Mather, M.E., H.J. Frank, J.M. Smith, R.D. Cormier, R.M. Muth and J.T. Finn. 2012.  Assessing freshwater habitat of adult anadromous alewives using multiple approaches.  Marine and Coastal Fisheries: Dynamics, Management, and Ecosystem Science 4: 188-200.

Frank, H.F., M.E. Mather, J.M. Smith, R.M. Muth, J.T. Finn. 2011.  Role of origin and release location in pre-spawning movements of anadromous alewives.  Fisheries Management and Ecology 18:12-24.

Mather, M.E., J.T. Finn, S.M. Pautzke, D. Fox, T. Savoy, H.M. Brundage III, L.A. Deegan, and R.M. Muth. 2010. Diversity in destinations, routes, and timing of small adult and sub-adult striped bass Morone saxatilis on their southward autumn migration. Journal of Fish Biology 77:2326-2337.

Pautzke, S.M., M.E. Mather, J.T. Finn, L.A. Deegan, R.M. Muth. 2010. Seasonal use of a New England estuary by foraging contingents of migratory striped bass. Transactions of the American Fisheries Society 139:257 – 269.

Frank, H.J., M.E. Mather, R.M. Muth, S.M. Pautzke, J.M. Smith and J.T. Finn. 2009. The Adopt-a-Herring program as a fisheries conservation tool.  Fisheries 34:466-507.

Smith, J. S., M. E. Mather, H. J. Frank, R. M. Muth, J. T. Finn, S. D. McCormick. 2009. Evaluation of a gastric radio tag insertion technique for anadromous alewives. North American Journal of Fisheries Management 29:367–377.

Mather, M. E, J. T. Finn, K. H. Ferry, L. A. Deegan, G. A. Nelson. 2009. Use of non-natal estuaries by migratory striped bass (Morone saxatilis) in summer. Fishery Bulletin 107(3): 329-337.

Frank, H. F, M. E. Mather, J. M. Smith, R. M. Muth, J. T. Finn, S. D. McCormick. 2009. What is ‘fallback’?: metrics needed to assess telemetry tag effects on anadromous fish behavior. Hydrobiologia 35:237-249.

Sekar I, K McGarigal, JT Finn, R Ryan, and TO Randhir. 2009. Water quality response to economic development: quantifying environmental Kuznets curve. Indian Journal of Agricultural Economics 64:73-88.

Kim, J.B., Saunders, P. and Finn, J.T., 2005. Rapid assessment of soil erosion in the Rio Lempa Basin, Central America, using the universal soil loss equation and geographic information systems. Environmental Management, 36(6), pp.872-885.

Deblinger, R.D., Field, R., Finn, J.T. and Loomis, D.K., 2004. A conceptual model of suburban wildlife management: a case study of beaver in Massachusetts. In 4th International Symposium on Urban Wildlife Conservation (pp. 245-252).

Deegan, L.A., Wright, A., Ayvazian, S.G., Finn, J.T., Golden, H., Merson, R.R. and Harrison, J., 2002. Nitrogen loading alters seagrass ecosystem structure and support of higher trophic levels. Aquatic Conservation: Marine and Freshwater Ecosystems, 12(2), pp.193-212.

Moncayo, A.C., Edman, J.D. and Finn, J.T., 2000. Application of geographic information technology in determining risk of eastern equine encephalomyelitis virus transmission. Journal of the American Mosquito Control Association, 16(1), pp.28-35.

Carter, J. and Finn, J.T., 1999. MOAB: a spatially explicit, individual-based expert system for creating animal foraging models. Ecological Modelling, 119(1), pp.29-41.

Moses, E. and Finn, J.T., 1997. Using geographic information systems to predict North Atlantic right whale(Eubalaena glacialis) habitat. J. Northwest Atl. Fish. Sci., 22, pp.37-46.

Deegan, L.A., Finn, J.T., Ayvazian, S.G., Ryder-Kieffer, C.A. and Buonaccorsi, J., 1997. Development and validation of an estuarine biotic integrity index. Estuaries and Coasts, 20(3), pp.601-617.

Linehan, J., Gross, M. and Finn, J., 1995. Greenway planning: developing a landscape ecological network approach. Landscape and urban planning, 33(1), pp.179-193.

Finn, J.T., 1993. Use of the average mutual information index in evaluating classification error and consistency. International Journal of Geographical Information Science, 7(4), pp.349-366.

Ayvazian, S.G., Deegan, L.A. and Finn, J.T., 1992. Comparison of habitat use by estuarine fish assemblages in the Acadian and Virginian zoogeographic provinces. Estuaries, 15(3), pp.368-383.

Wilkie, D.S. and Finn, J.T., 1990. Slash-burn cultivation and mammal abundance in the Ituri Forest, Zaire. Biotropica, pp.90-99.

Murawski, S.A. and Finn, J.T., 1988. Biological bases for mixed-species fisheries: species co-distribution in relation to environmental and biotic variables. Canadian Journal of Fisheries and Aquatic Sciences, 45(10), pp.1720-1735.

Wilkie, D.S. and Finn, J.T., 1988. A spatial model of land use and forest regeneration in the Ituri forest of northeastern Zaire. Ecological Modelling, 41(3-4), pp.307-323.

Bain, M.B., Finn, J.T. and Booke, H.E., 1988. Streamflow regulation and fish community structure. Ecology, 69(2), pp.382-392.

Chadwick, N.L., Progulske, D.R. and Finn, J.T., 1986. Effects of fuelwood cutting on birds in southern New England. The Journal of wildlife management, pp.398-405.

Murawski, S.A. and Finn, J.T., 1986. Optimal effort allocation among competing mixed-species fisheries, subject to fishing mortality constraints. Canadian Journal of Fisheries and Aquatic Sciences, 43(1), pp.90-100.

Bain, M.B., Finn, J.T. and Booke, H.E., 1985. Quantifying stream substrate for habitat analysis studies. North American Journal of Fisheries Management, 5(3B), pp.499-500.

Bain, M.B., Finn, J.T. and Booke, H.E., 1985. A quantitative method for sampling riverine microhabitats by electrofishing. North American Journal of Fisheries Management, 5(3B), pp.489-493.

Hirschfeld, J.R., Finn, J.T. and Patterson III, W.A., 1984. Effects of Robinia pseudoacacia on leaf litter decomposition and nitrogen mineralization in a northern hardwood stand. Canadian Journal of Forest Research, 14(2), pp.201-205.

Finn, J.T., 1983. Ecology: Cycling index. Nature, 304(5925), pp.397-397.

Finn, J.T., 1982. Ecosystem succession, nutrient cycling and output-input ratios. Journal of Theoretical Biology, 99(3), pp.479-489.

Finn, J.T. and Howard, R., 1981. Modeling a beaver population on the Prescott Peninsula, Massachusetts: Feasibility of LANDSAT as an input.

Finn, J.T., 1980. Flow analysis of models of the Hubbard Brook ecosystem. Ecology, 61(3), pp.562-571.

Finn, J.T. and Leschine, T.M., 1980. Does salt marsh fertilization enhance shellfish production? An application of flow analysis. Environmental Management, 4(3), pp.193-203.

Odum, E.P., Finn, J.T. and Franz, E.H., 1979. Perturbation theory and the subsidy-stress gradient. BioScience, 29(6), pp.349-352.

Finn, J.T. and Rykiel, E.J., 1979. Effect of the Suwannee River sill on Okefenokee Swamp water level. Water Resources Research, 15(2), pp.313-320.

Finn, J.T., Cohen, L.H. and Steinmetz, P.R., 1977. Acidifying defect induced by amphotericin B: Comparison of bicarbonate and hydrogen ion permeabilities. Kidney international, 11(4), pp.261-266.

Finn, J.T., 1976. Measures of ecosystem structure and function derived from analysis of flows. Journal of theoretical Biology, 56(2), pp.363-380.

Schwartz, J.H., Finn, J.T., Vaughan, G.R.E.G.O.R.Y. and Steinmetz, P.R., 1974. Distribution of metabolic CO2 and the transported ion species in acidification by turtle bladder. American Journal of Physiology–Legacy Content, 226(2), pp.283-289.