Gardy J.L., Lynn D.J.*,, Brinkman F.S.L, Hancock R.E.W. (2009). Enabling a systems biology approach to immunology: focus on innate immunity Trends in Immunology 30(6), 249-62.
PMID: 19428301
*Joint first author. Feature article on cover

Downing T., Lynn D.J.,,Connell S., Lloyd A.T., Bhuiyan A.K.F.H., Silva P., Naqvi A., Sanfo R.,Sow R.S., Podisi B., Hanotte O., O.Farrelly C., Bradley D.G. (2009).Evidence of balanced diversity at the chicken interleukin 4 receptoralpha chain locus. BMC Evolutionary Biology 9(1):136.

The Bovine Genome Sequencing and Analysis Consortium (2009). The Genome Sequence of Taurine Cattle: A Window to Ruminant Biology and Evolution. Science 324(5926), 522-8.
PMID: 19390049
*Analysis Project Leader.

The Bovine HapMap Consortium (2009). Genome Wide Survey of SNP Variation Uncovers the Genetic Structure of Cattle Breeds. Science 324(5926), 528-32.
PMID: 19390050

Downing T., Lynn D.J.,,Connell S., Lloyd A.T., Bhuiyan A.K.F.H., Silva P., Naqvi A., Sanfo R.,Sow R.S., Podisi B., O.Farrelly C., Hanotte O., Bradley D.G. (2009).Contrasting Evolution of Diversity at Two Disease-Associated ChickenGenes. Immunogenetics 61(4), 303-14.
PMID: 19247647

Lemay D.G., Lynn D.J.,,Martin W.F., Casey T.M., Kriventseva E.V., Rincon G., Barris W.,Hinrichs A.S., Molenaar A.J., Pollard K.S., Neville M.C., Maqbool N.J.,Zdobnov E.M., Medrano J.F., Tellam R., German J.B., Rijnkels M. (2009).The Bovine Lactation Genome: Insights into the Evolution of MammalianMilk. Genome Biology 10(4):R43.
PMID: 19393040

Lynn D.J., Winsor G.L., Chan C., Richard N., Laird M.R., Barsky A., Gardy J.L.,Roche F.M., Chan T.H.W., Shah N., Lo R., Naseer M., Que J., Yau M., Acab M., TulpanD., Whiteside M.D., Chikatamarla A., Mah B., Munzner T., Hokamp K., HancockR.E.W., Brinkman F.S.L. (2008). InnateDB - Facilitating Systems Level Analyzesof the Mammalian Innate Immune Response. Molecular Systems Biology4:218.
PMID: 18766178 http://www.nature.com/msb

Freeman A.R., Lynn D.J.*,, Murray C., Bradley D.G. (2008). Detecting the Effects of Selection at the Population Level in Bovine Immune Genes. BMC Genetics 9:62.
PMID: 18838007
*Joint first author.

Lynn D.J.* , Higgs R., Lloyd A.T., Herve-Grepinet V., Nys Y., Brinkman F.S.L.,Yu P.L., Soulier A., Kaiser P., Zhang G., O'Farrelly C., LehrerR.I. (2007). Avian Beta-Defensin Nomenclature: A Community Proposed Update.Immunology Letters 110(1), 86-89.
PMID:17467809
*Corresponding author.

Higgs R., Lynn D.J.,Alana I., Cahalane S., Hewage C.W., James T., Lloyd A.T., O'Farrelly C.(2007). Modification of chicken avian beta-defensin-8 at positivelyselected amino acid sites enhances specific antimicrobial activity. Immunogenetics 59(7), 573-580.
PMID: 17483936

Lynn D.J.*, Bradley D.G. (2007). Discovery of alpha-Defensins in Basal Mammals. Developmental & Comparative Immunology 31(10), 963-967.
PMID: 17367857
*Corresponding author.

Cruz F., Bradley D.G., Lynn D.J.* (2007). Evidence of Positive Selection on the Atlantic Salmon CD3gamma-delta gene. Immunogenetics 59(3), 225-232.
PMID: 17211637
*Corresponding author.

Murphy A.M., Machugh D.E., Park S.D., Scraggs E., Haley C.S., Lynn D.J., Boland M.P., DohertyM.L. (2007). Linkage Mapping of the Locus for Inherited Ovine Arthrogryposis (IOA) to Sheep Chromosome 5. Mammalian Genome 18(1), 43-52.
PMID: 17242863

Higgs R., Cormican P., Cahalane S., Allan B., Lloyd A.T., Meade K., James T., Lynn D.J.,Babiuk L., O'Farrelly C. (2006). Induction of a Novel Chicken Toll-likeReceptor following Salmonella enterica serovar Typhimurium Infection. Infection and Immunity 74(3), 1692-1698. PMID: 16495540

Lynn D.J., Freeman A.R., Murray C.U., Bradley D.G.(2005). A Genomics Approach to the Detection of Positive Selection inCattle - Adaptive Evolution of the T Cell and NK Cell Surface Protein,CD2. Genetics 170(3), 1189-1196.
PMID: 15802510

Higgs R., Lynn D.J., Gaines S., McMahon J., Tierney J., James T., Lloyd A.T., Mulcahy G., O'Farrelly C. (2005). The Synthetic Formof a Novel Chicken beta-Defensin Identified in Silico is Predominantly Active against Intestinal Pathogens. Immunogenetics 57(1-2), 90-98. PMID: 15744537

Lynn D.J. , Higgs R., Gaines S., Tierney J., James T.,Lloyd A.T., Fares M.A., Mulcahy G., O'Farrelly C. (2004). BioinformaticDiscovery and Initial Characterisation of Nine Novel AntimicrobialPeptide Genes in the Chicken. Immunogenetics 56(3): 170-177.
PMID: 15148642

Lynn DJ , Lloyd AT, Fares MA, O'Farrelly C. (2004) Evidence of Positively Selected Sites in Mammalian alpha-Defensins. Molecular Biology & Evolution 21(5), 819-827.
PMID: 14963090

Lynn D.J. , Lloyd A.T., O'Farrelly C. (2003). InSilico Identification of Components of the Toll-Like Receptor (TLR)Signalling Pathway in Clustered Chicken Expressed Sequence Tags (ESTs).Veterinary Immunology & Immunopathology 93(3-4), 177-184 .
PMID: 12814703

Lynn D.J. , Lloyd A.T., O'Farrelly C. (2003). Bioinformatics: Implications for Medical Research and Clinical Practice. Clinical Investigative Medicine 26(2), 70-74.
PMID: 12722839

Duffy M.J., Lynn D.J. , Lloyd A.T., O'Shea C.M. (2003). The ADAMs Family of Proteins: From Basic Studies to Potential Clinical Applications. Thrombosis and Haemostasis 89(4), 622-631.
PMID: 12669115

Lynn D.J ., Singer G.A.C., Hickey D.A. (2002). Synonymous Codon Usage is Subject to Selection in Thermophilic Bacteria. Nucleic Acids Research 30(19), 4272-4277.
PMID: 12364606