Fish Surveys
Ford D, Thorley JL, Schmidt DC & Hildebrand L (2010) Large river fish indexing program – Lower Columbia River 2009 Phase 9 investigations. A Golder Associates report for BC Hydro, Castlegar, BC.
Ford D, Thorley JL, Schmidt DC & Hildebrand L (2010) Large river fish indexing program – Middle Columbia River 2009 Phase 9 investigations. A Golder Associates report for BC Hydro, Revelstoke, BC.
Ford D, Irvine RL, Thorley JL, Schmidt DC & Hildebrand L (2009) Large river fish indexing program – Lower Columbia River 2008 Phase 8 investigations. A Golder Associates report for BC Hydro, Castlegar, BC.
Ford D, Irvine RL, Thorley JL, Schmidt DC & Hildebrand L (2009) Large river fish indexing program – Middle Columbia River 2008 Phase 8 investigations. A Golder Associates report for BC Hydro, Castlegar, BC.
Thorley JL (2008) Beaver River Projects Fish Population Biology Report. For Selkirk Power Company Ltd., Nelson, BC.
Population Ecology
Andrusak G & Irvine RL (2010) Kokanee Age-Structure Population Analysis (ALUMON # 6). A Redfish/Poisson report prepared for BC Ministry of Environment.
Chadwick S, Knights B, Thorley JL & Bark A (2007) A long-term study of population characteristics and downstream migrations of the European eel, Anguilla anguilla (L.) and the effects of a migration barrier in the Girnock Burn, north-east Scotland. Journal of Fish Biology. 70: 1535-1553 .
LaMontagne, JM, Irvine RL & Crone EE (2002) Spatial patterns of population regulation in sage grouse (Centrocercus spp.) population viability analysis. Journal of Animal Ecology. 71: 672-682.
Stock Assessment
Thorley JL & Andrusak GF (2010) Kootenay Lake Exploitation Study: Fishing and Natural Mortality of Large Rainbow Trout and Bull Trout. A Poisson/Redfish report prepared for the Habitat Conservation Trust Foundation, Victoria, BC.
Thorley JL & Andrusak GF (2009) Fishing and natural mortality of Gerrard rainbow trout: A pilot study. For the Habitat Conservation Trust Foundation, Victoria, BC.
Youngson AF, MacLean JC, Bacon PJ, Godfrey JD, Smith GW & Thorley JL (2007) Salmon assessment in Scotland: bringing information resources in line with recent research on methods. Scottish Fisheries Research Report No 68.
Thorley JL, Laughton, R & Youngson AF (2007) Seasonal variation in rod recapture rates indicates differential exploitation of Atlantic salmon, Salmo salar, stock components. Fisheries Management and Ecology. 14: 191-198.
Thorley JL, Eatherley DMR, Stephen AB, Simpson I, MacLean JC & Youngson AF (2005) Congruence between automatic fish counter data and rod catches of Atlantic salmon (Salmo salar) in Scottish rivers. ICES Journal of Marine Science. 62: 809-817.
Eatherley DMR, Thorley JL, Stephen AB, Simpson I, MacLean JC & Youngson AF (2005) Trends in Atlantic salmon: the role of automatic fish counter data in their recording. Scottish Natural Heritage Commissioned Report No. 100 (ROAME No. F01NB02).
Fish Movement and Habitat Use
de Zwart I, Andrusak G, Thorley JL, Irvine RL, Masse S (2010) Duncan Reservoir Fish Habitat Use Monitoring (DDMMON-10). A Masse, Redfish and Poisson report prepared for BC Hydro, Kootenay Generation Area, BC.
Thorley JL (2009) Duncan Dam bull trout passage monitoring: An assessment of the effect of the weir on the proportion of small bull trout accessing the flip bucket. For BC Hydro, Castlegar, BC.
Porto L, Thorley J, Hagen J & Baxter J (2009) Lower Duncan River Habitat Use Monitoring - Study Needs Assessment & Information Review. An AMEC Earth & Environmental Report for BC Hydro, Castlegar, BC.
Thorley JL (2008) Aquatic habitat losses and gains due to BC Hydro dams in the Columbia Basin. For Fish and Wildlife Compensation Program – Columbia Basin, Nelson, BC.
Thorley J, Thorne A, MaDonald A & Johnstone A (2007) The summer movements of large piscivorous ferox trout (Salmo trutta) in Loch Garry, Perthshire, Scotland. FRS Poster. 
Salmonid Spawning
Thorley, JL Baxter, JTA & Porto L (2010) Lower Duncan River Habitat Use Monitoring (DDMMON-2)Year 2- Adult Rainbow Trout Spawning Monitoring. An AMEC Earth and Environmental/Poisson/Redfish Report for BC Hydro, Castlegar, BC.
Irvine RL & Porto L (2010) Lower Duncan River Habitat Use Monitoring (DDMMON-2) Study Needs Assessment, Background Review and Study Design - Mountain Whitefish Adult Spawning. An AMEC Earth and Environmental Report for BC Hydro, Castlegar, BC.
Thorley JL & Malcolm AI (2009) Gerrard Gravels Groundwater Preliminary Assessment. For Fish and Wildlife Compensation Program – Columbia Basin, Nelson, BC.
Thorley JL & Bowers J (2006) Gerrard Rainbow Spawning Habitat Assessment: Water depth and velocity over the main spawning gravels on the Lardeau River during low flows. For Ministry of Environment, Nelson.
Youngson AF, Malcolm AI, Thorley JL, Bacon PJ & Soulsby C (2004) Long-residence groundwater effects on incubating salmonid eggs: low hyporheic oxygen impairs embryo development. Canadian Journal of Fisheries and Aquatic Sciences. 61: 2278-2287.
Population Conservation
Westcott L & Irvine RL (2010) Native Bee Survey of the Lower Columbia River (Hugh L. Keenleyside Dam to Canada-U.S. Border). A Westcott Environmental Services report prepared for Columbia Basin Fish and Wildlife Compensation Program, Nelson, BC.
Irvine RL, Schmidt DC & Hildebrand L (2007) Population status of white sturgeon in the Lower Columbia River, Canada. Transactions of the American Fisheries Society 136: 1472–1479.
Thorne A, MacDonald AI & Thorley JL (2007) Catch and release of large, piscivorous ferox trout (Salmo trutta) in Loch Rannoch, Scotland. Proceedings of the 9th Wild Trout Symposium, West Yellowstone, Montana.
Stefanni S & Thorley JL (2003) Mitochondrial DNA phylogeography reveals the existence of an Evolutionarily Significant Unit of the sand goby Pomatoschistus minutus in the Adriatic (Eastern Mediterranean). Molecular Phylogenetics and Evolution 28:601-609.
Regulated Rivers
Irvine RL & Hildebrand B (2010) Lower Duncan River Ramping Rate Monitoring Program (DDMMON-1). A Poisson/Golder report prepared for BC Hydro, Castlegar, BC.
Irvine RL, Oussoren T, Baxter JS & Schmidt DC (2008) The effects of ramping rates and other environmental parameters on the stranding rates of fish below hydro-electric dams in British Columbia, Canada. River Research and Applications 25: 405-415.
Irvine RL, Schmidt DC & Hildebrand L (2005) Analysis of white sturgeon spawning in relation to the Waneta Dam white sturgeon flow augmentation program. A Golder Associates report for Teck Cominco Metals Ltd.
Statistical Analysis and Study Design
Westcott B & Irvine RL (2010) Columbia and Kootenay River Fish Stranding Protocol Review: Literature Review and Fish Stranding Database Analysis (CLBMON-42). A Golder/Poisson report prepared for BC Hydro, Castlegar, BC.
Irvine RL, Crone EE , Jackson LJ & MacIsaac EA (2004) The importance of scale in ecological model predictions: assessing the consistency of fertilization responses in lakes. Ecological Applications 14(4): 1178-1188.
Irvine RL & Jackson LJ (2006) Spatial variance of nutrient limitation of periphyton in montane, headwater streams. Aquatic Ecology 40(3): 337-348.