Bioinformatics and Genomics

Translating genomics into practice for real-time surveillance and response to carbapenemase-producing Enterobacteriaceae: evidence from a complex multi-institutional KPC outbreak

Editor rating: 9 / 10

Nicholas Loman –– This is a really well worked example of how whole genome sequencing is transforming public health surveillance of infectious diseases.
A gene expression-based risk model reveals prognosis of gastric cancer

Editor rating: 7 / 10

Yong Wang –– The authors provide a potential useful diagnostic model for gastric cancer by using omics data
Profiling soil microbial communities with next-generation sequencing: the influence of DNA kit selection and technician technical expertise

Editor rating: 7 / 10

Juan Riesgo-Escovar –– It addresses methodological problems that hinder comparison of these type of results from different publications.
Simulations indicate that scores of lionfish (Pterois volitans) colonized the Atlantic Ocean

Editor rating: 7 / 10

Mark Hixon –– This study provides insight on the size of the founding introduced population that gave rise to one of the worst marine invasions in history.
Genome-wide identification of ABA receptor PYL family and expression analysis of PYLs in response to ABA and osmotic stress in Gossypium

Editor rating: 10 / 10

Pankaj Jaiswal –– It contributes to PYL gene family annotation in cotton.
A microbial survey of the International Space Station (ISS)

Editor rating: 9 / 10

Joël Mossong –– This is an interesting article on the microbial contamination of an unusual habitat in space, the international space station.
Development of medical informatics in China over the past 30 years from a conference perspective and a Sino-American comparison

Editor rating: 8 / 10

Yuriy Orlov –– It raises new questions on global influence on science, and cross-country science competition. In this case in medical informatics.
Uncovering the relationship and mechanisms of Tartary buckwheat (Fagopyrum tataricum) and Type II diabetes, hypertension, and hyperlipidemia using a network pharmacology approach

Editor rating: 9 / 10

Juan Rodriguez-Flores –– While many different studies compare diets on a broad level in terms of their impact on T2D, this study takes a unique approach and looks at a particular food (buckwheat) in terms of its biochemical composition and the medicinal value of each compound. This is a valuable approach that should be conducted extensively for other foods with presumable medicinal value, i.e. non-pharmaceutical risk reduction or treatment of disease.
PBxplore: a tool to analyze local protein structure and deformability with Protein Blocks

Editor rating: 9 / 10

Walter de Azevedo Jr. –– The authors report the development and application of a suite of tools, called PBxplore. This computational tool can be used to analyze the dynamics and deformability of protein structures using Protein Blocks (PBs). It is an interesting development for scientists interesting in molecular dynamics simulations of protein structures.
Coral-associated viral communities show high levels of diversity and host auxiliary functions

Editor rating: 7 / 10

Fabiano Thompson –– addresses virus diversity in reef systems, and roles in genome plasticity.

Discussing these articles

145 days ago
Our paper on WGS to inform the public health response to a complex state-wide KPC outbreak in @thePeerJ https://t.co/AGHHHEJcCz with @BenjaminHowden @tstinear @torstenseemann and many others

Ever wonder how many lionfish spawned the invasion in the Atlantic? Probably over 100! https://t.co/XHpPpH52ud

Profiling soil microbial communities with next-generation sequencing: the influence of DNA kit selection and technician technical expertise https://t.co/7Yb3oztKOm

A microbial survey of the ISS. https://t.co/DMdgTYuwLi via @thePeerJ

187 days ago
Four way #VennDiagram caught my eye in @thePeerJ email, expected #DataViz disaster, but turns out it not that bad a choice as the set overlaps here are relatively small https://t.co/KPy3hJ63JF

My article has been published today in @thePeerJ https://t.co/jHwNBx4ZGb #Bioinformatics #ComputationalBiology #MolecularBiology

New #GBR coral virome article published in @thePeerJ https://t.co/ijZU4k7qwM #Genomics #MarineBiology #Microbiology #MolecularBiology #Virology

Discover Magazine: Dozens—Perhaps Even Hundreds—of Lionfish Likely Launched the Atlantic Invasion
http://blogs.discovermagazine.com/science-sushi/2017/12/27/dozens-perhaps-even-hundreds-of-lionfish-likely-launched-the-atlantic-invasion/

Popular Science: "Scientists are trying to figure out which bacteria have colonized our space station"
https://www.popsci.com/ISS-microbiome

The space station is about as sanitary as your run-of-the-mill bachelor pad
https://www.digitaltrends.com/cool-tech/space-station-is-chock-full-of-germs/

The International Space Station is super germy
https://www.washingtonpost.com/news/speaking-of-science/wp/2017/12/05/the-international-space-station-is-super-germy/

The International Space Station is swarming with bacteria
https://cosmosmagazine.com/biology/the-international-space-station-is-swarming-with-bacteria

Just Like Home: Space Station Has Same Microbes As Your House
https://www.space.com/38980-space-station-bacteria-similar-human-homes-study.html

The ISS Bacterial Community Resembles What You'd Find in Your Home
https://www.seeker.com/space/the-iss-bacterial-community-resembles-what-youd-find-in-your-home

International Space Station colonised by mysterious bugs – including ‘alien’ bacteria
http://metro.co.uk/2017/12/05/international-space-station-colonised-mysterious-bugs-including-alien-bacteria-7134669/

'Diverse' bacteria found on International Space Station like that on Earth, scientists reveal
http://www.independent.co.uk/news/science/nasa-international-space-station-bacteria-found-earth-home-humans-study-iss-a8092756.html

The bacterial community on the International Space Station resembles homes
https://phys.org/news/2017-12-bacterial-international-space-station-resembles.html