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Using Math to make Guinness | Sci-Ed

Using Math to make Guinness | Sci-Ed | Tools and tips for scientific tinkers and tailors | Scoop.it
Let me tell you a story about William Sealy Gosset. William was a Chemistry and Math grad from Oxford University in the class of 1899 (they were partying like it was 1899 back then).
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Tools and tips for scientific tinkers and tailors
Next gen sequencing, bioinformatics, virology, microbiology, genomes, zoonoses, workshops, conferences, all-around science geekery
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Mapping Human Disease: ‘Not All Pathogens Are Everywhere’

Mapping Human Disease: ‘Not All Pathogens Are Everywhere’ | Tools and tips for scientific tinkers and tailors | Scoop.it
NC State researchers map human disease pathogens, find
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The RNA-seqlopedia – an overview of RNA-seq and of the choices necessary to carry out a successful RNA-seq experiment | RNA-Seq Blog

RNA-seq produces millions of sequences from complex RNA samples. With this powerful approach, you can: Measure gene expression. Discover and annotate
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Molecular Characterization of Three Zika Flaviviruses Obtained from Sylvatic Mosquitoes in the Central African Republic

Vector-Borne and Zoonotic Diseases Dec 2014, Vol. 14, No. 12: 862-865.
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Are we sequencing too deep?

Are we sequencing too deep? | Tools and tips for scientific tinkers and tailors | Scoop.it
RNA-seq is increasingly used to study gene expression of various organisms. While it provides a great opportunity to explore genome-scale transcriptional patterns with tremendous depth, it comes with prohibitive costs.
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Making Single-Cell Biology Work | RNA-Seq Blog

New Collaboration Between EMBL-EBI, the Wellcome Trust Sanger Institute and Fluidigm Keeps Research and Technology on the Cutting-Edge of Single-Cell
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Announcing the Assemblathon 'publish for free' contest

The Assemblathon 2 paper won the 2013 BioMed Central Research Award for Open Data. Typically these Research Awards are presented to individual scientists and winners receive a small cash prize in recognition for their efforts.
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Dengue fever vaccine on the cards after novel antibody discovery

The antibodies could be used to treat dengue fever or develop a vaccine that works against all four strains of virusA new class of antibody found in the blood of patients with dengue fever has boosted hopes for a vaccine against the virus, which...
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A Massively Parallel Pipeline to Clone DNA Variants and Examine Molecular Phenotypes of Human Disease Mutations

A Massively Parallel Pipeline to Clone DNA Variants and Examine Molecular Phenotypes of Human Disease Mutations | Tools and tips for scientific tinkers and tailors | Scoop.it
PLOS Genetics is an open-access
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Targeted Resequencing Data Analysis in a Case-Control Study of a Disease

Customer and AccuraScience LB discussed over phone about analysis strategies of a set of targeted resequencing dataset (targeting 12 genes) in a case-control study of a complex disease. AccuraScien...
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Welcome! — Practical bioinformatics needs survey 1.0 documentation

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Frontiers | Evolution of small prokaryotic genomes | Microbial Symbioses

As revealed by genome sequencing, the biology of prokaryotes with reduced genomes is strikingly diverse. These include free-living prokaryotes with ~800 genes as well as endosymbiotic bacteria with as few as ~140 genes. Comparative genomics is revealing the evolutionary mechanisms that led to these small genomes. In the case of free-living prokaryotes, natural selection directly favored genome reduction, while in the case of endosymbiotic prokaryotes neutral processes played a more prominent role. However, new experimental data suggest that selective processes may be at operation as well for endosymbiotic prokaryotes at least during the first stages of genome reduction. Endosymbiotic prokaryotes have evolved diverse strategies for living with reduced gene sets inside a host-defined medium. These include utilization of host-encoded functions (some of them coded by genes acquired by gene transfer from the endosymbiont and/or other bacteria); metabolic complementation between co-symbionts; and forming consortiums with other bacteria within the host. Recent genome sequencing projects of intracellular mutualistic bacteria showed that previously believed universal evolutionary trends like reduced G+C content and conservation of genome synteny are not always present in highly reduced genomes. Finally, the simplified molecular machinery of some of these organisms with small genomes may be used to aid in the design of artificial minimal cells. Here we review recent genomic discoveries of the biology of prokaryotes endowed with small gene sets and discuss the evolutionary mechanisms that have been proposed to explain their peculiar nature.
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Epidemiological and viral genomic sequence analysis of the 2014 Ebola outbreak reveals clustered transmission

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Reducing complexity: a visualisation of multimorbidity by combining disease clusters and triads

Background:
Multimorbidity is highly prevalent in the elderly and relates to many adverse outcomes, such as higher mortality, increased disability and functional decline.
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Molecular Survey of RNA Viruses in Hungarian Bats: Discovering Novel Astroviruses, Coronaviruses, and Caliciviruses

Vector-Borne and Zoonotic Diseases Dec 2014, Vol. 14, No. 12: 846-855.
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Molecular principles of human virus protein–protein interactions

Molecular principles of human virus protein-protein interactions http://t.co/uq25assBUq #feedly
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Virology tidbits: Rift Valley Fever Virus and Autophagy: MyD88 and DRAM-1

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Eagle Genomics Announces 4-Year Agreement with Procter & Gamble for Use of Bioinformatics Platform, eaglecore

4-Year Agreement with Procter & Gamble for @eaglegen's Bioinformatics Platform, eaglecore http://t.co/4EDVELCo50
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Microbial Programming of Systemic Innate Immunity and Resistance to Infection

From molecules to physiology
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Evolutionary Phylodynamics of Korean Noroviruses Reveals a Novel GII.2/GII.10 Recombination Event

by Thoi Cong Truong, Van Thai Than, Wonyong Kim
Viral gastroenteritis is the most common causal agent of public health problems worldwide. Noroviruses cause nonbacterial acute gastroenteritis in humans of all ages.
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Comparative evaluation of gene set analysis approaches for RNA-Seq data

Background:
Over the last few years transcriptome sequencing (RNA-Seq) has almost completely taken over microarrays for high-throughput studies of gene expression.
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Genome sequencing traces MRSA spread in high transmission setting

a_scanning_electron_micrograph_of_methicillinresistant_staphylococcus_aureus_mrsa_magnified_2381x_methicillinresistant_staphylococcus_aureus_mrsa_is_a_common_cause_of_hospitalacquired_infections_with_the_largest_burden_of_infections_occurri...
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Functional assignment of metagenomic data: challenges and applications

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Totally RAD #RADseq methods

Puritz et al. (2014) weigh the pros and cons of, the aptly titled, “RAD fad” in a comment recently published online in Molecular Ecology. They challenge: (1) the assertion that the original RAD pro...
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A Synopsis of an Unusual Pneumonic Plague Outbreak in Madagascar, 2011

A Synopsis of an Unusual Pneumonic Plague Outbreak in Madagascar, 2011 | Tools and tips for scientific tinkers and tailors | Scoop.it
Plague appears in Madagascar every year, but it can still come as a surprise. It did in the January of 2011 when it appeared in an area of northern Madagascar that had never had an outbreak before....
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