Poster Presentation International Veterinary Immunology Symposium 2016

The Porcine Translational Research Database: A Manually Curated, Functional Genomics and Proteomics-based Research Resource. (#113)

Harry D. Dawson 1 , Celine Chen 1 , Brady J. Gaynor 1 , Jonathan Shao 1 , Joseph F. Urban 1
  1. ARS, USDA, Beltsville, MD, United States

The Porcine Translational Research Database database made its debut at the 2004 IVIS meeting in Quebec and has been online and continuously updated since. Originally it contained 2,750 genes of immunological significance; the current version of the database contains information on 11,325 genes. The current database contains 65 data fields for each entry, includes > 7,400 full length (5’ and 3’) unambiguous pig sequences, >2,400 real time PCR assays and reactivity information on > 1,300 antibodies. It contains gene and/or protein expression data for over 2,000 genes. Current porcine genomics and proteomics databases contain a significant number of errors due to their reliance on machine annotation. In this database we identify and correct errors, artifactual duplications, misassemblies, misannotations, and incorrect species assignments, for 4,600 porcine genes. For the purposes of this meeting, we provide the first comprehensive description of the 356 porcine orthologs to the Cluster of Differentiation (CD) markers that compose Human Leucocyte Differentiation Antigens (HLDA) version 10. These include 158 genes that were physically (66) or in silico (92) cloned by our laboratory. Antibody data, gathered from publications, manufacturers or generated in house, is provided for 186 proteins including 302 monoclonal and 97 polyclonal antibodies. This database is the largest manually curated database for any veterinary species and is unique among porcine gene databases in regard to linking gene expression to gene function, identification of related gene pathways, and connectivity with other porcine gene databases.