publication: Hyun, S. 2002. Inseason Forecasts of Sockeye Salmon Returns to the Bristol Bay Districts of Alaska. Ph.D. diss., Quantitative Ecology and Resource Management, University of Washington, Seattle.

Susannah Iltis

2008. Comprehensive Passage (COMPASS) Model: a model of downstream migration and survival of juvenile salmonids through a hydropower system.

2006. Evaluation of the 2005 Predictions of Run-size and Passage Distributions of Adult Chinook Salmon (Oncorhynchus tschawytscha) returning to the Columbia and Snake Rivers.

2006. Evaluation of the 2004 Predictions of Run-size and Passage Distributions of Adult Chinook Salmon (Oncorhynchus tschawytscha) returning to the Columbia and Snake Rivers.

2004. Evaluation of the 2003 Predictions of Run-size and Passage Distributions of Adult Chinook Salmon returning to the Columbia and Snake Rivers.

2003. Exposure of migrating salmon populations in the Columbia/Snake River basins to environmental factors. white paper.

2000. Columbia River Salmon Passage Model CRiSP.1.6 Theory and Calibration.

1999. Coast Model Documentation Manual. Prepared for U.S. Dept. of Commerce, NOAA, NMFS, NWFSC.

Jared Krinke

2008. Comprehensive Passage (COMPASS) Model: a model of downstream migration and survival of juvenile salmonids through a hydropower system.

Steven Kropp

1999. Optimization of Spill for Reduction of Dam and Reservoir Mortality in CRiSP: Modeling Support to Army Corps of Engineers Columbia River Fisheries Programs, DRAFT.

James M. Lady

1998. Estimators of stream residence time of Pacific salmon (Oncorhynchus spp.) based on release-recapture data.

Final Publication: Lady, J.M. and J.R. Skalski. 1998. Estimators of stream residence time of Pacific salmon (Oncorhynchus spp.) based on release-recapture data. Can. J. Fish. Aquat. Sci. 55(12): 2580-2587.

Ting Li

2011. Visualize the Intrinsic and Extrinsic Processes that Determine the Patterns of Human Mortality. Dissertation.

Final Publication: Li, T. 2011. Visualize the Intrinsic and Extrinsic Processes that Determine the Patterns of Human Mortality. Ph.D. diss., Quantitative Ecology and Resource Management, University of Washington, Seattle.

2008. Linking growth, survival and heterogeneity through vitality.

Final Publication: Anderson, J. J., M. C. Gildea, D. W. Williams, and T. Li. 2008. Linking growth, survival and heterogeneity through vitality. American Naturalist 171: E20-E43.

2008. Extension of the Vitality Model and Its Application. Thesis.

Final Publication: Li, Ting 2008. Extension of the Vitality Model and Its Application. Master of Science Thesis. University of Washington. Seattle, Washington.

Alan B. Lowther

1997. Design and analysis of salmonid tagging studies in the Columbia Basin, Volume VIII: A new model for estimating survival probabilities and residualization from a release-recapture study of fall chinook salmon (Oncorhynchus tschawytscha) smolts in the Snake River.

Final Publication: Lowther, A.B. and J.R. Skalski. 1997. Design and analysis of salmonid tagging studies in the Columbia Basin, Volume VIII: A new model for estimating survival probabilities and residualization from a release-recapture study of fall chinook salmon (Oncorhynchus tschawytscha) smolts in the Snake River. Technical Report DOE/BP-02341-6. Portland, OR : Bonneville Power Administration.

1996. Design and Analysis of Salmonid Tagging Studies in the Columbia Basin, Volume VII: Monte-Carlo Comparison of Confidence Interval Procedures for Estimating Survival in a Release-Recapture Study, with Applications to Snake River Salmonids.

Final Publication: Lowther, A.B. and J.R. Skalski. 1996. Design and Analysis of Salmonid Tagging Studies in the Columbia Basin, Volume VII: Monte-Carlo Comparison of Confidence Interval Procedures for Estimating Survival in a Release-Recapture Study, with Applications to Snake River Salmonids. Technical Report DOE/BP-02341-5. Portland, OR : Bonneville Power Administration.

Matthew P. Moore

2000. Columbia River Salmon Passage Model CRiSP.1.6 Theory and Calibration.

Roger F. Ngouenet

2002. Monitoring and Evaluation of Smolt Migration in the Columbia Basin, Volume VIII: Comparison of the RPA testing rules provided in the 2000 Federal Columbia River Power System (FCRPS) Biological Opinion with new test criteria designed to improve the statistical power of the biological assessments.

Final Publication: Skalski, J.R and R.F. Ngouenet. 2002. Monitoring and Evaluation of Smolt Migration in the Columbia Basin, Volume VIII: Comparison of the RPA testing rules provided in the 2000 Federal Columbia River Power System (FCRPS) Biological Opinion with new test criteria designed to improve the statistical power of the biological assessments. Technical Report DOE/BP-00004134-3. Portland, OR : Bonneville Power Administration.

2001. Monitoring and Evaluation of Smolt Migration in the Columbia Basin, Volume VII: Evaluation of the compliance testing framework for RPA improvement as stated in the 2000 Federal Columbia River Power System (FCRPS) Biological Opinion.

Final Publication: Skalski, J.R and R.F. Ngouenet. 2001. Monitoring and Evaluation of Smolt Migration in the Columbia Basin, Volume VII: Evaluation of the compliance testing framework for RPA improvement as stated in the 2000 Federal Columbia River Power System (FCRPS) Biological Opinion. Technical Report DOE/BP-00004134-2. Portland, OR : Bonneville Power Administration.

James G. Norris

2000. Defining equivalent exploitation rate reduction policies for endangered salmon stocks.

Final Publication: Norris, J.G. 2000. Defining equivalent exploitation rate reduction policies for endangered salmon stocks. In Sustainable Fisheries Management: Pacific Salmon, ed. E.E. Knudsen et al., 451-466. New York : CRC Press LLC.

1999. Coast Model Documentation Manual. Prepared for U.S. Dept. of Commerce, NOAA, NMFS, NWFSC.

1997. Chinook Salmon Harvesting Model CRiSP Harvest Manual.

1997. Review of Salmon Management Model Migration Algorithms DRAFT.

1994. The Merging of Empirical and Modeling Research: Columbia River Models and Beyond. Presented at the 75th Anniversary Celebration, School of Fisheries, University of Washington, Seattle, WA.

NA. A Simple Spreadsheet Model For Evaluating Recovery Strategies For Snake River Fall Chinook Salmon.

Kristen E. Ryding

1999. Multivariate regression relationships between ocean conditions and early marine survival of coho salmon (Oncorhynchus kisutch). .

Final Publication: Ryding, K.E. and J.R. Skalski. 1999. Multivariate regression relationships between ocean conditions and early marine survival of coho salmon (Oncorhynchus kisutch). Canadian Journal of Fisheries and Aquatic Sciences 56(12): 2374-2384.

1996. Evaluation of the 1995 Predictions of the Run-Timing of Wild Migrant Yearling Chinook in the Snake River Basin using Program RealTime.

Final Publication: Townsend, R.L., P. Westhagen, D. Yasuda, J.R. Skalski, and K. Ryding. 1996. Evaluation of the 1995 Predictions of the Run-Timing of Wild Migrant Yearling Chinook in the Snake River Basin using Program RealTime. Technical Report DOE/BP-35885-9. Portland, OR : Bonneville Power Administration.

David H. Salinger

2006. Evaluation of the 2004 Predictions of Run-size and Passage Distributions of Adult Chinook Salmon (Oncorhynchus tschawytscha) returning to the Columbia and Snake Rivers.

2006. Effects of Water Temperature and Flow on Adult Salmon Migration Swim Speed and Delay. Abstract.

2004. Evaluation of the 2003 Predictions of Run-size and Passage Distributions of Adult Chinook Salmon returning to the Columbia and Snake Rivers.

2004. Effects of water temperature on adult salmon migration swim speed. Abstract.

2003. A parameter estimation routine for the vitality-based survival model. Abstract.

Final Publication: Salinger, D.H., J.J. Anderson, and O.S. Hamel. 2003. A parameter estimation routine for the vitality-based survival model. Ecological Modelling 166(3): 287-294.

2003. Dynamic splitting: An algorithm for deterministic and stochastic multiperiod optimization. Abstract.

Final Publication: Salinger, D.H., and R.T. Rockafellar. 2003. Dynamic splitting: An algorithm for deterministic and stochastic multiperiod optimization. Stochastic Programming E-Print Series 6.

2000. Columbia River Salmon Passage Model CRiSP.1.6 Theory and Calibration.

1997. A Splitting Algorithm for Multistage Stochastic Programming with Application to Hydropower Scheduling. Dissertation.

Final Publication: Salinger, D.H. 1997. A Splitting Algorithm for Multistage Stochastic Programming with Application to Hydropower Scheduling. Ph.D. diss., University of Washington, Seattle.

Pamela Shaw

2000. Columbia River Salmon Passage Model CRiSP.1.6 Theory and Calibration.

1999. Evaluation of the 1998 Predictions of the Run-Timing of Wild Migrant Yearling Chinook and Water Quality at Multiple Locations on the Snake and Columbia Rivers using CRiSP/RealTime.

1998. A multiple reach model to describe the migratory behavior of Snake River yearling chinook salmon (Oncorhynchus tshawytscha).

1997. Gas Saturation and Sensitivity Analysis Using CRiSP.

1996. Columbia River Salmon Passage Model CRiSP.1.5 Theory, Calibration and Validation for SUNOS.

1996. Realtime Temperature Predictions.

John R. Skalski

2012. Assessing compliance with fish survival standards: a case study at Rock Island Dam, Washington. .

Final Publication: Skalski, J.R., T.W. Steig and S. Hemstrom. 2012. Assessing compliance with fish survival standards: a case study at Rock Island Dam, Washington. Environmental Science & Policy 18:45-51.

2011. Survival of Juvenile Chinook Salmon during Barge Transport. .

Final Publication: McMichael, G.A., J.R. Skalski and K.A. Deters. 2011. Survival of Juvenile Chinook Salmon during Barge Transport. North American Journal of Fisheries Management 31(6):1187-1196.

2010. Comparison of Two Alternative Approaches for Estimating Dam Passage Survival of Salmon Smolts. .

Final Publication: Skalski, J.R., R.L. Townsend, T.W. Steig and S. Hemstrom. 2010. Comparison of Two Alternative Approaches for Estimating Dam Passage Survival of Salmon Smolts. North American Journal of Fisheries Management 30(3):831-839.

2010. Using multistate mark-recapture methods to model adult salmonid migration in an industrialized river. .

Final Publication: Buchanan, R.A. and J.R. Skalski. 2010. Using multistate mark-recapture methods to model adult salmonid migration in an industrialized river. Ecological Modelling 221:582-589.

2010. Performance of Three Alternative Estimators of Stream Residence Time Based on Live and Dead Counts of Salmonids. .

2010. Monitoring and Evaluation of Smolt Migration in the Columbia Basin, Volume XIX: Evaluation of the 2009 Predictions of the Run-Timing of Wild and Hatchery-Reared Migrant Salmon and Steelhead Smolts to Rock Island, Lower Granite, McNary, John Day, and Bonneville Dams using Program RealTime.

Final Publication: Townsend, R.L., P. Westhagen and J.R. Skalski. 2010. Monitoring and Evaluation of Smolt Migration in the Columbia Basin, Volume XIX: Evaluation of the 2009 Predictions of the Run-Timing of Wild and Hatchery-Reared Migrant Salmon and Steelhead Smolts to Rock Island, Lower Granite, McNary, John Day, and Bonneville Dams using Program RealTime. Technical Report P115115. Portland, OR : Bonneville Power Administration.

2010. Evaluating Surrogacy of Hatchery Releases for the Performance of Wild Yearling Chinook Salmon from the Snake River Basin. .

2009. Design and Analysis of Salmonid Tagging Studies in the Columbia Basin, Volume XXIV: A Statistical Critique of Estimating Salmon Escapement in the Pacific Northwest. BPA P112130.

2009. Design and Analysis of Salmonid Tagging Studies in the Columbia Basin, Volume XXV: A Bibliography of Literature on Estimating Salmon Escapement with Focus on the Pacific Northwest.

2009. A Multiple-Release Model to Estimate Route-Specific and Dam Passage Survival at a Hydroelectric Project. .

2009. Review of Marking Methods and Release-Recapture Designs for Estimating the Survival of Very Small Fish: Examples from the Assessment of Salmonid Fry Survival. .

2008. Design and Analysis of Salmonid Tagging Studies in the Columbia Basin, Volume XXIII: Effects of Array Configuration on Statistical Independence of Replicated Telemetry Arrays used in Smolt Survival Studies.

2008. Design and Analysis of Salmonid Tagging Studies in the Columbia Basin, Volume XXII: Evaluating Wetland Restoration Projects in the Columbia River Estuary using Hydroacoustic Telemetry Arrays to Estimate Movement, Survival, and Residence Times of Juvenile Salmonids.

Final Publication: Perry, R.W. and J.R. Skalski. "Design and Analysis of Salmonid Tagging Studies in the Columbia Basin, Volume XXII; Evaluating Wetland Restoration Projects in the Columbia River Estuary using Hydroacoustic Telemetry Arrays to Estimate Movement, Survival, and Residence Times of Juvenile Salmonids", Technical Report, Project No. 198910700, 24 electronic pages, (BPA Report DOE/BP-P107849).

2007. A Migratory Life-Cycle Release-Recapture Model for Salmonid PIT-Tag Investigations. .

2006. Correcting Bias in Survival Estimation Resulting From Tag Failure in Acoustic and Radiotelemetry Studies. .

Final Publication: Townsend, R.L., J.R. Skalski, P. Dillingham and T.W. Steig. 2006. Correcting bias in survival estimation resulting from tag failure in acoustic and radiotelemetry studies . Journal of Agricultural, Biological, and Environmental Statistics 11(2):183-196.

2006. Estimating the Effects of Smolt Transportation from Different Vantage Points and Management Perspectives. .

2006. Design and Analysis of Salmonid Tagging Studies in the Columbia Basin, Volume XX: Evaluation and Recommendations on Alternative Hydroacoustic Array Deployments for the Mouth of the Columbia River to Provide Estimates of Salmonid Smolt Survival and Movements.

Final Publication: Skalski, J.R. "Design and Analysis of Salmonid Tagging Studies in the Columbia Basin, Volume XX; Evaluation and Recommendations on Alternative Hydroacoustic Array Deployments for the Mouth of the Columbia River to Provide Estimates of Salmonid Smolt Survival and Movements", 2006 Technical Report, Project No. 198910700, 38 electronic pages, (BPA Report DOE/BP-00025091-1).

2005. Guidelines and Suggested Protocols for Conducting, Analyzing, and Reporting Juvenile Salmonid Survival Studies in the Columbia River Basin. white paper.

2003. Statistical Framework for Monitoring Basal Area Coverage of Eelgrass in Puget Sound. To: Nearshore Habitat Program, Aquatic Resources Division, Department of Natural Resources, State of Washington.

2002. Effects of Turbine Operating Efficiency on Smolt Passage Survival. .

Final Publication: Skalski, J.R., D. Mathur, and P.G. Heisey. 2002. Effects of Turbine Operating Efficiency on Smolt Passage Survival. North American Journal of Fisheries Management 22(4):1193-1200.

2002. Factors Associated with Travel Time and Survival of Migrant Yearling Chinook Salmon and Steelhead in the Lower Snake River. .

Final Publication: Smith, S.G., W.D. Muir, J.G. Williams, and J.R. Skalski. 2002. Factors Associated with Travel Time and Survival of Migrant Yearling Chinook Salmon and Steelhead in the Lower Snake River. North American Journal of Fisheries Management 22:385-405.

1999. Multivariate regression relationships between ocean conditions and early marine survival of coho salmon (Oncorhynchus kisutch). .

1999. Monitoring and Evaluation of Smolt Migration in the Columbia Basin, Volume III: Evaluation of the 1997 predictions of run-timing of wild migrant yearling and subyearling chinook and sockeye in the Snake River Basin using program RealTime.

Final Publication: Townsend, R.L., J.R. Skalski, and D. Yasuda. 1999. Monitoring and Evaluation of Smolt Migration in the Columbia Basin, Volume III: Evaluation of the 1997 predictions of run-timing of wild migrant yearling and subyearling chinook and sockeye in the Snake River Basin using program RealTime. Technical Report DOE/BP-91572-6. Portland, OR : Bonneville Power Administration.

1999. Statistical Sampling Plan for the 1999 Lower Granite Dam Hydroacoustic Studies. To: U.S. Army Corps of Engineers and Battelle Pacific Northwest Laboratories, 3110 Port of Benton Boulevard, Richland, WA 99352.

1998. Estimators of stream residence time of Pacific salmon (Oncorhynchus spp.) based on release-recapture data.

1998. Use of passive integrated transponder tags to estimate survival of migrant juvenile salmonids in the Snake and Columbia rivers. .

Final Publication: Skalski, J.R., S.G. Smith, R.N. Iwamoto, J.G. Williams, and A. Hoffmann. 1998. Use of passive integrated transponder tags to estimate survival of migrant juvenile salmonids in the Snake and Columbia rivers. Canadian Journal of Fisheries and Aquatic Sciences 55(6): 1484-1493.

1997. Design and Analysis of Salmonid Tagging Studies in the Columbia Basin, Volume IX: A Comparison of Statistical Methods of Estimating Treatment-Control Ratios (Transportation Benefit Ratios) Based on Spring Chinook Salmon on the Columbia River, 1986-1988.

Final Publication: Townsend, R.L. and J.R. Skalski. 2000. Design and Analysis of Salmonid Tagging Studies in the Columbia Basin, Volume IX: A Comparison of Statistical Methods of Estimating Treatment-Control Ratios (Transportation Benefit Ratios) Based on Spring Chinook Salmon on the Columbia River, 1986-1988. Technical Report DOE/BP-02341-11. Portland, OR : Bonneville Power Administration.

1997. Monitoring and Evaluation of Smolt Migration in the Columbia Basin, Volume II: Evaluation of the 1996 Predictions of the Run-Timing of Wild Migrant Yearling Chinook in the Snake River Basin using Program RealTime.

Final Publication: Townsend, R.L., J.R. Skalski, and D. Yasuda. 1998. Monitoring and Evaluation of Smolt Migration in the Columbia Basin, Volume II: Evaluation of the 1996 Predictions of the Run-Timing of Wild Migrant Yearling Chinook in the Snake River Basin using Program RealTime. Technical Report DOE/BP-91572-2. Portland, OR : Bonneville Power Administration.

1997. Evaluation of the 1996 Predictions of the Run-Timing of Wild Migrant Yearling Chinook in the Snake River Basin using Program RealTime.

Final Publication: Townsend, R.L., J.R. Skalski, and D. Yasuda. 1997. Evaluation of the 1996 Predictions of the Run-Timing of Wild Migrant Yearling Chinook in the Snake River Basin using Program RealTime. Technical Report DOE/BP-91572-1. Portland, OR : Bonneville Power Administration.

1996. Monitoring and evaluation of smolt migration in the Columbia River Basin, Volume I: Evaluation of the 1995 Predictions of the Run-Timing of Wild Migrant Subyearling Fall Chinook in the Snake River Basin using Program RealTime.

Final Publication: Townsend, R.L., J.R. Skalski, and D. Yasuda. 1997. Monitoring and evaluation of smolt migration in the Columbia River Basin, Volume I: Evaluation of the 1995 Predictions of the Run-Timing of Wild Migrant Subyearling Fall Chinook in the Snake River Basin using Program RealTime. Technical Report DOE/BP-35885-12. Portland, OR : Bonneville Power Administration.

1996. Evaluation of the 1995 Predictions of the Run-Timing of Wild Migrant Yearling Chinook in the Snake River Basin using Program RealTime.

. Quantitative Assessment of Salmonid Escapement Techniques in the Pacific Northwest. accepted Reviews in Fisheries Sciences.

E. Ashley Steel

2001. A comparison of methods for measuring visual water clarity, DRAFT.

Final Publication: Steel, E.A., and S. Neuhausser. 2002. Comparison of methods for measuring visual water clarity. Journal of the North American Benthological Society 21(2): 326-335.

2001. Modeling Juvenile Salmon Migration Using a Simple Markov Chain, DRAFT.

1999. In-stream factors affecting juvenile salmonid migration, DRAFT. Dissertation.

Final Publication: Steel, E. Ashley. 1999. In-stream factors affecting juvenile salmonid migration. Ph.D. diss., Quantitative Ecology and Resource Management, University of Washington, Seattle.

Abran M. Steele-Feldman

2006. Learning and animal behavior: exploring the dynamics of simple models. Thesis.

Final Publication: Steele-Feldman, A.M. 2006. Learning and animal behavior: exploring the dynamics of simple models. Master of Science Thesis. University of Washington. Seattle, Washington.

Richard L. Townsend

2010. Comparison of Two Alternative Approaches for Estimating Dam Passage Survival of Salmon Smolts. .

2006. Correcting Bias in Survival Estimation Resulting From Tag Failure in Acoustic and Radiotelemetry Studies. .

1997. Evaluation of the 1996 Predictions of the Run-Timing of Wild Migrant Yearling Chinook in the Snake River Basin using Program RealTime.

1996. Evaluation of the 1995 Predictions of the Run-Timing of Wild Migrant Yearling Chinook in the Snake River Basin using Program RealTime.

1995. Evaluation of the 1994 Predictions of the Run-Timing of Wild Migrant Yearling Chinook in the Snake River Basin.

Final Publication: Townsend, R.L., P. Westhagen, and D. Yasuda. 1995. Evaluation of the 1994 Predictions of the Run-Timing of Wild Migrant Yearling Chinook in the Snake River Basin. Technical Report DOE/BP-D35885-8. Portland, OR : Bonneville Power Administration.

Chris Van Holmes

2008. Comprehensive Passage (COMPASS) Model: a model of downstream migration and survival of juvenile salmonids through a hydropower system.

2004. Predicted Fall Chinook Survival and Passage Timing Under BiOp and Alternative Summer Spill Programs Using the Columbia River Salmon Passage Model. white paper.

2003. Predicted Fall Chinook Survival and Passage Timing Under BiOp and Alternative Summer Spill Programs Using CRiSP. white paper.

2003. An analysis of smolt survival with implications to flow management.

2000. Columbia River Salmon Passage Model CRiSP.1.6 Theory and Calibration.

2000. Effects of Flow Augmentation on Snake River Fall Chinook. Report to the Committee of Nine and the Idaho Water Users Association.

Peter Westhagen

1996. Evaluation of the 1995 Predictions of the Run-Timing of Wild Migrant Yearling Chinook in the Snake River Basin using Program RealTime.

1995. Evaluation of the 1994 Predictions of the Run-Timing of Wild Migrant Yearling Chinook in the Snake River Basin.

Paula White

1996. Application of a Computer Model to the Sacramento River and Major Tributaries in Regard to Chinook Salmon (Oncorhynchus tshawytscha) Juvenile Migration.

Daniel Widener

2012. Migration and bioenergetics of juvenile Snake River fall Chinook salmon. Thesis.

Final Publication: Widener, D. 2012. Migration and bioenergetics of juvenile Snake River fall Chinook salmon. Master of Science Thesis. University of Washington. Seattle, Washington.

Drew W. Williams

2008. Linking growth, survival and heterogeneity through vitality.

Final Publication: Anderson, J. J., M. C. Gildea, D. W. Williams, and T. Li. 2008. Linking growth, survival and heterogeneity through vitality. American Naturalist 171: E20-E43.

Dean Yasuda

1997. Evaluation of the 1996 Predictions of the Run-Timing of Wild Migrant Yearling Chinook in the Snake River Basin using Program RealTime.

1996. Evaluation of the 1995 Predictions of the Run-Timing of Wild Migrant Yearling Chinook in the Snake River Basin using Program RealTime.

1995. Evaluation of the 1994 Predictions of the Run-Timing of Wild Migrant Yearling Chinook in the Snake River Basin.

Richard W. Zabel

2000. Columbia River Salmon Passage Model CRiSP.1.6 Theory and Calibration.

1999. Evaluation of the 1998 Predictions of the Run-Timing of Wild Migrant Yearling Chinook and Water Quality at Multiple Locations on the Snake and Columbia Rivers using CRiSP/RealTime.

1998. A multiple reach model to describe the migratory behavior of Snake River yearling chinook salmon (Oncorhynchus tshawytscha).

1997. A model of the travel time of migrating juvenile salmon, with an application to Snake River spring chinook.

1996. Snake River yearling chinook travel time estimation. Memo to William Stelle, NMFS.

1996. Columbia River Salmon Passage Model CRiSP.1.5 Theory, Calibration and Validation for SUNOS.

1996. Columbia River Salmon Passage Model CRiSP.1.5 User manual for SUNOS.

1994. Spatial and Temporal Models of Migrating Juvenile Salmon with Applications. Dissertation.

Final Publication: Zabel, R.W. 1994. Spatial and Temporal Models of Migrating Juvenile Salmon with Applications. Ph.D. diss., University of Washington, Seattle.

Please direct questions or comments to:
web@cbr.washington.edu
Columbia Basin Research,
School of Aquatic & Fishery Sciences,
University of Washington
Thursday, 26-Apr-2012 14:36:49 PDT