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Virology and Bioinformatics from Virology.ca
Virus and bioinformatics articles with some microbiology and immunology thrown in for good measure
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Bioinformatics analysis of large-scale viral sequences: from construction of data sets to annotation of a phylogenetic tree.

Due to a significant decrease in the cost of DNA sequencing, the number of sequences submitted to the public databases has dramatically increased in recent years. Efficient analysis of these data sets may lead to a significant understanding of the nature of pathogens such as bacteria, viruses, parasites, etc. However, this has raised questions about the efficacy of currently available algorithms for the study of pathogen evolution and construction of phylogenetic trees. While the advanced algorithms and corresponding programs are being developed, it is crucial to optimize the available ones in order to cope with the current need. The protocol presented in this study is optimized using a number of strategies currently being proposed for handling large-scale DNA sequence data sets, and offers a highly efficacious and accurate method for computing phylogenetic trees with limited computer resources. The protocol may take up to 36 h for construction and annotation of a final tree of about 20,000 sequences.

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Structure and accessibility of HA trimers on intact 2009 H1N1 pandemic influenza virus to stem region-specific neutralizing antibodies

PubMed comprises more than 22 million citations for biomedical literature from MEDLINE, life science journals, and online books. Citations may include links to full-text content from PubMed Central and publisher web sites.
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Bacteria wear viral disguise to avoid immune system

Bacteria wear viral disguise to avoid immune system | Virology and Bioinformatics from Virology.ca | Scoop.it
Our immune system does an awesome job of protecting us every day from bacteria and viruses that enter our bodies. To overcome this brilliant barrier, bacteria have developed some clever strategies to avoid clearance from our immune system.
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Power Failure | The Scientist Magazine®

Power Failure | The Scientist Magazine® | Virology and Bioinformatics from Virology.ca | Scoop.it
Does mitochondrial dysfunction lie at the heart of common, complex diseases like cancer and autism?
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Human cell tropism and innate immune system interact... [J Virol. 2013] - PubMed - NCBI

Marion Koopmans's insight:

similarities and differences between the novel coronavirus and SARS

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CDC - Our Work, Our Stories 2011 to 2012 - NCEZID

CDC - Our Work, Our Stories 2011 to 2012 - NCEZID | Virology and Bioinformatics from Virology.ca | Scoop.it

first public report about NCEZID—who we are and what we do. A highlight reel of the Center’s most notable accomplishments, the report features more than 50 spotlight stories and captioned visuals that offer an engaging look at NCEZID’s work during the past 2 years to prevent infections, protect people, and save lives.

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Child born with HIV cured by US doctors

Child born with HIV cured by US doctors | Virology and Bioinformatics from Virology.ca | Scoop.it

Medical history made with first 'functional cure' of unnamed two-year-old born with the virus but now needing no medication.

Doctors began treating the baby 30 hours after birth. Unusually, they put the child on a course of three antiretroviral drugs, given as liquids through a syringe. The traditional treatment to try to prevent transmission after birth is a course of a single antiretroviral drug. The doctor opted for the more aggressive treatment because the mother had not received any during her pregnancy.

Several days later, blood drawn from the baby before treatment started showed the child was infected, probably shortly before birth. The doctors continued with the drugs and expected the child to take them for life.

However, within a month of starting therapy, the level of HIV in the baby's blood had fallen so low that routine lab tests failed to detect it.


Via Ed Rybicki
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Ed Rybicki's curator insight, March 4, 2013 3:01 AM

It would be SO good if this were generalisable to all children born to HIV+ mothers - but it's going to need a clinical trial to find out, and that is many millions of $$ and years down the track.

Chris Upton + helpers's comment, March 5, 2013 1:35 PM
Need to know the facts, remember cold fusion?
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Ewan's Blog; bioinformatician at large: The EBI's new websites...

Ewan's Blog; bioinformatician at large: The EBI's new websites... | Virology and Bioinformatics from Virology.ca | Scoop.it
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A novel coronavirus capable of lethal human infections

A novel coronavirus capable of lethal human infections | Virology and Bioinformatics from Virology.ca | Scoop.it
In September 2012, a novel coronavirus was isolated from a patient in Saudi Arabia who had died of an acute respiratory illness and renal failure.  

The clinical presentation was reminiscent of the outbreak caused by the SARS-coronavirus (SARS-CoV) exactly ten years ago that resulted in over 8000 cases. Sequence analysis of the new virus revealed that it was indeed a member of the same genus as SARS-CoV. By mid-February 2013, 12 laboratory-confirmed cases had been reported with 6 fatalities. The first 9 cases were in individuals resident in the Middle East, while the most recent 3 cases were in family members resident in the UK. The index case in the UK family cluster had travel history to Pakistan and Saudi Arabia. Although the current evidence suggests that this virus is not highly transmissible among humans, there is a real danger that it may spread to other parts of the world. Here, a brief review of the events is provided to summarize the rapidly emerging picture of this new virus.

 Coronavirus graphic courtesy of Russell Kightley Media


Via Ed Rybicki
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Ed Rybicki's curator insight, March 3, 2013 12:23 PM

It is truly amazing how fast things can be done these days: it was only in SEPTEMBER that the new virus was isolated; the latest fatality was literally in the last couple of weeks.  It remains to be seen whether or not it will spread - given its apparent lethality, we can only hope it does not!

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Viruses Can Have Immune System, Study Finds

Viruses Can Have Immune System, Study Finds | Virology and Bioinformatics from Virology.ca | Scoop.it
A new research led by Dr Kimberley Seed from the Tufts University School of Medicine provides the first evidence that bacteriophages - viruses that infect and replicate within bacteria - can acquire a...
Ben Hetman's insight:

Link to Nature Letter in body of article. 

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Big biology: The ’omes puzzle

Big biology: The ’omes puzzle | Virology and Bioinformatics from Virology.ca | Scoop.it
Where once there was the genome, now there are thousands of ’omes. Nature goes in search of the ones that matter.
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Virology Journal | Abstract | A novel coronavirus capable of lethal human infections: an emerging picture

In September 2012, a novel coronavirus was isolated from a patient in Saudi Arabia who had died of an acute respiratory illness and renal failure.
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BMC Infectious Diseases | Abstract | The impact of Rotavirus mass vaccination on hospitalization rates, nosocomial Rotavirus gastroenteritis and secondary blood stream infections

The aim of the study was to evaluate the effects of universal mass vaccination (UMV) against rotavirus (RV) on the hospitalization rates, nosocomial RV infections and RV-gastroenteritis (GE)-associated secondary blood stream infections (BSI).
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Download the Universe: A Discerning Curator for Science eBooks

Download the Universe: A Discerning Curator for Science eBooks | Virology and Bioinformatics from Virology.ca | Scoop.it
We all need guides for the overwhelming world of the Internet. Digital curators are essential to sifting through the vast and expanding supply of online content because they find the good stuff that’s worth checking out.
Chris Upton + helpers's insight:

The best free cultural & educational media on the web.....  free is good!

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Antiviral resistance among highly pathogenic influenza A (H5N1) viruses isolated worldwide in 2002-2012 shows need for continued monitoring.

PubMed comprises more than 22 million citations for biomedical literature from MEDLINE, life science journals, and online books. Citations may include links to full-text content from PubMed Central and publisher web sites.
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Letter to Simon Fraser University concerning “Vaccine Summit: Vancouver 2013” at SFU Harbour Centre. | Centre for Inquiry

Letter to Simon Fraser University concerning “Vaccine Summit: Vancouver 2013” at SFU Harbour Centre. | Centre for Inquiry | Virology and Bioinformatics from Virology.ca | Scoop.it
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Killed by a kiss: Two-month-old baby boy dies after his father infects him with the cold sore virus

Killed by a kiss: Two-month-old baby boy dies after his father infects him with the cold sore virus | Virology and Bioinformatics from Virology.ca | Scoop.it
Kaiden McCormick spent six weeks on a life-support machine at Liverpool's Alder Hey Hospital after catching the herpes simplex virus from Carl Maclaren, but doctors were unable to save him.
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BMC Bioinformatics | Abstract | GenePainter: a fast tool for aligning gene structures of eukaryotic protein families, visualizing the alignments and mapping gene structures onto protein structures

All sequenced eukaryotic genomes have been shown to possess at least a few introns. This includes those unicellular organisms, which were previously suspected to be intron-less.
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virus conferences in 2013

All biology conferences in 2013; our database is complete and updated daily. Searchable by keyword, category and location, made by biologist, for biologists.
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Marion Koopmans's comment, March 5, 2013 4:40 PM
kust added one, European society for virology, lyon, september
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The pH of Activation of the Hemagglutinin Protein Re... [J Virol. 2013] - PubMed - NCBI

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Genomics, Medicine, and Pseudoscience: Whatever happened to swine flu?

Genomics, Medicine, and Pseudoscience: Whatever happened to swine flu? | Virology and Bioinformatics from Virology.ca | Scoop.it
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Slow motion sneezing

Slow motion sneezing | Virology and Bioinformatics from Virology.ca | Scoop.it
A bit unsettling, but this is what happens when a sneeze is not contained.
Marion Koopmans's insight:

Now if people do not cover their sneeze after this, it will never happen

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Virology Journal | Abstract | A novel coronavirus capable of lethal human infections: an emerging picture | One health

Virology Journal | Abstract | A novel coronavirus capable of lethal human infections: an emerging picture | One health | Virology and Bioinformatics from Virology.ca | Scoop.it
In September 2012, a novel coronavirus was isolated from a patient in Saudi Arabia who had died of an acute respiratory illness and renal failure.
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Immunize: The Vaccine Anthem!

Get your shots on! Our parody of the Travie McCoy and Bruno Mars song "Billionaire". Lyrics and more at http://ZDoggMD.com. Also find us at http://facebook.c...

Via Ed Rybicki
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Ed Rybicki's curator insight, February 28, 2013 6:25 AM

Priceless!!  Make your children watch it!

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PLOS Computational Biology: Virus Neutralisation: New Insights from Kinetic Neutralisation Curves

PLOS Computational Biology: Virus Neutralisation: New Insights from Kinetic Neutralisation Curves | Virology and Bioinformatics from Virology.ca | Scoop.it
PLOS Computational Biology is an open-access
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