Peer-reviewed Articles

This paper describes the development and application of a suite of tools, called PBxplore, to analyze the dynamics and deformability of protein structures using Protein Blocks (PBs). Proteins are highly dynamic macromolecules, and a classical way to analyze their...

["Bioinformatics","Computational Biology","Molecular Biology"]
doi:10.7717/peerj.4013
21 downloads
153 views

Morphological differentiation among closely related species provides opportunities to study mechanisms shaping natural phenotypic variation. Here, we address variation in the orientation of melanin-colored body stripes in three cichlid species of the tribe Haplochromini....

["Aquaculture, Fisheries and Fish Science","Biodiversity","Evolutionary Studies","Molecular Biology","Zoology"]
doi:10.7717/peerj.4080
20 downloads
141 views

Extensive investigations over the recent decades have established the anatomical, biomechanical and functional importance of the meniscus in the knee joint. As a functioning part of the joint, it serves to prevent the deterioration of articular cartilage and subsequent...

["Biotechnology","Kinesiology","Orthopedics"]
doi:10.7717/peerj.4076
21 downloads
179 views

Modern genome sequencing strategies are highly sensitive to contamination making the detection of foreign DNA sequences an important part of analysis pipelines. Here we use Taxoblast, a simple pipeline with a graphical user interface, for the post-assembly detection...

["Bioinformatics","Genomics","Plant Science"]
doi:10.7717/peerj.4073
13 downloads
96 views

Background Clear cell renal cell carcinoma (ccRCC) is the most common and lethal cancer of the adult kidney. However, its pathogenesis has not been fully understood till now, which hinders the therapeutic development of ccRCC. NADH dehydrogenase (ubiquinone) 1...

["Genomics","Molecular Biology","Oncology"]
doi:10.7717/peerj.4065
13 downloads
107 views

Background Oral tongue squamous cell carcinoma (OTSCC) is the most common subtype of oral cancer. A predictive gene signature is necessary for prognosis of OTSCC. Methods Five microarray data sets of OTSCC from the Gene Expression Omnibus (GEO) and one data set...

["Bioinformatics","Computational Biology","Genetics","Genomics","Oncology"]
doi:10.7717/peerj.4062
19 downloads
152 views

Prophages have been considered genetic units that have an intimate association with novel phenotypic properties of bacterial hosts, such as pathogenicity and genomic variation. Little is known about the genetic information of prophages in the genome of Streptococcus...

["Bioinformatics","Microbiology"]
doi:10.7717/peerj.4057
26 downloads
137 views

Stony corals (Scleractinia) are marine invertebrates that form the foundation and framework upon which tropical reefs are built. The coral animal associates with a diverse microbiome comprised of dinoflagellate algae and other protists, bacteria, archaea, fungi...

["Genomics","Marine Biology","Microbiology","Molecular Biology","Virology"]
doi:10.7717/peerj.4054
12 downloads
103 views

Background The perioperative period is important for patient outcome. Colorectal cancer surgery can lead to metastatic disease due to release of disseminated tumor cells and the induction of surgical stress response. To explore the overall effects on surgically-induced...

["Cell Biology","Oncology"]
doi:10.7717/peerj.4033
14 downloads
240 views

Ginsenoside Rk1 (G-Rk1) is a unique component created by processing the ginseng plant (mainly Sung Ginseng (SG)) at high temperatures. The aim of our study was to systematically review the pharmacological effects of G-Rk1. We utilized and manually searched eight...

["Plant Science","Evidence Based Medicine","Pharmacology"]
doi:10.7717/peerj.3993
45 downloads
498 views

The koala has evolved to become a specialist Eucalyptus herbivore since diverging from its closest relative, the wombat, a generalist herbivore. This niche adaptation involves, in part, changes in the gut microbiota. The goal of this study was to compare koala...

["Genomics","Microbiology"]
doi:10.7717/peerj.4075
209 downloads
308 views

Background Antimicrobial use in livestock production is an important contemporary issue, which is of public interest worldwide. Antimicrobials are not freely available to Austrian farmers and can only be administered to livestock by veterinarians, or by farmers...

["Agricultural Science","Veterinary Medicine","Epidemiology","Infectious Diseases","Public Health"]
doi:10.7717/peerj.4072
18 downloads
90 views

Evaluation of depth of anaesthesia (DoA) is critical in clinical surgery. Indices derived from electroencephalogram (EEG) are currently widely used to quantify DoA. However, there are known to be inaccurate under certain conditions; therefore, experienced anaesthesiologists...

["Anaesthesiology and Pain Management","Statistics","Computational Science"]
doi:10.7717/peerj.4067
23 downloads
100 views

Aims Periodontitis and psoriatic disease, including psoriasis (PS) and psoriatic arthritis (PsA), share the common risk factors and co-morbidities. However, the risk of periodontitis in patients with psoriatic disease still needs further investigation. This study...

["Dentistry","Dermatology","Epidemiology","Public Health","Rheumatology"]
doi:10.7717/peerj.4064
29 downloads
198 views

Brain activity during sleep is fairly ubiquitous and the best studied possible function is a role in memory consolidation, including motor memory. One suggested mechanism of how neural activity effects these benefits is through reactivation of neurons in patterns...

["Animal Behavior","Neuroscience","Computational Science"]
doi:10.7717/peerj.4052

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