Messenger RNA Sequence Rather than Protein Sequence Determines the Level of Self-synthesis and Antigen Presentation of the EBV-encoded Antigen, EBNA1 [PDF]
, 2012 peer-reviewedViruses establishing persistent latent infections have evolved various mechanisms to avoid immune surveillance. The Epstein-Barr virus-encoded nuclear antigen, EBNA1, expressed in all EBV-associated malignancies, modulates its own protein ...
David J Lynn +14 more
core +1 more source
MosaicSolver : a tool for determining recombinants of viral genomes from pileup data [PDF]
, 2014 Viral recombination is a key evolutionary mechanism, aiding escape from host immunity, contributing to changes in tropism and possibly assisting transmission across species barriers.
Burroughs, Nigel +8 more
core +1 more source
An Evaluation of Phylogenetic Workflows in Viral Molecular Epidemiology
Viruses, 2022 The use of viral sequence data to inform public health intervention has become increasingly common in the realm of epidemiology. Such methods typically utilize multiple sequence alignments and phylogenies estimated from the sequence data.
Colin Young, Sarah Meng, Niema Moshiri
doaj +1 more source
Dominant-Negative Proteins in Herpesviruses - From Assigning Gene Function to Intracellular Immunization [PDF]
, 2009 Investigating and assigning gene functions of herpesviruses is a process, which profits from consistent technical innovation. Cloning of bacterial artificial chromosomes encoding herpesvirus genomes permits nearly unlimited possibilities in the ...
Christian A. Mohr +9 more
core +1 more source
MRKAd5 HIV-1 Gag/Pol/Nef vaccine-induced T-cell responses inadequately predict distance of breakthrough HIV-1 sequences to the vaccine or viral load. [PDF]
PLoS ONE, 2012 The sieve analysis for the Step trial found evidence that breakthrough HIV-1 sequences for MRKAd5/HIV-1 Gag/Pol/Nef vaccine recipients were more divergent from the vaccine insert than placebo sequences in regions with predicted epitopes.
Holly Janes +13 more
doaj +1 more source
Natural recombination in alphaherpesviruses: Insights into viral evolution through full genome sequencing and sequence analysis [PDF]
Infection, Genetics and Evolution, 2017 Recombination in alphaherpesviruses was first described more than sixty years ago. Since then, different techniques have been used to detect recombination in natural (field) and experimental settings. Over the last ten years, next-generation sequencing (NGS) technologies and bioinformatic analyses have greatly increased the accuracy of recombination ...
Carlos A Loncoman +6 more
openaire +3 more sources
Vaccination reduces the viral load and the risk of transmission of Jembrana disease virus in Bali cattle [PDF]
, 2009 The efficacy of a tissue-derived vaccine, which is currently used in Indonesia to control the spread of Jembrana disease in Bali cattle, was determined by quantifying the viral load in plasma following experimental infection with Jembrana disease virus ...
Wilcox, G.E. +11 more
core +1 more source
Rapid screening and identification of viral pathogens in metagenomic data
BMC Medical Genomics, 2021 Background Virus screening and viral genome reconstruction are urgent and crucial for the rapid identification of viral pathogens, i.e., tracing the source and understanding the pathogenesis when a viral outbreak occurs.
Shiyang Song +6 more
doaj +1 more source
Deep sequencing analysis of viral infection and evolution allows rapid and detailed characterization of viral mutant spectrum [PDF]
Bioinformatics, 2015 Abstract Motivation: The study of RNA virus populations is a challenging task. Each population of RNA virus is composed of a collection of different, yet related genomes often referred to as mutant spectra or quasispecies. Virologists using deep sequencing technologies face major obstacles when studying virus population dynamics, both ...
Ofer Isakov +8 more
openaire +3 more sources
Segmenting bacterial and viral DNA sequence alignments with a trans-dimensional phylogenetic factorial hidden Markov model [PDF]
, 2009 The traditional approach to phylogenetic inference assumes that a single phylogenetic tree can represent the relationships and divergence between the taxa. However, taxa sequences exhibit varying levels of conservation, e.g.
Husmeier, D. +3 more
core +1 more source