Peer-reviewed Articles - Biology

16 downloads
144 views

Identifying the pathways that control a cellular phenotype is the first step to building a mechanistic model. Recent examples in developmental biology, cancer genomics, and neurological disease have demonstrated how changes in the variability of gene expression...

["Bioinformatics","Cell Biology","Statistics"]
doi:10.7717/peerj.3334
92 downloads
554 views

Background Fast, accurate and high-throughput identification of bacterial isolates is in great demand. The present work was conducted to investigate the possibility of identifying isolates from unassembled next-generation sequencing reads using custom-made guide...

["Bioinformatics","Computational Biology","Microbiology"]
doi:10.7717/peerj.3353
33 downloads
212 views

The dynamics and conformational landscape of proteins in organic solvents are events of potential interest in nonaqueous process catalysis. Conformational changes, folding transitions, and stability often correspond to structural rearrangements that alter contacts...

["Bioinformatics","Computational Biology"]
doi:10.7717/peerj.3341
31 downloads
125 views

Coptis chinensis Franch., the Chinese goldthread (‘Weilian’ in Chinese), one of the most important medicinal plants from the family Ranunculaceae, and its rhizome has been widely used in Traditional Chinese Medicine for centuries. Here, we analyzed the chemical...

["Biochemistry","Bioinformatics","Computational Biology","Plant Science"]
doi:10.7717/peerj.3303
133 downloads
637 views

Sequencing environmental DNA (eDNA) is increasingly being used as an alternative to traditional morphological-based identification to characterize biological assemblages and monitor anthropogenic impacts in marine environments. Most studies only assess eDNA which,...

["Bioinformatics","Environmental Sciences","Marine Biology","Molecular Biology"]
doi:10.7717/peerj.3347
30 downloads
236 views

Background Phoebe chekiangensis is a rare tree species that is only distributed in south-eastern China. Although this species is famous for its excellent wood properties, it has not been extensively studied at the molecular level. Results Here, the transcriptome...

["Bioinformatics","Genomics","Molecular Biology","Plant Science"]
doi:10.7717/peerj.3193
58 downloads
607 views

Obstructive sleep apnea syndrome (OSAS) is a common clinical condition. The way that OSAS risk factors associate and converge is not a random process. As such, defining OSAS phenotypes fosters personalized patient management and population screening. In this paper,...

["Bioinformatics","Computational Biology","Health Policy","Respiratory Medicine","Computational Science"]
doi:10.7717/peerj.3289
137 downloads
713 views

Taxonomic classification of archaeal and bacterial viruses is challenging, yet also fundamental for developing a predictive understanding of microbial ecosystems. Recent identification of hundreds of thousands of new viral genomes and genome fragments, whose hosts...

["Bioinformatics","Genomics","Taxonomy","Virology"]
doi:10.7717/peerj.3243
77 downloads
597 views

Metagenomics-based studies have provided insight into many of the complex microbial communities responsible for maintaining life on this planet. Sequencing efforts often uncover novel genetic content; this is most evident for phage communities, in which upwards...

["Bioinformatics","Computational Biology","Microbiology","Virology"]
doi:10.7717/peerj.3281
69 downloads
237 views

Background Nutritional programming takes place in early development. Variation in the quality and/or quantity of nutrients in early development can influence long-term health and viability. However, little is known about the mechanisms of nutritional programming....

["Animal Behavior","Bioinformatics","Evolutionary Studies","Genetics","Metabolic Sciences"]
doi:10.7717/peerj.3275
41 downloads
239 views

Background Individuals with type 2 diabetes are at an increased risk of cardiovascular disease. Alterations in circulating lipid levels, total cholesterol (TC), low-density lipoprotein (LDL), high-density lipoprotein (HDL), and triglycerides (TG) are heritable...

["Bioinformatics","Genomics","Diabetes and Endocrinology","Translational Medicine","Metabolic Sciences"]
doi:10.7717/peerj.3187
47 downloads
254 views

Protein post-translational modification (PTM) is an important mechanism that is involved in the regulation of protein function. Considering the high-cost and labor-intensive of experimental identification, many computational prediction methods are currently available...

["Bioinformatics","Computational Biology"]
doi:10.7717/peerj.3261
72 downloads
537 views

Background The human microbiota plays a key role in health and disease, and bacteriocins, which are small, bacterially produced, antimicrobial peptides, are likely to have an important function in the stability and dynamics of this community. Here we examined the...

["Biodiversity","Bioinformatics","Microbiology"]
doi:10.7717/peerj.3254
62 downloads
266 views

Pantoea stewartii subsp. stewartii is a bacterial phytopathogen that causes Stewart’s wilt disease in corn. It uses quorum sensing to regulate expression of some genes involved in virulence in a cell density-dependent manner as the bacterial population grows from...

["Bioinformatics","Microbiology","Plant Science"]
doi:10.7717/peerj.3237
41 downloads
274 views

Streptococcus pyogenes group A Streptococcus (GAS) is the most common cause of bacterial throat infections, and can cause mild to severe skin and soft tissue infections, including impetigo, erysipelas, necrotizing fasciitis, as well as systemic and fatal infections...

["Bioinformatics","Genomics","Microbiology","Infectious Diseases","Public Health"]
doi:10.7717/peerj.3226

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