This website is designed for the purpose of allowing quick and easy access to the information contained in the PRRS Host Genetics Consortium (PHGC) database. This database houses the information from the PHGC Project as well as from the earlier Porcine Reproductive and Respiratory Syndrome (PRRS) 'Big Pig Study.'

Abstract

In any consortium project where large amounts of phenotypic and genotypic data are collected across several research labs, issues arise with maintenance and analysis of datasets. The PRRS Host Genomic Consortium (PHGC) Database was developed to meet this need for the PRRS research community. The schema for the database was originally designed based on data sets generated from the PRRS virus “Big Pig” project. This included data on pig, sex, birth date and infection details, PRRS viral levels in serum over time and tissue levels at kill, anti-PRRSV antibody (ELISA and neutralizing antibody) responses, serum cytokine levels and tissue gene expression results, and Swine Leukocyte Antigen (SLA) alleles. It has been expanded to include genomic DNA and RNA data (sample data, gels and Agilent images), broader gene expression results (20K Pigolgioarray and RNA-seq data as acquired) and genotypic information (60K SNP chip data on all pigs and available parents).

This internet accessible relational database was designed to allow for the addition of new data types as they are generated over the course of the project. This flexibility will allow us to house and manage all of the PHGC project data, to build quality control (QC) filters and design improved procedures for data flow, and allow real-time data updates and sharing among users from geographically different locations. Furthermore, use of a centralized database will allow us to control external access to the data, e.g., data could be made available to the general public, restricted to only consortium members, or even to just a few members. Overall, the PHGC database will allow us to properly manage large datasets and affords new possibilities for exploration of the resultant data. Access to PHGC Database is monitored by the USDA ARS maintained Cooperative Research and Development Agreement (CRADA) Material Transfer Agreement (MTA).