Continuing our “Ten Simple Rules” series [1–5], we consider here what it takes to make a good oral presentation. While the rules apply broadly across disciplines, they are certainly important from the perspective of this readership. Clear and logical delivery of your ideas and scientific results is an important component of a successful scientific career. Presentations encourage broader dissemination of your work and highlight work that may not receive attention in written form.
Via Thanh Nien Daily: Vietnam sees vaccination rush as measles deaths hit 123. Excerpt: Adults and children have been flocking the Pasteur Institute in Ho Chi Minh City to seek measles vaccination as the fatalities on infected children have reached...
The molecule, named BCX4430, resembles the famous "A" found in DNA: adenosine. (Recall that DNA is made of Adenosine, Thymidine, Cytidine and Guanosine.) The RNA-based filoviruses also use "A" in their genomes. BCX4430, because it resembles "A", can be accidentally used by the virus when it is trying to grow inside of our cells. For the virus, this is a fatal mistake. BCX4430 blocks further growth and reproduction.
Certain strains of human papillomavirus (HPV) are known to cause about five percent of all cancer cases, yet all the mechanisms aren't completely understood. Now, researchers have leveraged Ohio Supercomputer Center resources and whole-genome sequencing to identify a new way that HPV might spark cancer development -- by disrupting the human DNA sequence with repeating loops when HPV is inserted into host-cell DNA as it replicates.
A team of French and Brazilian researchers warn that chikungunya virus is poised to invade, and become epidemic in the Americas according to research published ahead of print in the Journal of Virology.
Maybe it is worth remembering why we even have N50 as a statistic. The final assembly for any genome project, i.e. the one that is described in a paper or uploaded to a database, is not necessarily the biggest assembly that was generated.
biodiversity, data mobilization, data, publishing, data, acquisition, data, curation data, synthesis, data, interoperability, linked, data, flora, fauna, taxon, treatment, legacy, literature, prospective, publishing, semantic, interoperability, taxonomy, coordination, policy, development, European Open Biodiversity Knowledge Management System, dissemination, mark up, persistent, identifiers
Chris Upton + helpers's insight:
During the recent pro-iBiosphere Data Enrichment Hackathon, a prototype Taverna Player Client Python package was developed for IPython Notebook. The package allows the listing of workflows available on a Taverna Portal, selection of a workflow and the running of the workflow within the Notebook. Data from the Python environment can be used as inputs to the workflow, and the results of the workflow run are available for further manipulation in the notebook. User can interact with the running of the workflow using the Taverna Player and interaction services.
Scientists at the University of Iceland, in collaboration with American and Icelandic colleagues, demonstrated that bird flu viruses from both continental Europe and North-America, as well as mixed virus strains are found in wild birds in Iceland.
In a new article, researchers have published their initial findings on the characteristics of the Ebola virus discovered in Guinea. Initial virological investigations enabled them to identify Zaire ebolavirus as the pathogen responsible for this epidemic.
The type I IFN inducible factor tetherin retains virus particles on the surface of cells infected with vpu-deficient HIV-1. While this mechanism inhibits cell-free viral spread, the immunological implications of tethered virus have not been investigated. We found that surface tetherin expression increased the antibody opsonization of vpu-deficient HIV-infected cells.
Somebody's definitely getting fired, after over 2,300 vials containing fragments of the deadly SARS virus went missing from the Pasteur Institute in France earlier this week. Not one or two vials, mind you. Thousands of them.
Motivation: Genomic islands (GIs) are DNA fragments incorporated into a genome through horizontal gene transfer (also called lateral gene transfer), often with functions novel for a given organism. While methods for their detection are well researched in prokaryotes, the complexity of eukaryotic genomes makes direct utilization of these methods unreliable, and so labour-intensive phylogenetic searches are used instead.
Results: We present a surrogate method that investigates nucleotide base composition of the DNA sequence in a eukaryotic genome and identifies putative GIs. We calculate a genomic signature as a vector of tetranucleotide (4-mer) frequencies using a sliding window approach. Extending the neighbourhood of the sliding window, we establish a local kernel density estimate of the 4-mer frequency. We score the number of4-mer frequencies in the sliding window that deviate from the credibility interval of their local genomic density using a newly developed discrete interval accumulative score (DIAS). To further improve the effectiveness of DIAS, we select informative 4-mers in a range of organisms using the tetranucleotide quality score developed herein. We show that the SigHunt method is computationally efficient and able to detect GIs in eukaryotic genomes that represent non-ameliorated integration. Thus, it is suited to scanning for change in organisms with different DNA composition.
Ben Goldacre: We now know the government's Tamiflu stockpile wouldn't have done us much good in the event of a flu epidemic. But the secrecy surrounding clinical trials means there's a lot we don't know about other medicines we take
Chris Upton + helpers's insight:
It's sad that this causes distrust that spills over to vaccines - which WORK!