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ViPR specifications


Unique identifier OMICS_03087
Name ViPR
Alternative name Virus Pathogen database and analysis Resource
Restrictions to use None
Community driven No
Data access Browse
User data submission Not allowed
Maintained Yes


  • person_outline Richard H. Scheuermann

Publication for Virus Pathogen database and analysis Resource

ViPR citations


The Effects of Sampling Location and Predictor Point Estimate Certainty on Posterior Support in Bayesian Phylogeographic Generalized Linear Models

Sci Rep
PMCID: 5897398
PMID: 29651124
DOI: 10.1038/s41598-018-24264-8

[…] We obtained whole genome WNV sequences from the Virus Pathogen Database and Analysis Resource using the following search criteria: Family = Flaviviridae, Genus = Flavivirus, Species = West Nile Virus, Collection Year = 1999–2012, Geography = USA, H […]


Origin and dispersal of Hepatitis E virus

PMCID: 5837148
PMID: 29410449
DOI: 10.1038/s41426-017-0009-6
call_split See protocol

[…] we also used a sub-region of Reg-2 (denoted Reg-2-short). Reg-2-short was selected to maximize the number of available African and South/Central American sequences. In particular, we downloaded from ViPR all HEV genome fragments longer than 300 nucleotides and deriving from sequences isolated in Africa and South/Central America. We aligned these fragments to complete HEV genomes and selected the […]


Probing the antigenicity of hepatitis C virus envelope glycoprotein complex by high throughput mutagenesis

PLoS Pathog
PMCID: 5749897
PMID: 29253863
DOI: 10.1371/journal.ppat.1006735

[…] For amino-acid conservation, data were obtained from the NIAID Virus Pathogen Database and Analysis Resource (ViPR) online through the web site at []. 2,345 complete genomes encompassing genotypes 1 through 7 as well as 52 unclassified geno […]


A universal genome sequencing method for rotavirus A from human fecal samples which identifies segment reassortment and multi genotype mixed infection

BMC Genomics
PMCID: 5404283
PMID: 28438140
DOI: 10.1186/s12864-017-3714-6

[…] e constellation, and a representative subsample of G1P8 RoV with a Wa-like backbone (I1-R1-C1-M1-A1-N1-T1-E1-H1) and G2P4 RoV with a DS-1-like backbone were obtained from the Virus Pathogen Resource (ViPR) database (, and manually aligned using Geneious (v9.0). Segment-specific maximum likelihood (ML) trees were then inferred using RAxML [] under the GTRGAMMA model with 500 […]


Point of sampling detection of Zika virus within a multiplexed kit capable of detecting dengue and chikungunya

BMC Infect Dis
PMCID: 5399334
PMID: 28427352
DOI: 10.1186/s12879-017-2382-0

[…] the evolutionary variation within the genomes of viral targets. Viral sequences for dengue-1 were downloaded from the Broad Institute [], while those for other targets were downloaded from the NIAID Virus Pathogen Database and Analysis Resource (ViPR) []. Multiple sequence alignments (MSAs) were created for these sequences using MUSCLE v3.8.31 []. The resulting MSAs were used as input to OligArch […]


Pathogen metadata platform: software for accessing and analyzing pathogen strain information

BMC Bioinformatics
PMCID: 5025631
PMID: 27634291
DOI: 10.1186/s12859-016-1231-2

[…] ubmission of nucleotide sequence data. BioSample and BioProject databases exchange data with their European and Japanese counterparts []. The Pathosystems Resource Integration Center (PATRIC) and the Virus Pathogen Database and Analysis Resource (ViPR) also provide standardized metadata for some pathogenic bacterial and viral genomes, respectively [, ]. The Genomes Online Database (GOLD) [], devel […]


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ViPR institution(s)
Department of Pathology, University of Texas Southwestern Medical Center, Dallas, TX, USA; Department of Statistical Science, Southern Methodist University, Dallas, TX, USA; Northrop Grumman Health IT Systems, Rockville, MD, USA; Vecna Technologies, Greenbelt, MD, USA; Division of Biomedical Informatics, University of Texas Southwestern Medical Center, Dallas, TX, USA
ViPR funding source(s)
Supported by N01-AI2008038 from the US National Institute of Allergy and Infectious Diseases, National Institutes of Health, Department of Health and Human Services.

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