This website is designed for the purpose of allowing quick and easy access to the information contained in the Porcine Reproductive and Respiratory Syndrome (PRRS) Host Genetics Consortium (PHGC) database.
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 includes data on assigned PHGC pig number, sex, birth date, parents, and infection and vaccination details. Once collected it includes PRRS viral levels in serum over time and tissue levels at kill, anti-PRRSV antibody (ELISA and neutralizing antibody) responses, serum cytokine levels results,. It includes blood (Tempus tube) and tissue gene expression data (sample data and RIN scores), broad gene expression results (20K Pigolgioarray, RNA-seq, quantiative PCR, NanoString array data, as acquired). It includes genotypic information (60/80/50K SNP chip data on all pigs and available parents) and Swine Leukocyte Antigen (SLA) alleles.
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. It provides a publically available source of publications generated by the PHGC.
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).