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Collins, J. N. 2002. Summary of Crissy Field Monitoring Elements. San Francisco Estuary Institute.
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Collins, J. N. 2002. San Francisco Estuary Wetalnds Regional Monitoring Program Plan: Version 1, Framework and Protocols. SFEI Contribution No. 248. San Francisco Estuary Institute: Oakland, CA. p 94.
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Collins, J. N. 2002. Executive Summary 2002 (Wetlands Science Program). SFEI Contribution No. 250. San Francisco Estuary Institute. p 4.
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Collins, J. N. 2002. Executive Summary: SFEI Component of the Integrated Regional Wetlands Monitoring Pilot Project. SFEI Contribution No. 251. San Francisco Estuary Institute. p 2.
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Josh Collins; Lowe, S. 2016. Framework to coordinate water quality improvement and wildlife habitat conservation to protect California streams, wetlands, and riparian areas.

Project funded by an USEPA Wetland Program Development Grant (Region 9) #99T05901: Framework for Coordinated Assessment of CA Wildlife Habitat and Aquatic Resource Areas

. SFEI Contribution No. 776. San Francisco Estuary Institute: Richmond, CA. p 89.

The emergence of comparable landscape approaches to wildlife conservation and water quality improvement through federal and California state regulatory and management programs provides an opportunity for their coordination to better protect California’s aquatic resources, especially streams, wetlands, and riparian areas. Such coordination is patently desirable.  A framework has been developed to help coordinate restoration and compensatory mitigation across policies governing wildlife conservation and water quality in the landscape context. The framework is based on the Wetland and Riparian Area Monitoring Plan (WRAMP) of the California Wetland Monitoring Workgroup (CWMW) of the Water Quality Monitoring Council. The framework presented in this memorandum is a version of the standard WRAMP framework. It only differs from the standard framework to better accommodate wildlife conservation planning, assessment and reporting. To distinguish this version from the standard version, it is termed the 'WRAMP for wildlife'.

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Collins, J. N. 2003. California Rapid Assessment Method (CRAM) - Part 2. SFEI Contribution No. 285. San Francisco Estuary Institute.
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Collins, J. N.; Sutula, M.; Stein, E.; Jones, P. 2002. California Rapid Assessment Method for Wetlands v. 1.0. SFEI Contribution No. 246. San Francisco Estuary Institute. p 18.
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Collins, J. N. 1998. Bay Area Wetlands Ecosystem Goals Project: Key Baylands Species. SFEI Contribution No. 121. San Francisco Estuary Institute.
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Collins, J. N.; Pearce, S. 2004. Analysis of Reference Tidal Channel Plan Form for the Montezuma Wetlands Restoration Project. SFEI Contribution No. 80. San Francisco Estuary Institute: Oakland, CA.
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Cohen, A. N. 1994. The hidden costs of California's water. In Life on the Edge: A Resource Guide to California's Endangered Wildlife. Life on the Edge: A Resource Guide to California's Endangered Wildlife. Biosystems Books: Santa Cruz, CA. pp 288-302.
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Cohen, A. N. 1997. Have claw, will travel. Aquatic Nuisance Species Digest 2, 1, 16-17. . SFEI Contribution No. 200.
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Cohen, A. N.; McGann, M.; Sloan, D. 2000. Invasion by a Japanese marine microorganism in western North America. Hydrobiologia 421, 25-30 . SFEI Contribution No. 343.
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Cohen, A. N.; Chapman, J. W. 2005. Rapid Assessment Channel Survey for Exotic Species in San Francisco Bay - November 2005. SFEI Contribution No. 454. San Francisco Estuary Institute: Oakland, CA. p 7.
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Cohen, A. N. 2008. Zebra & quagga mussel invasions in the western US. International Association of Great Lakes Research (IAGLR).
Cohen, A. N. 2004. Invasions in the sea. Park Science 22, 37-41.
Cohen, A. N. 1998. The exotic species threat to California's coastal resources. SFEI Contribution No. 386. American Society of Civil Engineers: Reston, VA. pp 1418-1426.
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Cohen, A. N. 1998. Exotic species in California's coastal waters. Sanctuary Currents '98, Symposium on the Monterey Bay National Marine Sanctuary.
Cohen, A. N. 1995. Chinese mitten crabs in North America. Aquatic Nuisance Species Digest 1, 20-21.
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Cohen, A. N. 1995. Introduced Species. Prepared for: California's Ocean Resources: An Agenda for the Future, California Resources Agency: Sacramento, CA.
Cohen, A. N. 2006. The Panama Canal: Species Introductions and the Panama Canal. In Bridging Divides: Maritime Canals as Invasion Corridors. Cohen, A. N., Gollasch, S., Galil, B. S., Eds.. Bridging Divides: Maritime Canals as Invasion Corridors. Kluwer Academic Publishing: Dordrecht, The Netherlands.
Cohen, A. N. 2001. An Introduction to the San Francisco Estuary Third Edition. San Francisco Estuary Project, Oakland CA, Save The Bay, Oakland CA and San Francisco Estuary Institute, Richmond CA: Oakland, Ca. Vol. Third Edit.
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Cohen, A. N.; Byers, J.; Cordell, J.; Dumbauld, B.; Fukuyama, A.; Kohn, A.; Li, K.; Mumford, T.; Radashevsky, V.; Sewell, A.; et al. 2001. Report of the Washington State Exotics Expedition 2000. SFEI Contribution No. 355. Nearshore Habitat Program, Washington State Department of Natural Resources: Olympia WA.
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Cohen, A. N.; Minchin, D.; Gollasch, S.; Olenin, S. 2006. Characterizing vectors of marine invasions. In Marine Bioinvasions: Ecology, Conservation and Management Perspectives. Rilov, G., Crooks, J., Eds.. Marine Bioinvasions: Ecology, Conservation and Management Perspectives. Springer: Heidelberg, Germany.
Cohen, A. N.; Weinstein, A. 2001. The Potential Distribution of Chinese Mitten Crabs (Eriocheir sinensis) in selected waters of the Western United States with U.S. Bureau of Reclamation Facilities. SFEI Contribution No. 353. United States Department of the Interior, Bureau of Reclamation, Mid-Pacific Region and the Technical Service Center. Vol. 21.
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Cohen, A. N. 2001. Case Study 3.16: Transfer of pathogens and other species via oyster culture. Wittenberg, R., Cock, M. J. W., Eds.. United Nations Global Invasive Species Program. CAB International: Wallingford, Oxon, UK. p p 92.
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Cohen, A. N. 1997. Damming the Bay. Switzer Fellowship Network 5, 1,4.
Cohen, A. N. 1998. Biological invasions and opportunities for their regulation on the west coast of the United States. Proc. Eighth Int'l Zebra Mussel and Aquatic Nuisance Species Conf..
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Cohen, A. N.; Williams, E. H. 2002. Marine Exotic Species in the Caribbean: A Progress Report. University of Puerto Rico/Isla Magueyes Laboratory, La Parguera, Puerto Rico.
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Cohen, A. N. 1998. Monitoring for Non-indigenous Organisms. SFEI Contribution No. 385. San Francisco Estuary Institute: Oakland, CA.
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Cohen, A. N.; Schaeffer, K.; McGourty, K.; Cosentino-Manning, N.; De La Cruz, S. E. Wainwri; Elliot, M.; Allen, S. 2007. Introduction for Report on the Subtidal Habitats and Associated Biological Taxa in San Francisco Bay. In Report on the Subtidal Habitats and Associated Biological Taxa in San Francisco Bay. Report on the Subtidal Habitats and Associated Biological Taxa in San Francisco Bay. NOAA National Marine Fisheries Service. p 35.
Cohen, A. N. 1998. Biological invasions in the San Francisco Estuary. In Marine and Aquatic Nonindigenous Species in California: An Assessment of Current Status and Research Needs. Olin, P. G., Cassell, J. L., Eds.. Marine and Aquatic Nonindigenous Species in California: An Assessment of Current Status and Research Needs. California Sea Grant College System, University of California: La Jolla, CA. pp 7-8.
Cohen, A. N.; Gollasch, S.; Galil, B. S. 2006. Bridging Divides: Maritime Canals as Invasion Corridors. Monographiae Biologicae 83. Kluwer Academic Publishing: Dordrecht, The Netherlands.
Cohen, A. N. 1995. Place Invaders. Energy and Resources News 4, 1-3.
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Cohen, A. N. 1996. Biological invasions of the San Francisco Bay and Delta. Summary of comments. In U. S. Fish and Wildlife Service Directorate Meeting. U. S. Fish and Wildlife Service Directorate Meeting. Ogunquit ME, June 12, 1996.
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Cohen, A. N. 1996. Environmental Review and Mitigation of a Water Supply Project in California. A report for the Japanese Ministry of Construction, Tokyo.
Cohen, A. N.; McGann, M.; Sloan, D. 1996. Documenting the intorduction of estuarine foraminifers: a San Francisco Bay Study. Ann. Mtg., Geological Society of America, Denver, CO, Oct. 1996 (abstract).
Cohen, A. N. 2001. Impacts from the Asian clam Potamocorbula amurensis. In National Management Plan. National Management Plan. National Invasive Species Council: Washington DC.
Cohen, A. N. 1994. Storming the Bay. Terrain 24, 4,7.
Cohen, A. N. 2004. An Exotic Species Detection Program for Puget Sound. SFEI Contribution No. 380. San Francisco Estuary Institute: Oakland.
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Cohen, A. N. 1997. The San Francisco Estuary: A model system for invasions research. San Francisco Estuary Institute: Seattle, WA (abstract).
Cohen, A. N.; Zabin, C. J. 2009. Oyster shells as vectors for exotic species. Journal of Shellfish Research 28 (1), 163-167 . SFEI Contribution No. 709.
Cohen, A. N. 2005. A review of Zebra Mussels' Environmental Requirements. Resources, C. A. Department, Ed.. SFEI Contribution No. 420. San Francisco Estuary Institute: Sacramento, CA.
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Cohen, A. N. 1992. Weeding the Garden. Atlantic Monthly 270, 76-86.
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Cohen, A. N. 1993. Place Invaders. Pacific Discovery (Calif. Acad. Sci.) 46, 22-26.
Cohen, A. N. 1996. Damming the Bay. Watershed 35, 6-8.
Cohen, A. N. 1997. Biological invasions in the San Francisco Estuary. Ann. Mtg., American Fisheries Society, Aug 24-28, Monterey CA (abstract)..
Cohen, A. N. 1998. The invasion of the Pacific Coast by the European green crab. Eighth International Zebra Mussel and Aquatic Nuisance Species Conference, Page 44.
Cohen, A. N. 1998. The exotic species threat to California's coastal resources. California and the World Ocean '97, 1418-1426.
Cohen, A. N. 1999. Invasions status and policy on the U. S. west coast. First National Conference on Marine Bioinvasion, 40-45.