ViPR: an open bioinformatics database and analysis resource for virology research

Pickett, Brett E.; Sadat, Eva L.; Zhang, Yun; Noronha, Jyothi M.; Squires, R. Burke; Hunt, Victoria; Liu, Mengya; Kumar, Sanjeev; Zaremba, Sam; Gu, Zhiping; Zhou, Liwei; Larson, Christopher N.; Dietrich, Jonathan; Klem, Edward B.; Scheuermann, Richard H.

Novel derived and predicted data. These public and direct submission data are augmented with novel data derived from numerous comparative genomics and other bioinformatics analyses performed by the ViPR team. Examples of derived data at the strain level include computationally improved annotations and manually curated information, which are displayed with a Genome Map image and a Protein Information table on the Strain Details page. Selecting a gene or protein from the image or table loads the Gene/Protein Details page (Supplementary Figure S1 ), which contains derived data consisting of predicted immune epitopes determined using the NetCTL algorithm (14) , protein domains and motifs predicted using InterProScan (15) , molecular weight, isoelectric point, closest BLAST hits, homologous PDB structures, etc. These data are combined with the strain name, sequence data, virus taxonomy, host and country of isolation, collection date, as well as other information on the Gene/Protein Details pages.