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Huber PR, Roth NE, McCoy M, Meade R.  2006.  San Joaquin Valley conservation opportunities: a collaborative regional planning effort in California. Natural Areas Conference.
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Johnston RA, McCoy M, Kirn M, Fell M.  2004.  Streamlining the National Environmental Policy act process through cooperative local-state-federal transportation and land use planning. ENERGY AND ENVIRONMENTAL CONCERNS 2004. :135--143. Abstract
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Thorne JH, Girvetz EH, McCoy M.  2007.  A multi-scale and context sensitive state-wide environmental mitigation planning tool for transportation projects in California. Proceedings International Conference on the Environment and Transportation (ICOET).
Thorne JH, Gao SY, Hollander AD, Kennedy JA, McCoy M, Johnston RA, Quinn JF.  2006.  Modeling potential species richness and urban buildout to identify mitigation sites along a California highway. TRANSPORTATION RESEARCH PART D-TRANSPORT AND ENVIRONMENT. 11:277--291. Abstract
Thorne JH, Kennedy JA, Keeler-Wolf T, Quinn JF, Menke J, McCoy M.  2004.  A New Vegetation Map of Napa County Using the Manual of California Vegetation Classification and its Comparison to Other Digital Vegetation Map. Madroño . 51(4):343-363.
Thorne JH, Huber P, Girvetz E, Quinn J, McCoy M.  2009.  Integration of regional mitigation assessment and conservation planning.. Ecology and Society. 14(1)