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Wing, SR, Largier JL, Botsford LW, Quinn JF.  1995.  SETTLEMENT AND TRANSPORT OF BENTHIC INVERTEBRATES IN AN INTERMITTENT UPWELLING REGION. LIMNOLOGY AND OCEANOGRAPHY. 40:316--329. Abstract
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Viers, JH, Hoyos RV, Mullins JC, Lehmer E, Byrne MS, McCoy MC, Quinn JF.  2000.  Watershed Analysis Tool for Environmental Resources: GIS Technology in the New Millennium. ESRI International User Conference.
Viers, JH, McCoy MC, Quinn JF, Johnson ML.  1999.  Nonpoint Source Pollution Modeling in the North Coast of California Within a GIS: A Predictive Screening Tool for Watershed Management. ESRI International User Conference.
Viers, JH, Ramirez CM, Quinn JF.  2003.  On the uses of hyperspectral data analysis and watershed analytical methods to evaluate the extent of riparian vegetation and habitat in the Navarro River, California.
Viers, JH, Sailer CT, Ramirez CM, Quinn JF, Johnson ML, Green RO.  2002.  An Integrated Approach to the Discrimination of Riparian Vegetation in the Navarro River Watershed. Eleventh JPL Airborne Earth Science Workshop.
Viers, JH, Thorne JH, Quinn JF.  2006.  CalJep: A Spatial Distribution Database of CalFlora and Jepson. San Francisco Estuary & Watershed Science. 4(1):1.
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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, Cameron D, Quinn JF.  2006.  A conservation design for the central coast of California and the evaluation of mountain lion as an umbrella species. NATURAL AREAS JOURNAL. 26:137--148. 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.
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STOHLGREN, TJ, Quinn JF, Ruggiero M, WAGGONER GS.  1995.  STATUS OF BIOTIC INVENTORIES IN US NATIONAL-PARKS. BIOLOGICAL CONSERVATION. 71:97--106. Abstract
STOHLGREN, TJ, Quinn JF.  1992.  AN ASSESSMENT OF BIOTIC INVENTORIES IN WESTERN UNITED-STATES NATIONAL-PARKS. NATURAL AREAS JOURNAL. 12:145--153. Abstract
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ROBINSON, GR, Quinn JF, STANTON ML.  1995.  INVASIBILITY OF EXPERIMENTAL HABITAT ISLANDS IN A CALIFORNIA WINTER ANNUAL GRASSLAND. ECOLOGY. 76:786--794. Abstract
ROBINSON, GR, Quinn JF.  1988.  EXTINCTION, TURNOVER AND SPECIES-DIVERSITY IN AN EXPERIMENTALLY FRAGMENTED CALIFORNIA ANNUAL GRASSLAND. OECOLOGIA. 76:71--82.
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Quinn, JB, Quinn JF.  2000.  Forging environmental markets. ISSUES IN SCIENCE AND TECHNOLOGY. 16:45--52.
Quinn, JF, Wing SR, Botsford LW.  1993.  HARVEST REFUGIA IN MARINE INVERTEBRATE FISHERIES - MODELS AND APPLICATIONS TO THE RED-SEA URCHIN, STRONGYLOCENTROTUS-FRANCISCANUS. AMERICAN ZOOLOGIST. 33:537--550. Abstract
Quinn, JF, WOLIN CL, JUDGE ML.  1989.  AN EXPERIMENTAL-ANALYSIS OF PATCH SIZE, HABITAT SUBDIVISION, AND EXTINCTION IN A MARINE INTERTIDAL SNAIL. CONSERVATION BIOLOGY. 3:242--251.
Quinn, JF, SIGNOR PW.  1989.  DEATH STARS, ECOLOGY, AND MASS EXTINCTIONS. ECOLOGY. 70:824--834.
Quinn, JF, HASTINGS A.  1988.  EXTINCTION IN SUBDIVIDED HABITATS - REPLY. CONSERVATION BIOLOGY. 2:293--296.
Quinn, JF, HARRISON SP.  1988.  EFFECTS OF HABITAT FRAGMENTATION AND ISOLATION ON SPECIES RICHNESS - EVIDENCE FROM BIOGEOGRAPHIC PATTERNS. OECOLOGIA. 75:132--140.
Quinn, JF.  1987.  ON THE STATISTICAL DETECTION OF CYCLES IN EXTINCTIONS IN THE MARINE FOSSIL RECORD. PALEOBIOLOGY. 13:465--478.
Quinn, JF, ROBINSON GR.  1987.  THE EFFECTS OF EXPERIMENTAL SUBDIVISION ON FLOWERING PLANT DIVERSITY IN A CALIFORNIA ANNUAL GRASSLAND. JOURNAL OF ECOLOGY. 75:837--855.
Quinn, JF, DUNHAM AE.  1983.  ON HYPOTHESIS-TESTING IN ECOLOGY AND EVOLUTION. AMERICAN NATURALIST. 122:602--617.
Quinn, JF.  1983.  MASS EXTINCTIONS IN THE FOSSIL RECORD. SCIENCE. 219:1239--1240.
Quinn, JF.  1982.  COMPETITIVE HIERARCHIES IN MARINE BENTHIC COMMUNITIES. OECOLOGIA. 54:129--135.
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Meynard, CN, Quinn JF.  2008.  Bird metacommunities in the temperate forests of South America: direct and indirect effects of vegetation structure, area and climate. Ecology. 89:981-990.