Bioinformatics and Genomics

On causality of extreme events

Editor rating: 7 / 10

Christopher Lortie –– broad implications on philosophy of science and interpretation.
DICOM for quantitative imaging biomarker development: a standards based approach to sharing clinical data and structured PET/CT analysis results in head and neck cancer research

Editor rating: 8 / 10

Henkjan Huisman –– Medical images are useless for research unless annotations can be added. This paper describes an elegant open source frame work to do this.
Testing the potential of a ribosomal 16S marker for DNA metabarcoding of insects

Editor rating: 8 / 10

Alexander Mikheyev –– This could be a very generally useful tool.
Estimating risks of importation and local transmission of Zika virus infection

Editor rating: 8 / 10

Giovanni Benelli –– Predicting Zika virus outbreaks is a crucial challenge in parasitology and public health sciences. This research is timely and of great interest for a wide readership.
Sequencing 16S rRNA gene fragments using the PacBio SMRT DNA sequencing system

Editor rating: 7 / 10

Christine Josenhans –– platform comparison for NGS high throughput sequencing; implementation of novel platform based on PacBio SMRT sequencing for 16S amplicon sequencing. These technologies are of prime importance in the ever-growing field of microbiome/microbiota research
A molecular classification of human mesenchymal stromal cells

Editor rating: 7 / 10

Eric Schirmer –– For many cell fate decisions differences in gene expression or proteomic data from multiple studies raises a question of what are the most appropriate molecular markers. The approach in this article of large-scale data mining is a reasonable one that can be applied more widely and provides a good set of markers for mesenchymal cells.
ColoFinder: a prognostic 9-gene signature improves prognosis for 871 stage II and III colorectal cancer patients

Editor rating: 8 / 10

Yong Wang –– High throughput technologies and machine learning method are used to reveal the signature for complex disease, which has great potential for clinical usage.
Proteome-wide prediction of targets for aspirin: new insight into the molecular mechanism of aspirin

Editor rating: 7 / 10

Pedro Silva –– Current analyses of aspirin action focus on its action in two key enzymes. In this work, the authors identify several other proteins which may be significantly inhibited by aspirin, and may be crucial in understanding the action and possible interactions of this classic drug.
Broad-scale sampling of primary freshwater fish populations reveals the role of intrinsic traits, inter-basin connectivity, drainage area and latitude on shaping contemporary patterns of genetic diversity

Editor rating: 7 / 10

William Amos –– This study is important because of its large and comprehensive geographic coverage. It should provide an excellent comparison point for future studies on other taxa, whether fish or not.
Comparison of three clustering approaches for detecting novel environmental microbial diversity

Editor rating: 7 / 10

Gilles van Wezel –– The paper compares approaches to analyse microbial biodiversity across different samples. The work thereby provides insights to scientists into which approach may best suit their needs.

Discussing these articles

My article 'A molecular classification of human mesenchymal stromal cells' published in PeerJ has 2,562 views and 8 citations! I love #OpenAccess @thePeerJ

The Japan Times: "New study estimates transmission risk of Zika virus in Japan at 16% for rest of year"
http://www.japantimes.co.jp/news/2016/04/05/national/science-health/new-study-estimates-transmission-risk-zika-virus-japan-16-rest-year/#.VwQGC_krKUk