Bioinformatics and Genomics

Computational drug repositioning based on side-effects mined from social media

Editor rating: 7 / 10

Sebastian Ventura –– This is an interesting application of social media mining applied to a health related application
Unravelling potential virulence factor candidates in Xanthomonas citri. subsp. citri by secretome analysis

Editor rating: 7 / 10

Gerard Lazo –– Though focused on limited samples, the initial premise to build methodology to study the secretome may help expand approaches to screen additional mutants and help catalog genes important in the plant-microbe interaction. This work also addresses agriculturally important research.
Monogenean anchor morphometry: systematic value, phylogenetic signal, and evolution

Editor rating: 7 / 10

Jean-Lou Justine –– A very complete study with many modern techniques.
Revisiting the Zingiberales: using multiplexed exon capture to resolve ancient and recent phylogenetic splits in a charismatic plant lineage

Editor rating: 8 / 10

Alexander Mikheyev –– Provides a well-documented bioinformatic pipeline, and a comprehensive investigation of the process.
Swarm v2: highly-scalable and high-resolution amplicon clustering

Editor rating: 7 / 10

Gilles van Wezel –– the update of Swarm will hopefully be a useful bioinformtic tool for those in the field of amplicon sequencing and clustering.
Assessing the utility of the Oxford Nanopore MinION for snake venom gland cDNA sequencing

Editor rating: 7 / 10

Xavier Pochon –– This article reports the comparative performance of the MINion sequencer, a potentially disruptive field-deployable sequencing technology able to produce longer reads than most high-throughput sequencer. This technology is set to have broad applications cross-disciplines.
Phylogenetic analysis of higher-level relationships within Hydroidolina (Cnidaria: Hydrozoa) using mitochondrial genome data and insight into their mitochondrial transcription

Editor rating: 7 / 10

Mónica Medina –– It provides an improved understanding of hydrozoan phylogeny.
The apparent permeabilities of Caco-2 cells to marketed drugs: magnitude, and independence from both biophysical properties and endogenite similarities

Editor rating: 7 / 10

Maria Deli –– Drug transport across cell membranes is a fundamental process and the basis of pharmacology and clinical therapy. However, we are far from understanding the concerted action of membrane transporters, especially the contribution of the SLC family in this process. The authors challenge the field with a new hypothesis, that transporters may play a more dominant role than previously assumed, while lipid-mediated diffusion of drugs across cellular plasma membranes may be negligible. While the present paper does not provide direct proof of the concept on Caco-2 cells, the analysis of data from 15 drug transport studies obtained on this model shows no correlation between apparent permeability coefficients and biophysical properties of drugs. The paper raises important questions and suggests an interesting, at present controversial hypothesis. The scientific debate on this issue can generate new ideas and knowledge.
Brain-derived neurotrophic factor serum levels in genetically isolated populations: gender-specific association with anxiety disorder subtypes but not with anxiety levels or Val66Met polymorphism

Editor rating: 7 / 10

Bruno Gomes –– The authors added some valuable information for the BDNF association with neuropsychiatric disorders. More specifically, with the lack of association between BNDF and the Val66Met polymorphism in genetically isolated populations.
Intergenic incompatibilities reduce fitness in hybrids of extremely closely related bacteriophages

Editor rating: 7 / 10

Alexander Mikheyev –– This article addresses a fundamental question about recombination and evolution.