Publications and Papers

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Beer WN, Iltis S, VanHolmes C, Anderson JJ. 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. [Internet]. 2000 . Available from: sites/default/files/papers/PO.99.pdf
Burgess C, Skalski JR. 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. Monitoring and Evaluation of Smolt Migration in the Columbia Basin [Internet]. 2000 ;V. Available from: http://pisces.bpa.gov/release/documents/documentviewer.aspx?doc=91572-4
Beer WN, Hayes JA, Shaw P, Zabel RW, Anderson JJ. 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. [Internet]. 1999 . Available from: http://pisces.bpa.gov/release/documents/documentviewer.aspx?doc=02347-1
Burgess C, Townsend RL, Skalski JR. 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. Monitoring and Evaluation of Smolt Migration in the Columbia Basin [Internet]. 1999 ;IV. Available from: http://pisces.bpa.gov/release/documents/documentviewer.aspx?doc=91572-7
Townsend RL, Skalski JR, Yasuda D. 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. Monitoring and Evaluation of Smolt Migration in the Columbia Basin [Internet]. 1999 ;III. Available from: http://pisces.bpa.gov/release/documents/documentviewer.aspx?doc=91572-6
Hayes JA, Zabel RW, Shaw P, Anderson JJ. Evaluation of the 1996 Predictions of the Run-Timing of Wild Migrant Yearling Chinook at Multiple Locations in the Snake and Columbia River Basins using CRiSP/RealTime. [Internet]. 1996 . Available from: http://pisces.bpa.gov/release/documents/documentviewer.aspx?doc=P104650
Townsend RL, Skalski JR, Yasuda D. Evaluation of the 1996 Predictions of the Run-Timing of Wild Migrant Spring/Summer Yearling Chinook in the Snake River Basin using Program RealTime. [Internet]. 1997 . Available from: http://pisces.bpa.gov/release/documents/documentviewer.aspx?doc=91572-1
Townsend RL, Skalski JR, Yasuda D. Evaluation of the 1996 Predictions of the Run-Timing of Wild Migrant Subyearling Chinook in the Snake River Basin using Program RealTime. Monitoring and Evaluation of Smolt Migration in the Columbia Basin [Internet]. 1997 ;II. Available from: http://pisces.bpa.gov/release/documents/documentviewer.aspx?doc=91572-2
Townsend RL, Westhagen P, Yasuda D, Skalski JR, Ryding KE. Evaluation of the 1995 Predictions of the Run-Timing of Wild Migrant Yearling Chinook in the Snake River Basin using Program RealTime. [Internet]. 1996 . Available from: http://pisces.bpa.gov/release/documents/documentviewer.aspx?doc=35885-9
Townsend RL, Skalski JR, Yasuda D. Evaluation of the 1995 Predictions of the Run-Timing of Wild Migrant Subyearling Fall Chinook in the Snake River Basin using Program RealTime. Monitoring and Evaluation of Smolt Migration in the Columbia Basin [Internet]. 1996 ;I. Available from: http://pisces.bpa.gov/release/documents/documentviewer.aspx?doc=35885-12
Townsend RL, Westhagen P, Yasuda D. Evaluation of the 1994 Predictions of the Run-Timing of Wild Migrant Yearling Chinook in the Snake River Basin. [Internet]. 1995 . Available from: http://pisces.bpa.gov/release/documents/documentviewer.aspx?doc=35885-8
Skalski JR. Evaluation and Recommendations on Alternative Hydroacoustic Array Deployments for the Mouth of the Columbia River to Provide Estimates of Salmonid Smolt Survival and Movements. Design and Analysis of Salmonid Tagging Studies in the Columbia Basin [Internet]. 2006 ;XX. Available from: http://pisces.bpa.gov/release/documents/documentviewer.aspx?doc=00025091-1
Perry R, Skalski JR. Evaluating Wetland Restoration Projects in the Columbia River Estuary using Hydroacoustic Telemetry Arrays to Estimate Movement, Survival, and Residence Times of Juvenile Salmonids. Design and Analysis of Salmonid Tagging Studies in the Columbia Basin [Internet]. 2008 ;XXII. Available from: http://pisces.bpa.gov/release/documents/documentviewer.aspx?doc=P107849
Buchanan RA, Skalski JR, Giorgi AE. Evaluating Surrogacy of Hatchery Releases for the Performance of Wild Yearling Chinook Salmon from the Snake River Basin. North American Journal of Fisheries Management [Internet]. 2010 ;30:1258–1269. Available from: http://dx.doi.org/10.1577/M09-175.1
Lady JM, Skalski JR. Estimators of stream residence time of Pacific salmon (Oncorhynchus spp.) based on release-recapture data. Canadian Journal of Fisheries and Aquatic Sciences [Internet]. 1998 ;55:2580-2587. Available from: http://dx.doi.org/10.1139/f98-132
Ryding KE. Estimation of demographic parameters used in assessing wildlife population trends. Quantitative Ecology and Resource Management. 2002 ;Ph.D.
Miller TJ. Estimation of catch parameters from a fishery observer program with multiple objectives. Quantitative Ecology and Resource Management. 2005 ;Ph.D.
Buchanan RA, Skalski JR, Smith SG. Estimating the Effects of Smolt Transportation from Different Vantage Points and Management Perspectives. North American Journal of Fisheries Management [Internet]. 2006 ;26:460-472. Available from: http://dx.doi.org/10.1577/M05-080.1
Stover A. Estimating Pacific Northwest salmon escapement: A methods review based on statistical first principles. Quantitative Ecology and Resource Management. 2009 ;M.S.
Buchanan RA, , Mackey G, Snow C, Murdoch AR. Estimating Cohort Survival through Tributaries for Salmonid Populations with Variable Ages at Migration. North American Journal of Fisheries ManagementNorth American Journal of Fisheries Management [Internet]. 2015 ;35(5):958 - 973. Available from: https://doi.org/10.1080/02755947.2015.1064837
Duarte A, Whitlock SL, Peterson JT. Encyclopedia of EcologySpecies Distribution Modeling. Elsevier; 2019 pp. 189 - 198. Available from: https://linkinghub.elsevier.com/retrieve/pii/B978012409548910572X
Whitlock SL, Quist MC, Dux AM. Effects of Water-Level Management and Hatchery Supplementation on Kokanee Recruitment in Lake Pend Oreille, Idaho. Northwest Science [Internet]. 2018 ;92(2):136 - 148. Available from: http://www.bioone.org/doi/10.3955/046.092.0206
Salinger DH, Anderson JJ. Effects of Water Temperature and Flow on Adult Salmon Migration Swim Speed and Delay. Transactions of the American Fisheries Society [Internet]. 2006 ;135:188-199. Available from: http://dx.doi.org/10.1577/T04-181.1
Skalski JR, Mathur D, Heisey PG. Effects of Turbine Operating Efficiency on Smolt Passage Survival. North American Journal of Fisheries Management [Internet]. 2002 ;22:1193-1200. Available from: http://dx.doi.org/10.1577/1548-8675(2002)022<1193:EOTOEO>2.0.CO;2
Hinrichsen RA, Anderson JJ, Matthews GM, Ebbesmeyer CC. Effects of the ocean and river environments on the survival of Snake River stream-type chinook salmon. In: Marmorek DR, Peters CN, Parnell I Plan for Analyzing and Testing Hypotheses (PATH): Retrospective and prospective analyses of spring/summer chinook reviewed in fiscal year 1997. Plan for Analyzing and Testing Hypotheses (PATH): Retrospective and prospective analyses of spring/summer chinook reviewed in fiscal year 1997. Vancouver, B.C.: ESSA Technologies Ltd; 1997. Available from: sites/default/files/papers/effectsofocean.pdf
Skalski J, Seaburg AG, Buchanan RA. The effects of high detection probabilities on model selection in paired release-recapture studies in the era of electronic tagging studies. [Internet]. 2013 ;1(1):12. Available from: https://doi.org/10.1186/2050-3385-1-12
Anderson JJ, Hinrichsen RA, VanHolmes C. Effects of Flow Augmentation on Snake River Fall Chinook. [Internet]. 2000 . Available from: sites/default/files/papers/anderson/flowaug_fch.pdf
Enders EC, Gessel MH, Anderson JJ, Williams JG. Effects of Decelerating and Accelerating Flows on Juvenile Salmonid Behavior. Transactions of the American Fisheries Society [Internet]. 2012 ;141(2):357-364. Available from: http://dx.doi.org/10.1080/00028487.2012.664604
Perry R, Skalski JR. Effects of Array Configuration on Statistical Independence of Replicated Telemetry Arrays used in Smolt Survival Studies. Design and Analysis of Salmonid Tagging Studies in the Columbia Basin [Internet]. 2008 ;XXIII. Available from: sites/default/files/papers/Skalski/D&A Volume 23 (Independence of Replicated Arrays).pdf
Beer WN, Anderson JJ. Effect of spill on adult salmon passage delay at Columbia River and Snake River dams. [Internet]. 2012 . Available from: sites/default/files/papers/Spill.and.Passage.whitepaper.2012.pdf
Beer WN, Anderson JJ. Effect of spawning day and temperature on salmon emergence: interpretations of a growth model for Methow River chinook. Canadian Journal of Fisheries and Aquatic Sciences [Internet]. 2001 ;58:943-949. Available from: http://dx.doi.org/10.1139/f01-049
Ham KD, Anderson JJ, Vucelick JA. Effect of Multiple Turbine Passage on Juvenile Snake River Salmonid Survival. [Internet]. 2005 . Available from: http://www.pnl.gov/main/publications/external/technical_reports/PNNL-15450.pdf
Satterthwaite WH. Ecological thresholds in forecast performance for key United States West Coast Chinook salmon stocks Gosselin JL. ICES Journal of Marine Science. 2019 ;77:1503-1515.
D
Hamel OS. The Dynamics and Effects of Bacterial Kidney Disease in Snake River Spring Chinook Salmon (Oncorhynchus tshawytscha). [Internet]. 2001 . Available from: sites/default/files/papers/Dissertation.pdf
Salinger DH, Rockafellar RT. Dynamic splitting: An algorithm for deterministic and stochastic multiperiod optimization. In: Higle JL, Römisch W Stochastic Programming E-Print Series. Stochastic Programming E-Print Series. Humboldt-Universit?t zu Berlin, Institut für Mathematik; 2003. Available from: http://nbn-resolving.de/urn:nbn:de:kobv:11-10058960
Buchanan RA, Skalski J, McMichael GA. Differentiating mortality from delayed migration in subyearling fall Chinook salmon (Oncorhynchus tshawytscha). Canadian Journal of Fisheries and Aquatic SciencesCanadian Journal of Fisheries and Aquatic Sciences [Internet]. 2009 ;66(12):2243 - 2255. Available from: https://doi.org/10.1139/F09-154
Buchanan RA, Whitlock SL. Diagnosing predated tags in telemetry survival studies of migratory fishes in river systems. [Internet]. 2022 ;10(1):13. Available from: https://doi.org/10.1186/s40317-022-00283-1
VanHolmes C, Gosselin JL. Development of a Mean Annual Temperature Value for the Continued Calculation of the Pacific Northwest Climate Index. Seattle: Columbia Basin Research, University of Washington; 2020. Available from: sites/default/files/papers/Olga_Surrogate_DFA_FINAL.pdf
Lowther AB. Development, expansion, and evaluation of release-recapture survival models for Snake River juvenile salmonids, with new algorithms allowing time-dependent individual covariates. Quantitative Ecology and Resource Management. 2002 ;Ph.D.
Norris JG, Knudsen EE. Defining equivalent exploitation rate reduction policies for endangered salmon stocks. In: Sustainable Fisheries Management: Pacific Salmon. Sustainable Fisheries Management: Pacific Salmon. New York: CRC Press LLC; 2000. pp. 451-466.