Bioinformatics and Genomics

Comparative proteomics of Rhizopus delemar ATCC 20344 unravels the role of amino acid catabolism in fumarate accumulation

Editor rating: 8 / 10

Vladimir Uversky –– Interesting and important data are provided on the peculiarities and mechanisms of fumarate accumulation in Rhizopus delemar ATCC 20344
Systematic drug repositioning through mining adverse event data in ClinicalTrials.gov

Editor rating: 8 / 10

Walter de Azevedo Jr. –– Drug repositioning is a hot topic in drug development and application of computational tools to improve the chances of success of this methodology is of great interest for a broad spectrum of researchers. The present manuscript reports an interesting analysis of drug repositioning using data from randomized clinical trials available at clinicaltrials.gov. The authors used text mining tools to extract serious adverse event data and their results indicate new uses of existing drugs. In my view, the most important contribution of the present work is the method itself, which could be used for drug repositioning not only for cancer but also for other diseases.
Curvature reduces bending strains in the quokka femur

Editor rating: 7 / 10

Philip Cox –– Because, although the focus of the article is one particular bone in one species of mammal, the results have implications for understanding the biomechanics of bones much more widely.
Effect of method of deduplication on estimation of differential gene expression using RNA-seq

Editor rating: 7 / 10

Vsevolod Makeev –– It contains a valuable know-how, the important part of bioinformatics practice that is seldom become explained in detail in publications.
BinSanity: unsupervised clustering of environmental microbial assemblies using coverage and affinity propagation

Editor rating: 8 / 10

Ugo Bastolla –– I think that the new method will make a useful contribution in the fast developing field of microbiota analysis
Transcriptomic analysis reveals metabolic switches and surface remodeling as key processes for stage transition in Trypanosoma cruzi

Editor rating: 8 / 10

Tomas Perez-Acle –– A parsimoniously executed research and well written article about transcriptomic studies on T. cruzi that may shed lights on novel targets for the treatment of the chronic disease produced by this parasite.
Facilitating permeability of landscapes impacted by roads for protected amphibians: patterns of movement for the great crested newt

Editor rating: 7 / 10

Stephen Wratten –– vital work on amphibian movement dynamics
Development and validation of a 36-gene sequencing assay for hereditary cancer risk assessment

Editor rating: 8 / 10

D. Gareth Evans –– Panel tests are becoming the bespoke test for cancer predisposition
­Genomic data mining of the marine actinobacteria Streptomyces sp. H-KF8 unveils insights into multi-stress related genes and metabolic pathways involved in antimicrobial synthesis

Editor rating: 8 / 10

Valeria Souza –– Streptomyces is a very interesting genera with wide metabolic capabilities, the genome is a confirmation of this interesting metabolism
Finding melanoma drugs through a probabilistic knowledge graph

Editor rating: 7 / 10

Yonghong Peng –– Interesting work.

Discussing these articles

136 days ago
Counsyl's 'Development and validation of a 36-gene sequencing assay for hereditary cancer risk assessment' was one of the top 5 most viewed #MedicalGenetics and #Oncology articles published in @thePeerJ journal in 2017! https://t.co/kmdUy2YD1b

Great! 1st citation of my 'Transcriptomic analysis reveals metabolic switches and surface remodeling as key processes for stage transition in Trypanosoma cruzi' article published in #OpenAccess journal @thePeerJ https://t.co/uEbwtUndKm

229 days ago
New #roadecology research describes tunnel-fencing system for mitigating road impacts on newts https://t.co/LdNRfEgful

#WebSci17 work presented is based on paper "Finding melanoma drugs through a probabilistic knowledge graph" at https://t.co/lON8fI8vTU

Systematic drug repositioning through mining adverse event data in https://t.co/ztQTgQ2iGI https://t.co/2VJ2Sf3GHw