Viruses and Bioinformatics from Virology.uvic.ca
92.7K views | +16 today
Follow
 
Scooped by Chris Upton + helpers
onto Viruses and Bioinformatics from Virology.uvic.ca
Scoop.it!

BMC Genomics | Full text | Web-based visual analysis for high-throughput genomics

Visualization plays an essential role in genomics research by making it possible to observe correlations and trends in large datasets as well as communicate findings to others.
more...
No comment yet.
Viruses and Bioinformatics from Virology.uvic.ca
Virus and bioinformatics articles with some microbiology and immunology thrown in for good measure
Your new post is loading...
Your new post is loading...
Scooped by Chris Upton + helpers
Scoop.it!

It's a group effort - the curators:

It's a group effort - the curators: | Viruses and Bioinformatics from Virology.uvic.ca | Scoop.it

get in touch if you want to help curate this topic

more...
Bwana Moses's comment, May 25, 2016 6:13 AM
Great work. Keep it going.
Bwana Moses's comment, March 7, 12:46 PM
Thank You.
Scooped by Bwana Moses
Scoop.it!

Avoiding CRISPR-Mediated Gene-Drive–Evolved Resistance in Mosquitoes

Avoiding CRISPR-Mediated Gene-Drive–Evolved Resistance in Mosquitoes | Viruses and Bioinformatics from Virology.uvic.ca | Scoop.it
New gene-editing technique could drive out mosquito-borne disease
more...
No comment yet.
Scooped by Chris Upton + helpers
Scoop.it!

ProtVista: visualization of protein sequence annotations | Bioinformatics | Oxford Academic

Summary: ProtVista is a comprehensive visualization tool for the graphical representation of protein sequence features in the UniProt Knowledgebase, experimental proteomics and variation public datasets. The complexity and relationships in this wealth of data pose a challenge in interpretation. Integrative visualization approaches such as provided by ProtVista are thus essential for researchers to understand the data and, for instance, discover patterns affecting function and disease associations.tion
more...
No comment yet.
Scooped by Bwana Moses
Scoop.it!

Phage-Phagocyte Interactions and Their Implications for Phage Application as Therapeutics

Phage-Phagocyte Interactions and Their Implications for Phage Application as Therapeutics | Viruses and Bioinformatics from Virology.uvic.ca | Scoop.it
Phagocytes are the main component of innate immunity. They remove pathogens and particles from organisms using their bactericidal tools in the form of both reactive oxygen species and degrading enzymes—contained in granules—that are potentially toxic proteins. Therefore, it is important to investigate the possible interactions between phages and immune cells and avoid any phage side effects on them. Recent progress in knowledge concerning the influence of phages on phagocytes is also important as such interactions may shape the immune response. In this review we have summarized the current knowledge on phage interactions with phagocytes described so far and their potential implications for phage therapy. The data suggesting that phage do not downregulate important phagocyte functions are especially relevant for the concept of phage therapy.
more...
No comment yet.
Scooped by Cindy
Scoop.it!

Infectious diseases: Predictions of virus spillover across species : Nature : Nature Research

Infectious diseases: Predictions of virus spillover across species : Nature : Nature Research | Viruses and Bioinformatics from Virology.uvic.ca | Scoop.it
Most human infectious diseases are initially transmitted from animals. An analysis of all known mammalian viruses improves our understanding of such cross-species spillover, with potential benefits for public health.
more...
Bwana Moses's curator insight, June 23, 7:08 PM
Share your insight
Rescooped by Kenzibit from Virology News
Scoop.it!

Health Ministry to provide free HPV vaccine to Thai children

Health Ministry to provide free HPV vaccine to Thai children | Viruses and Bioinformatics from Virology.uvic.ca | Scoop.it
BANGKOK – The Permanent Secretary of the Public Health Ministry disclosed that free HPV vaccine will be distributed to Thai children this July to maximize the prevention of rectal cancer in Thailand next year. Public Health Ministry Permanent Secretary Sophon Mekthon said the Ministry of Public Health’s objective is to make sure Thai people are …

Via Ed Rybicki
more...
No comment yet.
Scooped by Bwana Moses
Scoop.it!

Modified viruses deliver death to antibiotic-resistant bacteria

Modified viruses deliver death to antibiotic-resistant bacteria | Viruses and Bioinformatics from Virology.uvic.ca | Scoop.it
Engineered microbes turn a bacterium's immune response against itself using CRISPR.
more...
No comment yet.
Scooped by Bwana Moses
Scoop.it!

Impaired downregulation of NKG2D ligands by Nef protein from elite controllers sensitizes HIV-1-infected cells to ADCC.

J Virol. 2017 Jun 14. pii: JVI.00109-17. doi: 10.1128/JVI.00109-17. [Epub ahead of print]
more...
No comment yet.
Scooped by Chris Upton + helpers
Scoop.it!

Simulome: a genome sequence and variant simulator | Bioinformatics | Oxford Academic

Summary: Simulome provides a powerful and easy to use tool for creating prokaryotic pseudo-genomes. It provides options that can be used in combination to create mutated variants of the simulated genome, which allows for controlled testing of specific genomic conditions. Simulome can be used in combination with real reads generated from next-generation sequencing platforms, or with simulated reads.
more...
No comment yet.
Scooped by Chris Upton + helpers
Scoop.it!

Viruses

Viruses | Viruses and Bioinformatics from Virology.uvic.ca | Scoop.it


Special Issue "Viruses of Protozoa"  

Viruses, an international, peer-reviewed Open Access journal.

more...
No comment yet.
Scooped by Kenzibit
Scoop.it!

The Types Of Cancer You Can Get From HPV

The Types Of Cancer You Can Get From HPV | Viruses and Bioinformatics from Virology.uvic.ca | Scoop.it
New study suggests HPV-related genital infection can cause cervical, anal, vulvar, and vaginal cancers.
more...
No comment yet.
Rescooped by Chris Upton + helpers from Virology News
Scoop.it!

Influenza: A viral world war

Influenza: A viral world war | Viruses and Bioinformatics from Virology.uvic.ca | Scoop.it
The 1918 influenza pandemic probably infected one-third of the world's population at the time — 500 million people. It killed between 50 million and 100 million; by contrast, Second World War deaths numbered around 60 million. Why is this catastrophe

Via Ed Rybicki
more...
No comment yet.
Scooped by Bwana Moses
Scoop.it!

Ancient Retrovirus Embedded In Human Genome Helps Fight HIV-1 Infection

Ancient Retrovirus Embedded In Human Genome Helps Fight HIV-1 Infection | Viruses and Bioinformatics from Virology.uvic.ca | Scoop.it
Throughout our evolution, viruses have continually infected humans just as they do today. Some early viruses became integrated into our genome and are now known as human endogenous retroviruses (HE…
more...
No comment yet.
Scooped by Bwana Moses
Scoop.it!

Fixing CRISPR | Biotech from Bench to Business | GEN

Fixing CRISPR | Biotech from Bench to Business | GEN | Viruses and Bioinformatics from Virology.uvic.ca | Scoop.it
CRISPR/Cas9's off-target effects have raised serious concerns about its ultimate applicability to human therapies.
more...
No comment yet.
Scooped by Bwana Moses
Scoop.it!

UK Pigs at the Time of Slaughter: Investigation into the Correlation of Infection with PRRSV and HEV

UK Pigs at the Time of Slaughter: Investigation into the Correlation of Infection with PRRSV and HEV | Viruses and Bioinformatics from Virology.uvic.ca | Scoop.it
Hepatitis E virus (HEV) and porcine reproductive and respiratory syndrome virus (PRRSV) and are both globally prevalent in the pig population. While HEV does not cause clinical disease in pigs, its zoonotic potential has raised concerns in the food safety sector. PRRS has become endemic in the United Kingdom (UK) since its introduction in 1991, and continues to cause considerable economic losses to the swine industry. A better understanding of the current prevalence and diversity of PRRSV and HEV in the UK, and their potential association, is needed to assess risks and target control measures appropriately. This study used plasma, tonsil, and cecal content samples previously collected from pigs in 14 abattoirs in England and Northern Ireland to study the prevalence of several pathogens including PRRSV and HEV. The diversity of PRRSV strains detected in these samples was analyzed by sequencing open reading frame 5 (ORF5), revealing no substantial difference in PRRSV strains from these clinically unaffected pigs relative to those from clinical cases of disease in the UK. Despite the potential immuno-modulatory effect of PRRSV infection, previously demonstrated to affect Salmonella and HEV shedding profiles, no significant association was found between positive PRRSV status and positive HEV status.
more...
No comment yet.
Scooped by Cindy
Scoop.it!

Bats really do harbor more dangerous viruses than other species

Bats really do harbor more dangerous viruses than other species | Viruses and Bioinformatics from Virology.uvic.ca | Scoop.it
A new study is set to end a long-running debate among virus ecologists
more...
No comment yet.
Rescooped by Kenzibit from Virology News
Scoop.it!

Host and viral traits predict zoonotic spillover from mammals

The majority of human emerging infectious diseases are zoonotic, with viruses that originate in wild mammals of particular concern (for example, HIV, Ebola and SARS). Understanding patterns of viral diversity in wildlife and determinants of successful cross-species transmission, or spillover, are therefore key goals for pandemic surveillance programs. However, few analytical tools exist to identify which host species are likely to harbour the next human virus, or which viruses can cross species boundaries. Here we conduct a comprehensive analysis of mammalian host–virus relationships and show that both the total number of viruses that infect a given species and the proportion likely to be zoonotic are predictable. After controlling for research effort, the proportion of zoonotic viruses per species is predicted by phylogenetic relatedness to humans, host taxonomy and human population within a species range—which may reflect human–wildlife contact. We demonstrate that bats harbour a significantly higher proportion of zoonotic viruses than all other mammalian orders. We also identify the taxa and geographic regions with the largest estimated number of ‘missing viruses’ and ‘missing zoonoses’ and therefore of highest value for future surveillance. We then show that phylogenetic host breadth and other viral traits are significant predictors of zoonotic potential, providing a novel framework to assess if a newly discovered mammalian virus could infect people.

Via Ed Rybicki
more...
No comment yet.
Rescooped by Kenzibit from Host Cell & Pathogen Interactions
Scoop.it!

Modified viruses deliver death to antibiotic-resistant bacteria

Modified viruses deliver death to antibiotic-resistant bacteria | Viruses and Bioinformatics from Virology.uvic.ca | Scoop.it
Engineered microbes turn a bacterium's immune response against itself using CRISPR.
more...
No comment yet.
Scooped by Bwana Moses
Scoop.it!

Ebola vaccine developed in Canada shows promising results

Ebola vaccine developed in Canada shows promising results | Viruses and Bioinformatics from Virology.uvic.ca | Scoop.it
A phase 1 randomized controlled trial has found an Ebola virus disease (EVD) vaccine, developed in Canada, was well-tolerated with no safety concerns, and high antibodies were presen
more...
No comment yet.
Scooped by Bwana Moses
Scoop.it!

 Hepatitis B Virus Immunopathology, Model Systems, and Current Therapies

Most people develop acute HBV-related hepatitis that is controlled by both humoral and cellular immune responses following acute infection. However, a number of individuals in HBV-endemic areas fail to resolve the infection and consequently become chronic carriers. While a vaccine is available and new antiviral drugs are being developed, elimination of persistently infected cells is still a major issue. Standard treatment in HBV infection includes IFN-α, nucleoside, or nucleotide analogues, which has direct antiviral activity and immune modulatory capacities. However, immunological control of the virus is often not durable. A robust T-cell response is associated with control of HBV infection and liver damage; however, HBV-specific T cells are deleted, dysfunctional or become exhausted in chronic hepatitis patients. As a result, efforts to restore virus-specific T-cell immunity in chronic HBV patients using antiviral therapy, immunomodulatory cytokines, or therapeutic vaccination have had little success. Adoptive cell transfer of T cells with specificity for HBV antigen+ cells represents an approach aiming to ultimately eliminate residual hepatocytes carrying HBV covalently closed circular DNA (cccDNA). Here, we discuss recent findings describing HBV immunopathology, model systems and current therapies.
more...
No comment yet.
Rescooped by Kenzibit from Immunology and Biotherapies
Scoop.it!

Viral vectors travel longer distances than previously thought

Viral vectors travel longer distances than previously thought | Viruses and Bioinformatics from Virology.uvic.ca | Scoop.it
Gene transfer is seen as a hopeful therapy for Alzheimer's and Parkinson's patients. The approach involves using harmless laboratory-produced viruses to introduce important genes into the brain cells. In a study on mice

Via Gilbert C FAURE
more...
No comment yet.
Scooped by Chris Upton + helpers
Scoop.it!

Phyx: phylogenetic tools for unix | Bioinformatics | Oxford Academic

Abstract Summary: The ease with which phylogenomic data can be generated has drastically escalated the computational burden for even routine phylogenetic investigations. To address this, we present phyx : a collection of programs written in C ++ to explore, manipulate, analyze and simulate phylogenetic objects (alignments, trees and MCMC logs). Modelled after Unix/GNU/Linux command line tools, individual programs perform a single task and operate on standard I/O streams that can be piped to quickly and easily form complex analytical pipelines. Because of the stream-centric paradigm, memory requirements are minimized (often only a single tree or sequence in memory at any instance), and hence phyx is capable of efficiently processing very large datasets.
more...
No comment yet.
Scooped by Chris Upton + helpers
Scoop.it!

A systemic macrophage response is required to contain a peripheral poxvirus infection

A systemic macrophage response is required to contain a peripheral poxvirus infection | Viruses and Bioinformatics from Virology.uvic.ca | Scoop.it
Author summary Prior to the eradication of variola virus, the orthopoxvirus that causes smallpox, one-third of infected people succumbed to the disease. Despite many complications, smallpox vaccination using vaccinia virus enabled a successful eradication of the disease. Following smallpox eradication, vaccinia (the smallpox vaccine) remains a widely used vaccine vector, so any information about the immune response to the vector can help engineer safer vaccines, or treatment, following complications of immunization. During natural infection, orthopoxviruses spread from a peripheral site of infection to become systemic. This study elucidates the early requirement of innate immune cells to control spread of the smallpox vaccine vector after a peripheral infection. We report that systemic populations of cells, rather than those recruited to the site of infection, are responsible for preventing virus dissemination. The viral control mediated by these cell subsets presents a potential target for therapies and rational vaccine design.
more...
No comment yet.
Scooped by Ed Rybicki
Scoop.it!

The effect of intrauterine devices on acquisition and clearance of human papillomavirus

The effect of intrauterine devices on acquisition and clearance of human papillomavirus | Viruses and Bioinformatics from Virology.uvic.ca | Scoop.it
Previous studies have shown a decrease in cervical cancer associated with intrauterine
device use. It has been hypothesized that intrauterine device use may alter the natural
history of human papillomavirus infections, preempting development of precancerous
lesions of the cervix and cervical cancer, but the effect of intrauterine devices
on the natural history of human papillomavirus infection and subsequent development
of cervical cancer is poorly understood.
more...
No comment yet.
Rescooped by Bwana Moses from Viral Modeling and Simulation
Scoop.it!

In Vivo Imaging of Influenza Virus Infection in Immunized Mice

Immunization is the cornerstone of seasonal influenza control and represents an important component of pandemic preparedness strategies. Using a bioluminescent reporter virus, we demonstrate the application of noninvasive in vivo imaging system (IVIS) technology to evaluate the preclinical efficacy of candidate vaccines and immunotherapy in a mouse model of influenza. Sequential imaging revealed distinct spatiotemporal kinetics of bioluminescence in groups of mice passively or actively immunized by various strategies that accelerated the clearance of the challenge virus at different rates and by distinct mechanisms. Imaging findings were consistent with conclusions derived from virus titers in the lungs and, notably, were more informative than conventional efficacy endpoints in some cases. Our findings demonstrate the reliability of IVIS as a qualitative approach to support preclinical evaluation of candidate medical countermeasures for influenza in mice.

Via burkesquires
more...
No comment yet.