| Franklin, Alan B. | 2003 | "Small-mammal density estimation: A field comparison of grid-based vs. web-based density estimators" in Ecological Monographs | 
              
                      | Franklin, Alan B. | 2004 | "Population Dynamics of the California Spotted Owl (Strix occidentalis occidentalis): A Meta-Analysis" in Ornithological Monographs | 
              
                      | Franklin, Alan B. | 2004 | "Passive approaches in distance sampling" in Advanced distance sampling: Estimating abundance of biological populations | 
              
                      | Franklin, Alan B. | 2004 | "Scientific evaluation of the status of the Northern Spotted Owl" in Sustainable Ecosystems Institute Technical Report | 
              
                      | Franklin, Alan B. | 2004 | "Evaluating methods for monitoring populations of Mexican spotted owls: A case study" in Sampling rare or elusive species: Concepts, designs and techniques for estimating population parameters | 
              
                      | Franklin, Alan B. | 2006 | "Comment on 'Are survival rates for northern spotted owls biased?'" in Canadian Journal of Zoology | 
              
                      | Franklin, Alan B. | 2006 | "Status and Trends in Demography of Northern Spotted Owls, 1985–2003" in Willdife Monographs | 
              
                      | Franklin, Alan B. | 2006 | "Research and management options to address interspecific relationships between barred owls (Strix varia) and spotted owls (S. occidentalis occidentalis and S. o. caurina)" in Technical Report | 
              
                      | Franklin, Alan B. | 2007 | "Avian influenza in wild birds: environmental sampling for the rapid detection of avian influenza viruses" in Wildlife Damage Management Conference | 
              
                      | Franklin, Alan B. | 2007 | "The Invasion of Barred Owls and its Potential Effect on the Spotted Owl: a Conservation Conundrum" in Biological Invasions | 
              
                      | Franklin, Alan B. | 2007 | "Risk-based targeted surveillance: identifying areas and populations of importance for surveillance of high-path Avian influenza in the United States" in GISVET Conference | 
              
                      | Franklin, Alan B. | 2007 | "A synopsis of suggested approaches to address potential competitive interactions between Barred Owls (Strix varia) and Spotted Owls (S. occidentalis)" in Biological Invations | 
              
                      | Franklin, Alan B. | 2008 | "Increased detection of influenza A H16 in the United States" in Archives of Virology | 
              
                      | Franklin, Alan B. | 2008 | "Study designs for barred owl removal experiments to evaluate potential effects on northern spotted owls" in USFWS Technical Report | 
              
                      | Franklin, Alan B. | 2009 | "Wild Bird’s-eye View of Influenza Virus A(H1N1) Phylogenetic Evolution" in EcoHealth | 
              
                      | Franklin, Alan B. | 2009 | "Avian influenza risk assessment for the United States: Modeling pathways of disease spread by wild birds" in USDA Technical Report | 
              
                      | Franklin, Alan B. | 2009 | "Evaluation of an Epitope-Blocking Enzyme-Linked Immunosorbent Assay for the Detection of Antibodies to Influenza A Virus in Domestic and Wild Avian and Mammalian Species" in Journal of Virological Methods | 
              
                      | Franklin, Alan B. | 2009 | "Surveillance for highly pathogenic avian influenza in wild birds in the USA" in Integrative Zoology | 
              
                      | Franklin, Alan B. | 2009 | "Monitoring Exposure to Avian Influenza Viruses in Wild Mammals" in Mammal Review | 
              
                      | Franklin, Alan B. | 2010 | "Seeking a second opinion: uncertainty in disease ecology" in Ecology Letters | 
              
                      | Franklin, Alan B. | 2010 | "Population Dynamics of Spotted Owls in the Sierra Nevada, California" in Wildlife Monographs | 
              
                      | Franklin, Alan B. | 2010 | "Antibodies to Influenza and West Nile Viruses in Horses in Mexico" in The Veterinary record | 
              
                      | Franklin, Alan B. | 2010 | "Shedding Light on Avian Influenza H4N6 Infection in Mallards: Modes of Transmission and Implications for Surveillance" in PLoS ONE | 
              
                      | Franklin, Alan B. | 2010 | "Seroprevalence of equine influenza virus in north-east and southern Mexico" in The Veterinary record | 
              
                      | Franklin, Alan B. | 2010 | "Experimental Infection of Raccoons (Procyon lotor) with West Nile Virus" in The American journal of tropical medicine and hygiene |